Title: Parse and Render Molecular Structures in 3D
Description: Downloads and parses 'SDF' (Structural Description Format) and 'PDB' (Protein Database) files for 3D rendering.
Author: Tyler Morgan-Wall [aut, cph, cre]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between raymolecule versions 0.5.3 dated 2024-02-21 and 0.9.0 dated 2026-06-26
raymolecule-0.5.3/raymolecule/R/run_documentation.R |only raymolecule-0.5.3/raymolecule/R/utils-pipe.R |only raymolecule-0.5.3/raymolecule/man/pipe.Rd |only raymolecule-0.5.3/raymolecule/man/run_documentation.Rd |only raymolecule-0.9.0/raymolecule/DESCRIPTION | 20 raymolecule-0.9.0/raymolecule/MD5 | 56 raymolecule-0.9.0/raymolecule/NAMESPACE | 7 raymolecule-0.9.0/raymolecule/R/convert_color.R | 27 raymolecule-0.9.0/raymolecule/R/download_pdb.R |only raymolecule-0.9.0/raymolecule/R/generate_atom_scene.R | 175 raymolecule-0.9.0/raymolecule/R/generate_bond_scene.R | 457 -- raymolecule-0.9.0/raymolecule/R/generate_full_scene.R | 344 - raymolecule-0.9.0/raymolecule/R/generate_ribbon_scene.R |only raymolecule-0.9.0/raymolecule/R/get_example_molecule.R | 25 raymolecule-0.9.0/raymolecule/R/get_molecule.R | 101 raymolecule-0.9.0/raymolecule/R/read_pdb.R | 2034 +++++++++- raymolecule-0.9.0/raymolecule/R/read_sdf.R | 93 raymolecule-0.9.0/raymolecule/R/render_model.R | 720 ++- raymolecule-0.9.0/raymolecule/R/ribbon_helpers.R |only raymolecule-0.9.0/raymolecule/R/util.R | 28 raymolecule-0.9.0/raymolecule/inst/extdata/4fsp_assembly-1.jpeg |only raymolecule-0.9.0/raymolecule/man/download_pdb.Rd |only raymolecule-0.9.0/raymolecule/man/generate_atom_scene.Rd | 89 raymolecule-0.9.0/raymolecule/man/generate_bond_scene.Rd | 94 raymolecule-0.9.0/raymolecule/man/generate_full_scene.Rd | 104 raymolecule-0.9.0/raymolecule/man/generate_ribbon_scene.Rd |only raymolecule-0.9.0/raymolecule/man/get_molecule.Rd | 53 raymolecule-0.9.0/raymolecule/man/read_pdb.Rd | 88 raymolecule-0.9.0/raymolecule/man/read_sdf.Rd | 4 raymolecule-0.9.0/raymolecule/man/render_model.Rd | 198 raymolecule-0.9.0/raymolecule/tests |only 31 files changed, 3620 insertions(+), 1097 deletions(-)
Title: Visualizes Preferential Data in One and More Contests
Description: A visualization toolkit for preferential data, such as ranked-choice election results, tournament outcomes,
and survey responses. The package provides methods to visualise the preference distribution of one contest with
bar charts and pairwise comparisons of two contestants, as well as methods to visualise multiple contests through
2D and high-dimensional simplex plots both statically and interactively. HD simplex displays are implemented via projection
methods using the 'tourr' and 'detourr' packages, enabling dynamic exploration of high-dimensional preference structure.
For more details on HD simplex projection, see Wickham et al. (2011) <doi:10.21105/joss.03419>.
Author: Linh Ngo [aut, cre],
Dianne Cook [aut] ,
Damjan Vukcevic [aut]
Maintainer: Linh Ngo <linhngo66.work@gmail.com>
Diff between prefviz versions 0.1.2 dated 2026-05-01 and 0.1.3 dated 2026-06-26
DESCRIPTION | 6 MD5 | 18 +- NEWS.md | 4 R/quick_plots.R | 6 README.md | 235 ++++++++++++++++-------------- inst/doc/add_ordered_path.html | 2 inst/doc/draw_ternary_plot.html | 4 man/figures/README-dop-bar-1.png |only man/figures/README-pairwise-heatmap-1.png |only man/figures/README-ternary-2d-1.png |only man/figures/README-ternary-hd-1.png |only man/figures/README-ternary-hd-2.png |only man/figures/prefviz-sticker.png |only 13 files changed, 155 insertions(+), 120 deletions(-)
Title: Spatial Projection of Network Signals along Geodesic Paths
Description: For a given graph containing vertices, edges, and a signal
associated with the vertices, the 'PathwaySpace' package performs a convolution
operation, which involves a weighted combination of neighboring vertices and
their associated signals. The package uses a decay function to project these
signals, creating geodesic paths on a 2D-image space. 'PathwaySpace' has various
applications, such as visualizing network data in a graphical format that
highlights the relationships and signal strengths between vertices. By
combining graph theory, signal processing, and visualization, 'PathwaySpace'
provides a way of representing graph data on a continuous projection space.
Based on methods introduced in Tercan et al. (2025)
<doi:10.1016/j.xpro.2025.103681> and Ellrott et al. (2025)
<doi:10.1016/j.ccell.2024.12.002>.
Author: Sysbiolab Team [aut],
Victor Apolonio [ctb],
Jonathan Back [ctb],
Lana Querne [ctb],
Vinicius Chagas [ctb],
Bahar Tercan [ctb],
Mauro Castro [cre]
Maintainer: Mauro Castro <mauro.a.castro@gmail.com>
Diff between PathwaySpace versions 1.3.0 dated 2026-05-23 and 1.4.1 dated 2026-06-26
PathwaySpace-1.3.0/PathwaySpace/R/pspaceChecks.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceClasses.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceDecay.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceGenerics.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceMethods.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceMisc.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspacePlots.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceSupplements.R |only PathwaySpace-1.3.0/PathwaySpace/R/pspaceWatershed.R |only PathwaySpace-1.3.0/PathwaySpace/man/signalDecay.Rd |only PathwaySpace-1.4.1/PathwaySpace/DESCRIPTION | 19 - PathwaySpace-1.4.1/PathwaySpace/MD5 | 108 +++++----- PathwaySpace-1.4.1/PathwaySpace/NAMESPACE | 15 + PathwaySpace-1.4.1/PathwaySpace/R/annotation-pspace.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-checks.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-classes.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-decay.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-generics.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-methods.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-misc.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-plots.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-supplements.R |only PathwaySpace-1.4.1/PathwaySpace/R/pspace-watershed.R |only PathwaySpace-1.4.1/PathwaySpace/inst/CITATION | 2 PathwaySpace-1.4.1/PathwaySpace/inst/NEWS.Rd | 8 PathwaySpace-1.4.1/PathwaySpace/inst/doc/PathwaySpace.R | 46 +--- PathwaySpace-1.4.1/PathwaySpace/inst/doc/PathwaySpace.Rmd | 69 +++--- PathwaySpace-1.4.1/PathwaySpace/inst/doc/PathwaySpace.html | 86 +++---- PathwaySpace-1.4.1/PathwaySpace/man/CGC_20211118.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/Hallmarks_v2023_1_Hs_symbols.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/PCv12_pruned_igraph.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/PathwaySpace-accessors.Rd | 12 - PathwaySpace-1.4.1/PathwaySpace/man/PathwaySpace-class.Rd | 40 ++- PathwaySpace-1.4.1/PathwaySpace/man/PathwaySpace-package.Rd | 37 --- PathwaySpace-1.4.1/PathwaySpace/man/SpaceProjection-class.Rd |only PathwaySpace-1.4.1/PathwaySpace/man/annotation_pspace_signal.Rd |only PathwaySpace-1.4.1/PathwaySpace/man/buildPathwaySpace.Rd | 10 PathwaySpace-1.4.1/PathwaySpace/man/circularProjection-methods.Rd | 29 +- PathwaySpace-1.4.1/PathwaySpace/man/expDecay.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/getNearestNode.Rd | 7 PathwaySpace-1.4.1/PathwaySpace/man/getPathwaySpace-methods.Rd | 6 PathwaySpace-1.4.1/PathwaySpace/man/gimage.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/linearDecay.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/pathDistances.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/plotPathDistances.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/plotPathwaySpace-methods.Rd | 16 - PathwaySpace-1.4.1/PathwaySpace/man/polarDecay.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/polarProjection-methods.Rd | 64 ++++- PathwaySpace-1.4.1/PathwaySpace/man/pspace.cols.Rd | 6 PathwaySpace-1.4.1/PathwaySpace/man/pspace.pals.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/signalAggregation.Rd | 30 ++ PathwaySpace-1.4.1/PathwaySpace/man/silhouetteMapping-methods.Rd | 6 PathwaySpace-1.4.1/PathwaySpace/man/summitMapping-methods.Rd | 12 - PathwaySpace-1.4.1/PathwaySpace/man/summitWatershed.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/man/updatePathwaySpace.Rd |only PathwaySpace-1.4.1/PathwaySpace/man/vertexSignal-accessors.Rd | 64 +++++ PathwaySpace-1.4.1/PathwaySpace/man/weibullDecay.Rd | 2 PathwaySpace-1.4.1/PathwaySpace/tests/testthat/test-PathwaySpace.R | 4 PathwaySpace-1.4.1/PathwaySpace/tests/testthat/test-projections.R |only PathwaySpace-1.4.1/PathwaySpace/vignettes/PathwaySpace.Rmd | 69 +++--- PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig2.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig3.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig4.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig5.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig6.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig7.png |binary PathwaySpace-1.4.1/PathwaySpace/vignettes/figures/fig8.png |binary 67 files changed, 460 insertions(+), 329 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ctb],
Paola Sebastiani [ctb],
Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.93 dated 2026-05-18 and 2.0.94 dated 2026-06-26
DESCRIPTION | 8 +++--- MD5 | 18 +++++++-------- NEWS | 8 ++++++ R/zORscore.R | 5 ++-- R/zlimit.R | 42 +++++++++++++++++++++++------------ inst/doc/epiR_descriptive_epi.html | 16 ++++++------- inst/doc/epiR_diagnostic_tests.html | 21 +++++++++-------- inst/doc/epiR_measures_of_assoc.html | 12 +++++----- inst/doc/epiR_sample_size.html | 4 +-- inst/doc/epiR_surveillance.html | 14 +++++------ 10 files changed, 86 insertions(+), 62 deletions(-)
Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis <doi:10.1016/j.earscirev.2018.11.015>. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut, cre],
Alberto Malinverno [ctb],
Linda Hinnov [ctb],
Christian Zeeden [ctb],
Huaran Liu [ctb],
Vincent Moron [ctb],
Michel Crucifix [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>
Diff between astrochron versions 1.6 dated 2026-02-25 and 1.7 dated 2026-06-26
astrochron-1.6/astrochron/R/FUNCTION-accum_v4.R |only astrochron-1.6/astrochron/R/FUNCTION-getData_v10.R |only astrochron-1.6/astrochron/R/FUNCTION-getLaskar_v4.R |only astrochron-1.6/astrochron/R/FUNCTION-timeOptBMCMCplot_v5.R |only astrochron-1.6/astrochron/R/FUNCTION-timeOptB_v5.R |only astrochron-1.7/astrochron/DESCRIPTION | 8 +-- astrochron-1.7/astrochron/MD5 | 34 ++++++------- astrochron-1.7/astrochron/NAMESPACE | 1 astrochron-1.7/astrochron/NEWS | 20 +++++++ astrochron-1.7/astrochron/R/FUNCTION-accum_v5.R |only astrochron-1.7/astrochron/R/FUNCTION-getData_v11.R |only astrochron-1.7/astrochron/R/FUNCTION-getLaskar_v5.R |only astrochron-1.7/astrochron/R/FUNCTION-hoangPriors.R |only astrochron-1.7/astrochron/R/FUNCTION-timeOptBMCMCplot_v7.R |only astrochron-1.7/astrochron/R/FUNCTION-timeOptB_v6.R |only astrochron-1.7/astrochron/R/startupMessage.R | 4 - astrochron-1.7/astrochron/man/accum.Rd | 3 - astrochron-1.7/astrochron/man/astrochron-package.Rd | 4 - astrochron-1.7/astrochron/man/getData.Rd | 2 astrochron-1.7/astrochron/man/hoangPriors.Rd |only astrochron-1.7/astrochron/man/timeOptB.Rd | 18 ++++++ astrochron-1.7/astrochron/man/timeOptBMCMC.Rd | 21 ++++++++ astrochron-1.7/astrochron/man/timeOptBMCMCplot.Rd | 21 ++++++++ astrochron-1.7/astrochron/man/timeOptBSim.Rd | 18 ++++++ 24 files changed, 127 insertions(+), 27 deletions(-)
Title: Simulation Tools for Planning Vitamin D Studies
Description: Simulation tools for planning Vitamin D studies. Individual vitamin D status
profiles are simulated, modelling population heterogeneity in trial arms.
Exposures to infectious agents are generated, with infection depending on vitamin D status.
Author: Rebecca Mangan [aut],
Jason Wyse [aut, cre],
Lina Zgaga [aut]
Maintainer: Jason Wyse <wyseja@tcd.ie>
Diff between SimVitD versions 1.0.3 dated 2023-08-20 and 1.0.4 dated 2026-06-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/power.calc.R | 1 + build/vignette.rds |binary inst/doc/SimVitD.pdf |binary 6 files changed, 13 insertions(+), 8 deletions(-)
Title: Treatment Switching
Description: Implements rank preserving structural failure time model (RPSFTM), iterative parameter estimation (IPE), inverse probability of censoring weights (IPCW), marginal structural model (MSM), simple two-stage estimation (TSEsimp), and improved two-stage estimation with g-estimation (TSEgest) methods for treatment switching in randomized clinical trials.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between trtswitch versions 0.2.6 dated 2026-05-26 and 0.2.7 dated 2026-06-25
DESCRIPTION | 6 - MD5 | 64 ++++++++--------- NEWS.md | 16 ++++ R/ipcw.R | 5 + R/ipe.R | 9 ++ R/msm.R | 5 + R/phregr.R | 2 R/plot.ipcw.R | 5 - R/plot.ipe.R | 5 - R/plot.msm.R | 5 - R/plot.rpsftm.R | 5 - R/plot.tsegest.R | 5 - R/plot.tsesimp.R | 5 - R/rpsftm.R | 25 +++++- R/trtswitch-package.R | 16 ++-- R/tsegest.R | 36 +++++++-- man/figures/logo.svg | 172 ++++++++++++++++++++++++++++++++++++++-------- man/ipe.Rd | 9 ++ man/rpsftm.Rd | 25 +++++- man/tsegest.Rd | 25 +++++- src/RcppExports.cpp | 16 ++-- src/ipcw.cpp | 29 +++---- src/ipe.cpp | 1 src/msm.cpp | 33 ++++---- src/rpsftm.cpp | 1 src/splines.cpp | 29 ++++++- src/survival_analysis.cpp | 57 +++++++++++---- src/survival_analysis.h | 14 +-- src/tsegest.cpp | 27 ++++--- src/tsesimp.cpp | 8 +- src/tssim.cpp | 7 + src/utilities.cpp | 4 - src/utilities.h | 12 +-- 33 files changed, 482 insertions(+), 201 deletions(-)
Title: Tidy Finance Helper Functions
Description: Helper functions for empirical research in financial
economics, addressing a variety of topics covered in Scheuch, Voigt,
and Weiss (2023) <doi:10.1201/b23237>. The package is designed to
provide shortcuts for issues extensively discussed in the book,
facilitating easier application of its concepts. For more information
and resources related to the book, visit
<https://www.tidy-finance.org/r/index.html>.
Author: Christoph Scheuch [aut, cre, cph] ,
Stefan Voigt [aut, cph] ,
Patrick Weiss [aut, cph] ,
Maximilian Muecke [ctb]
Maintainer: Christoph Scheuch <christoph@tidy-intelligence.com>
Diff between tidyfinance versions 0.6.0 dated 2026-05-31 and 0.7.0 dated 2026-06-25
tidyfinance-0.6.0/tidyfinance/R/global_variables.R |only tidyfinance-0.7.0/tidyfinance/DESCRIPTION | 11 tidyfinance-0.7.0/tidyfinance/MD5 | 99 +- tidyfinance-0.7.0/tidyfinance/NEWS.md | 27 tidyfinance-0.7.0/tidyfinance/R/add_lagged_columns.R | 8 tidyfinance-0.7.0/tidyfinance/R/assign_portfolio.R | 2 tidyfinance-0.7.0/tidyfinance/R/compute_breakpoints.R | 2 tidyfinance-0.7.0/tidyfinance/R/compute_long_short_returns.R | 16 tidyfinance-0.7.0/tidyfinance/R/compute_portfolio_returns.R | 36 tidyfinance-0.7.0/tidyfinance/R/compute_rolling_value.R | 2 tidyfinance-0.7.0/tidyfinance/R/download_data.R | 156 ++- tidyfinance-0.7.0/tidyfinance/R/download_data_constituents.R | 110 +- tidyfinance-0.7.0/tidyfinance/R/download_data_factors.R | 38 tidyfinance-0.7.0/tidyfinance/R/download_data_fred.R | 4 tidyfinance-0.7.0/tidyfinance/R/download_data_huggingface.R | 32 tidyfinance-0.7.0/tidyfinance/R/download_data_macro_predictors.R | 68 - tidyfinance-0.7.0/tidyfinance/R/download_data_osap.R | 4 tidyfinance-0.7.0/tidyfinance/R/download_data_pseudo_ccm_links.R | 2 tidyfinance-0.7.0/tidyfinance/R/download_data_pseudo_compustat.R | 94 +- tidyfinance-0.7.0/tidyfinance/R/download_data_pseudo_crsp.R | 64 - tidyfinance-0.7.0/tidyfinance/R/download_data_risk_free.R | 2 tidyfinance-0.7.0/tidyfinance/R/download_data_wrds_ccm_links.R | 7 tidyfinance-0.7.0/tidyfinance/R/download_data_wrds_compustat.R | 154 ++- tidyfinance-0.7.0/tidyfinance/R/download_data_wrds_crsp.R | 441 +++++----- tidyfinance-0.7.0/tidyfinance/R/download_data_wrds_fisd.R | 84 - tidyfinance-0.7.0/tidyfinance/R/download_data_wrds_trace_enhanced.R | 221 ++--- tidyfinance-0.7.0/tidyfinance/R/estimate_betas.R | 254 +++-- tidyfinance-0.7.0/tidyfinance/R/estimate_fama_macbeth.R | 20 tidyfinance-0.7.0/tidyfinance/R/estimate_model.R | 2 tidyfinance-0.7.0/tidyfinance/R/filter_sorting_data.R | 4 tidyfinance-0.7.0/tidyfinance/R/join_lagged_values.R | 6 tidyfinance-0.7.0/tidyfinance/R/list_supported_datasets.R | 14 tidyfinance-0.7.0/tidyfinance/R/open_tidy_finance_website.R | 2 tidyfinance-0.7.0/tidyfinance/R/simulate_pseudo_data.R | 39 tidyfinance-0.7.0/tidyfinance/README.md | 32 tidyfinance-0.7.0/tidyfinance/man/assign_portfolio.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/compute_breakpoints.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/compute_rolling_value.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/download_data.Rd | 38 tidyfinance-0.7.0/tidyfinance/man/download_factor_library_grid.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/estimate_betas.Rd | 37 tidyfinance-0.7.0/tidyfinance/man/estimate_model.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/join_lagged_values.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/list_supported_datasets_pseudo.Rd | 4 tidyfinance-0.7.0/tidyfinance/man/open_tidy_finance_website.Rd | 2 tidyfinance-0.7.0/tidyfinance/man/tidyfinance-package.Rd | 2 tidyfinance-0.7.0/tidyfinance/tests/testthat/_snaps/list_supported_datasets.md | 8 tidyfinance-0.7.0/tidyfinance/tests/testthat/test-download_data.R | 55 - tidyfinance-0.7.0/tidyfinance/tests/testthat/test-download_data_wrds_crps.R | 22 tidyfinance-0.7.0/tidyfinance/tests/testthat/test-estimate_betas.R | 73 + tidyfinance-0.7.0/tidyfinance/tests/testthat/test-simulate_pseudo_data.R | 2 51 files changed, 1384 insertions(+), 928 deletions(-)
Title: Simulation-Based Power Analysis for Mixed-Effects Models
Description: A comprehensive, simulation-based toolkit for power and sample-size
analysis for linear and generalized linear mixed-effects models (LMMs and
GLMMs). Supports Gaussian, binomial, Poisson, and negative binomial families
via 'lme4'; Wald and likelihood-ratio tests; multi-parameter sensitivity
grids; power curves and minimum sample-size solvers; parallel evaluation with
deterministic seeds; and full reproducibility (manifests, result bundling,
and export to CSV/JSON). Delivers thorough diagnostics per run (failure rate,
singular-fit rate, effective N) and publication-ready summary tables.
References: Bates et al. (2015) "Fitting Linear Mixed-Effects Models Using
lme4" <doi:10.18637/jss.v067.i01>; Green and MacLeod (2016) "SIMR: an R
package for power analysis of generalized linear mixed models by simulation"
<doi:10.1111/2041-210X.12504>.
Author: Alex Litovchenko [aut, cre]
Maintainer: Alex Litovchenko <al4877@columbia.edu>
Diff between mixpower versions 0.1.0 dated 2026-02-12 and 1.1.1 dated 2026-06-25
mixpower-0.1.0/mixpower/R/utils-parallel.R |only mixpower-1.1.1/mixpower/DESCRIPTION | 15 mixpower-1.1.1/mixpower/MD5 | 231 +++- mixpower-1.1.1/mixpower/NAMESPACE | 43 mixpower-1.1.1/mixpower/NEWS.md | 198 +++ mixpower-1.1.1/mixpower/R/assumptions.R | 62 + mixpower-1.1.1/mixpower/R/backend-contract.R |only mixpower-1.1.1/mixpower/R/backend-glmmtmb.R |only mixpower-1.1.1/mixpower/R/backend-lme4-binomial.R | 80 - mixpower-1.1.1/mixpower/R/backend-lme4-nb.R | 73 - mixpower-1.1.1/mixpower/R/backend-lme4-poisson.R | 73 - mixpower-1.1.1/mixpower/R/backend-lme4.R | 110 +- mixpower-1.1.1/mixpower/R/calibrate.R |only mixpower-1.1.1/mixpower/R/checkpoint.R |only mixpower-1.1.1/mixpower/R/compare-models.R |only mixpower-1.1.1/mixpower/R/design.R | 105 +- mixpower-1.1.1/mixpower/R/diagnostics-power.R |only mixpower-1.1.1/mixpower/R/effect-size.R |only mixpower-1.1.1/mixpower/R/extend.R |only mixpower-1.1.1/mixpower/R/from-fit.R |only mixpower-1.1.1/mixpower/R/missing.R |only 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Title: Various Methods for the Goodness-of-Fit Problem in D>1
Dimensions
Description: The routine gof_test() in this package runs the
goodness-of-fit test using various test statistic for multivariate data.
Models under the null hypothesis can either be simple or allow for parameter estimation.
p values are found via the parametric bootstrap (simulation).
The routine gof_test_adjusted_pvalues() runs several tests and then finds a
p value adjusted for simultaneous inference.
The routine gof_power() allows the estimation of the power of the tests.
hybrid_test() and hybrid_power() do the same by first generating a Monte Carlo data set under
the null hypothesis and then running a number of two-sample methods.
The routine run.studies() allows a user to quickly study the power of a new method and
how it compares to those included in the package via a large number of case studies.
For details of the methods and references see the included vignettes.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>
Diff between MDgof versions 1.0.1 dated 2026-06-03 and 1.0.2 dated 2026-06-25
DESCRIPTION | 6 MD5 | 26 +- NEWS.md | 4 R/case.studies.cont.R | 7 R/gof_power.R | 266 +++++++++++++++++++----------- R/gof_test.R | 240 +++++++++++++++++---------- R/gof_test_adjusted_pvalue.R | 308 ++++++++++++++++++++++++----------- R/hybrid_power.R | 137 +++++++++++---- R/hybrid_test.R | 160 +++++++++++++----- R/newTS.R | 26 +- R/run.studies.R | 339 +++++++++++++++++++++++++++------------ build/vignette.rds |binary inst/doc/MDgof-Case-Studies.html | 58 +++--- man/run.studies.Rd | 14 - 14 files changed, 1067 insertions(+), 524 deletions(-)
Title: Density Equality Testing
Description: Methods for testing the equality between groups of estimated
density functions. The package implements FDET (Fourier-based Density Equality
Testing) and MDET (Moment-based Density Equality Testing), two new approaches
introduced by the author. Both methods extend an earlier testing approach
by Delicado (2007), "Functional k-sample problem when data are density functions"
<doi:10.1007/s00180-007-0047-y>, which is referred to as DET (Density Equality
Testing) in this package for clarity. FDET compares groups of densities
based on their global shape using Fourier transforms, while MDET tests for
differences in distributional moments. All methods are described in Anarat,
Krutmann and Schwender (2025), "Testing for Differences in Extrinsic Skin Aging
Based on Density Functions" (Submitted).
Author: Akin Anarat [aut, cre]
Maintainer: Akin Anarat <akin.anarat@hhu.de>
Diff between denstest versions 1.0.0 dated 2025-05-16 and 1.0.1 dated 2026-06-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 11 ++++++----- R/permute_groups.R | 21 ++++++++++++++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Introduction_to_denstest.html | 7 ++++--- 7 files changed, 40 insertions(+), 19 deletions(-)
Title: Sparse Principal Component Analysis with Multiple Principal
Components
Description: Implements an algorithm for computing multiple sparse principal
components of a dataset. The method is based on Cory-Wright and Pauphilet
"Sparse PCA with Multiple Principal Components" (2026)
<doi:10.1287/opre.2023.0598>. The algorithm uses an iterative deflation
heuristic with a truncated power method applied at each iteration to compute
sparse principal components with controlled sparsity.
Author: Ryan Cory-Wright [aut, cph] ,
Jean Pauphilet [aut, cre, cph]
Maintainer: Jean Pauphilet <jpauphilet@london.edu>
Diff between msPCA versions 0.4.1 dated 2026-06-12 and 0.5.0 dated 2026-06-25
msPCA-0.4.1/msPCA/man/print_mspca.Rd |only msPCA-0.5.0/msPCA/DESCRIPTION | 13 msPCA-0.5.0/msPCA/MD5 | 46 - msPCA-0.5.0/msPCA/NAMESPACE | 6 msPCA-0.5.0/msPCA/NEWS.md | 12 msPCA-0.5.0/msPCA/R/RcppExports.R | 8 msPCA-0.5.0/msPCA/R/main.R | 427 +++++++++++-- msPCA-0.5.0/msPCA/README.md | 61 + msPCA-0.5.0/msPCA/build/vignette.rds |binary msPCA-0.5.0/msPCA/inst/CITATION | 8 msPCA-0.5.0/msPCA/inst/doc/msPCA.R | 45 - msPCA-0.5.0/msPCA/inst/doc/msPCA.Rmd | 119 ++- msPCA-0.5.0/msPCA/inst/doc/msPCA.html | 240 ++++--- msPCA-0.5.0/msPCA/man/feasibility_violation_off.Rd | 12 msPCA-0.5.0/msPCA/man/figures |only msPCA-0.5.0/msPCA/man/fraction_variance_explained.Rd | 4 msPCA-0.5.0/msPCA/man/fraction_variance_explained_perPC.Rd | 4 msPCA-0.5.0/msPCA/man/mspca.Rd | 73 +- msPCA-0.5.0/msPCA/man/print.mspca.Rd |only msPCA-0.5.0/msPCA/man/summary.mspca.Rd |only msPCA-0.5.0/msPCA/man/tpm.Rd | 51 + msPCA-0.5.0/msPCA/man/variance_explained_perPC.Rd | 4 msPCA-0.5.0/msPCA/src/CovOperator.h |only msPCA-0.5.0/msPCA/src/RcppExports.cpp | 40 + msPCA-0.5.0/msPCA/src/msPCA_R_CPP.cpp | 245 ++++--- msPCA-0.5.0/msPCA/vignettes/msPCA.Rmd | 119 ++- 26 files changed, 1145 insertions(+), 392 deletions(-)
Title: Calculate Slopes of Roads, Rivers and Trajectories
Description: Calculates the slope (longitudinal gradient or steepness)
of linear geographic features such as roads (for more details, see Ariza-López et al. (2019)
<doi:10.1038/s41597-019-0147-x>) and rivers (for more details, see Cohen et al. (2018)
<doi:10.1016/j.jhydrol.2018.06.066>). It can use local Digital Elevation Model (DEM)
data or download DEM data via the 'ceramic' package. The package also provides functions
to add elevation data to linestrings and visualize elevation profiles.
Author: Robin Lovelace [aut, cre, cph] ,
Rosa Felix [aut] ,
Joey Talbot [aut] ,
Goncalo Matos [aut] ,
Dan Olner [rev] ,
Andy Teucher [rev]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between slopes versions 1.0.2 dated 2026-06-17 and 2.0.0 dated 2026-06-25
slopes-1.0.2/slopes/R/z-functions.R |only slopes-1.0.2/slopes/tests/testthat/test-get.R |only slopes-1.0.2/slopes/tests/testthat/test-z.R |only slopes-2.0.0/slopes/DESCRIPTION | 6 slopes-2.0.0/slopes/MD5 | 62 - slopes-2.0.0/slopes/NAMESPACE | 2 slopes-2.0.0/slopes/NEWS.md | 6 slopes-2.0.0/slopes/R/elevation.R |only slopes-2.0.0/slopes/R/palette.R | 52 + slopes-2.0.0/slopes/R/slope_get.R | 44 slopes-2.0.0/slopes/R/slopes.R | 86 - slopes-2.0.0/slopes/build/vignette.rds |binary slopes-2.0.0/slopes/inst/doc/benchmark.html | 12 slopes-2.0.0/slopes/inst/doc/intro-to-slopes.html | 2 slopes-2.0.0/slopes/inst/doc/slopes.R | 20 slopes-2.0.0/slopes/inst/doc/slopes.Rmd | 24 slopes-2.0.0/slopes/inst/doc/slopes.html | 60 - slopes-2.0.0/slopes/inst/doc/verification.R | 176 +-- slopes-2.0.0/slopes/inst/doc/verification.Rmd | 89 + slopes-2.0.0/slopes/inst/doc/verification.html | 449 ++++++---- slopes-2.0.0/slopes/man/elevation_add.Rd | 65 + slopes-2.0.0/slopes/man/elevation_extract.Rd | 2 slopes-2.0.0/slopes/man/elevation_get.Rd | 2 slopes-2.0.0/slopes/man/figures/README-elevationprofile-1.png |binary slopes-2.0.0/slopes/man/route_to_segments.Rd | 6 slopes-2.0.0/slopes/man/sf_mid_ext_lonlat.Rd | 5 slopes-2.0.0/slopes/man/slope_breaks.Rd |only slopes-2.0.0/slopes/man/slope_colors.Rd |only slopes-2.0.0/slopes/tests/testthat/Rplots.pdf |binary slopes-2.0.0/slopes/tests/testthat/test-elevation.R |only slopes-2.0.0/slopes/tests/testthat/test-plots.R | 12 slopes-2.0.0/slopes/tests/testthat/test-slope_get.R |only slopes-2.0.0/slopes/tests/testthat/test-slopes.R | 24 slopes-2.0.0/slopes/vignettes/slope-references.bib | 8 slopes-2.0.0/slopes/vignettes/slopes.Rmd | 24 slopes-2.0.0/slopes/vignettes/verification.Rmd | 89 + 36 files changed, 777 insertions(+), 550 deletions(-)
More information about mixedsubjectsirt at CRAN
Permanent link
Title: Crystallographic Information File (CIF) Data Processing Tools
Description: Provides a suite of functions to parse Crystallographic Information
Files (.cif), extracting essential data such as chemical formulas, unit cell
parameters, atomic coordinates, and symmetry operations. It also includes
tools to calculate interatomic distances, identify bonded pairs using various
algorithms (minimum_distance, brunner_nn_reciprocal, econ_nn, crystal_nn), determine nearest
neighbor counts, and calculate bond angles. The package is designed to
facilitate the preparation of crystallographic data for further analysis,
including machine learning applications in materials science.
Methods are described in:
Brunner (1977) <doi:10.1107/S0567739477000461>;
Hoppe (1979) <doi:10.1524/zkri.1979.150.14.23>;
O'Keeffe (1979) <doi:10.1107/S0567739479001765>;
Shannon (1976) <doi:10.1107/S0567739476001551>;
Pan et al. (2021) <doi:10.1021/acs.inorgchem.0c02996>;
Pauling (1960, ISBN:978-0801403330).
Author: Don Ngo [aut, cre] ,
Anirudh Prabhu [aut] ,
Julia-Maria Hubner [aut]
Maintainer: Don Ngo <dngo@carnegiescience.edu>
Diff between crystract versions 1.0.1 dated 2026-05-28 and 1.0.2 dated 2026-06-25
DESCRIPTION | 6 +- MD5 | 13 +++--- NEWS.md | 10 ++++ R/extract_cif_data.R | 8 +++ R/process_cif_files.R | 97 ++++++++++++++++++++++++++++++++++++------------ R/process_coordinates.R | 60 +++++++++++++---------------- inst/CITATION |only inst/doc/crystract.html | 24 +++++------ 8 files changed, 140 insertions(+), 78 deletions(-)
Title: Implementation of the Bayesian Discount Prior Approach for
Clinical Trials
Description: Functions for data augmentation using the Bayesian discount prior
method for single arm and two-arm clinical trials, as described in Haddad
et al. (2017) <doi:10.1080/10543406.2017.1300907>. The discount power prior
methodology was developed in collaboration with the The Medical Device
Innovation Consortium (MDIC) Computer Modeling & Simulation Working Group.
Author: Shawn Balcome [aut],
Donnie Musgrove [aut],
Tarek Haddad [aut],
Graeme L. Hickey [cre, aut] ,
Christopher Jackson [ctb]
Maintainer: Graeme L. Hickey <graemeleehickey@gmail.com>
Diff between bayesDP versions 1.3.7 dated 2025-01-12 and 1.3.8 dated 2026-06-25
DESCRIPTION | 15 +- MD5 | 77 ++++++------ NAMESPACE | 3 NEWS.md | 112 ++++++++++++++++++ R/RcppExports.R | 4 R/alpha_discount.R | 2 R/bdpbinomial.R | 22 +-- R/bdplm.R | 176 ++++++++++++---------------- R/bdplogit.R | 227 +++++++++++++++---------------------- R/bdpnormal.R | 40 +++--- R/bdpsurvival.R | 43 ++++--- R/model_matrix_bayes.R |only R/plot.R | 93 +++++++-------- R/ppexp.R | 31 ++++- R/summary.R | 12 + README.md | 147 ++++++++++++++++++++++- build/vignette.rds |binary inst/doc/bdpbinomial-vignette.R | 4 inst/doc/bdpbinomial-vignette.Rmd | 11 - inst/doc/bdpbinomial-vignette.html | 37 +++--- inst/doc/bdplm-vignette.R | 4 inst/doc/bdplm-vignette.Rmd | 13 -- inst/doc/bdplm-vignette.html | 56 ++++++--- inst/doc/bdpnormal-vignette.R | 4 inst/doc/bdpnormal-vignette.Rmd | 11 - inst/doc/bdpnormal-vignette.html | 37 +++--- inst/doc/bdpsurvival-vignette.R | 4 inst/doc/bdpsurvival-vignette.Rmd | 11 - inst/doc/bdpsurvival-vignette.html | 33 +++-- man/bdpbinomial.Rd | 12 + man/bdplm.Rd | 28 ++++ man/bdplogit.Rd | 48 ++++++- man/bdpnormal.Rd | 7 - man/bdpsurvival.Rd | 12 + src/RcppExports.cpp | 14 ++ src/ppexp.cpp | 21 +++ vignettes/bdpbinomial-vignette.Rmd | 11 - vignettes/bdplm-vignette.Rmd | 13 -- vignettes/bdpnormal-vignette.Rmd | 11 - vignettes/bdpsurvival-vignette.Rmd | 11 - 40 files changed, 854 insertions(+), 563 deletions(-)
Title: TDT Tests for Extended Haplotypes
Description: Functions and examples for transmission/disequilibrium tests for extended marker haplotypes, as described in Clayton and Jones (1999) <doi:10.1086/302566>.
Author: David Clayton [aut],
Jing Hua Zhao [cre]
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between tdthap versions 1.3 dated 2023-11-29 and 1.4 dated 2026-06-25
tdthap-1.3/tdthap/inst/doc/tdthap-paper.Rnw |only tdthap-1.3/tdthap/inst/doc/tdthap-paper.pdf |only tdthap-1.3/tdthap/vignettes/README |only tdthap-1.3/tdthap/vignettes/tdthap-paper.Rnw |only tdthap-1.4/tdthap/ChangeLog | 5 +++++ tdthap-1.4/tdthap/DESCRIPTION | 24 ++++++++++++------------ tdthap-1.4/tdthap/MD5 | 16 ++++++++-------- tdthap-1.4/tdthap/build/vignette.rds |binary tdthap-1.4/tdthap/inst/doc/README |only tdthap-1.4/tdthap/inst/doc/tdthap.Rnw |only tdthap-1.4/tdthap/inst/doc/tdthap.pdf |only tdthap-1.4/tdthap/inst/tests/references.txt | 3 +-- tdthap-1.4/tdthap/vignettes/tdthap.Rnw |only 13 files changed, 26 insertions(+), 22 deletions(-)
Title: Download 'Qualtrics' Survey Data
Description: Provides functions to access survey results directly into R
using the 'Qualtrics' API. 'Qualtrics'
<https://www.qualtrics.com/about/> is an online survey and data
collection software platform. See <https://api.qualtrics.com/> for
more information about the 'Qualtrics' API. This package is
community-maintained and is not officially supported by 'Qualtrics'.
Author: Jasper Ginn [aut],
Jackson Curtis [ctb],
Shaun Jackson [ctb],
Samuel Kaminsky [ctb],
Eric Knudsen [ctb],
Joseph O'Brien [aut],
Daniel Seneca [ctb],
Julia Silge [aut] ,
Phoebe Wong [ctb],
Adam Pilipshen [aut, cre]
Maintainer: Adam Pilipshen <martialmetrics@gmail.com>
Diff between qualtRics versions 3.2.2 dated 2025-08-22 and 3.3.0 dated 2026-06-25
DESCRIPTION | 18 ++++++----- MD5 | 26 ++++++++-------- NEWS.md | 19 ++++++++++++ R/all_mailinglists.R | 11 +++++- R/fetch_mailinglist.R | 17 ++++++++-- R/utils.R | 44 +++++++++++++++++++++++++-- R/zzz.R | 1 build/vignette.rds |binary inst/doc/qualtRics.html | 4 +- man/all_mailinglists.Rd | 6 +++ man/fetch_directory_id.Rd |only man/fetch_mailinglist.Rd | 12 +++++-- tests/testthat/test-all-mailinglists.R | 44 ++++++++++++++++++++++++--- tests/testthat/test-fetch-directory-id.R |only tests/testthat/test-fetch-mailinglist.R | 49 +++++++++++++++++++++++++------ 15 files changed, 202 insertions(+), 49 deletions(-)
Title: Robust Land-Use Optimization
Description: Robust multi-criteria land-allocation optimization that explicitly accounts for the uncertainty of the indicators in the objective function. Solves the problem of allocating scarce land to various land-use options with regard to multiple, coequal indicators. The method aims to find the land allocation that represents the indicator composition with the best possible trade-off under uncertainty. optimLanduse includes the actual optimization procedure as described by Knoke et al. (2016) <doi:10.1038/ncomms11877> and the post-hoc calculation of the portfolio performance as presented by Gosling et al. (2020) <doi:10.1016/j.jenvman.2020.110248>.
Author: Kai Husmann [aut, cre] ,
Volker von Gross [aut] ,
Jasper Fuchs [aut] ,
Kai Boedeker [aut] ,
Carola Paul [aut] ,
Thomas Knoke [aut] ,
Goettingen University - Forest Economics and Sustainable Land-use
Planning [cph, fnd],
TUM School of Life Sciences - Fo [...truncated...]
Maintainer: Kai Husmann <kai.husmann@uni-goettingen.de>
Diff between optimLanduse versions 1.2.1 dated 2024-02-21 and 2.0.0 dated 2026-06-25
DESCRIPTION | 22 LICENSE | 4 MD5 | 40 NAMESPACE | 33 NEWS.md | 72 - R/autoSearch.R | 380 +++++--- R/calcPerformance.R | 210 ++-- R/dataPreparation.R | 178 +-- R/examples.R | 86 - R/helper.R | 213 ++-- R/initScenario.R | 448 ++++----- R/solveScenario.R | 327 ++++--- README.md | 2240 ++++++++++++++++++++++++------------------------- build/partial.rdb |binary inst/CITATION | 48 - man/autoSearch.Rd | 166 +-- man/calcPerformance.Rd | 118 +- man/dataPreparation.Rd | 88 - man/exampleData.Rd | 76 - man/initScenario.Rd | 124 +- man/solveScenario.Rd | 108 +- 21 files changed, 2584 insertions(+), 2397 deletions(-)
Title: Bootstrap Unit Root Tests
Description: Set of functions to perform various bootstrap unit root tests for both individual time series
(including augmented Dickey-Fuller test and union tests), multiple time series and panel data; see
Smeekes and Wilms (2023) <doi:10.18637/jss.v106.i12>,
Palm, Smeekes and Urbain (2008) <doi:10.1111/j.1467-9892.2007.00565.x>,
Palm, Smeekes and Urbain (2011) <doi:10.1016/j.jeconom.2010.11.010>,
Moon and Perron (2012) <doi:10.1016/j.jeconom.2012.01.008>,
Smeekes and Taylor (2012) <doi:10.1017/S0266466611000387> and
Smeekes (2015) <doi:10.1111/jtsa.12110> for key references.
Author: Stephan Smeekes [cre, aut] ,
Ines Wilms [aut]
Maintainer: Stephan Smeekes <s.smeekes@maastrichtuniversity.nl>
Diff between bootUR versions 1.0.4 dated 2024-05-20 and 1.0.5 dated 2026-06-25
DESCRIPTION | 13 +- MD5 | 14 +- NEWS.md | 8 + R/adftest.R | 3 README.md | 2 build/vignette.rds |binary inst/doc/bootUR.R | 14 +- inst/doc/bootUR.html | 278 +++++++++++++++++++++++++-------------------------- 8 files changed, 171 insertions(+), 161 deletions(-)
Title: Dependencies for the 'jamovi' Framework
Description: A framework for creating rich interactive analyses for the jamovi
platform (see <https://www.jamovi.org> for more information).
Author: Jonathon Love [aut, cre, cph]
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmvcore versions 2.7.7 dated 2025-09-18 and 2.7.35 dated 2026-06-25
DESCRIPTION | 12 +-- MD5 | 23 ++++--- NAMESPACE | 3 R/action.R | 72 ++++++++++------------ R/analysis.R | 38 ++++++++--- R/html.R | 18 +++++ R/image.R | 132 +++++++++++++++++++++++++++++++---------- R/options.R | 113 ++++++++++++++++++++++++++++++++--- R/utils.R | 22 ++++++ R/validate.R |only inst/jamovi.proto | 8 +- man/asFormula.Rd |only man/htmlEscape.Rd |only man/validateSafeFormula.Rd |only tests/testthat/test-validate.R |only 15 files changed, 340 insertions(+), 101 deletions(-)
Title: Tools for Reading and Writing ISO/OGC Geographic Metadata
Description: Provides facilities to read, write and validate geographic metadata
defined with ISO TC211 / OGC ISO geographic information metadata standards, and
encoded using the ISO 19139 and ISO 19115-3 (XML) standard technical specifications.
This includes ISO 19110 (Feature cataloguing), 19115 (dataset metadata), 19119 (service metadata)
and 19136 (GML). Other interoperable schemas from the OGC are progressively supported
as well, such as the Sensor Web Enablement (SWE) Common Data Model, the OGC GML
Coverage Implementation Schema (GMLCOV), or the OGC GML Referenceable Grid (GMLRGRID).
Author: Emmanuel Blondel [aut, cre] ,
R Consortium [fnd]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geometa versions 0.10.0 dated 2026-06-16 and 0.10.1 dated 2026-06-25
DESCRIPTION | 8 MD5 | 14 README.md | 2 inst/extdata/schemas/19115/-1/gmd/gmd.xsd | 5 inst/extdata/schemas/19115/-3/gcx/1.0/extendedTypes.xsd | 3 inst/extdata/schemas/gml/referenceSystems.xsd | 3 inst/extdata/schemas/gmlcov/coverage.xsd | 372 ++++++++-------- inst/extdata/schemas/gmlcov/grids.xsd | 231 ++++----- 8 files changed, 322 insertions(+), 316 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2026)
<doi:10.1093/biostatistics/kxag006>, and a paper focused on the software is
in Scott, Axillus, Lewin and Izmirlian (2026) <doi:10.48550/arXiv.2408.04327>.
Author: Darren Scott [aut],
Sophia Axillus [aut],
Grant Izmirlian [aut, cre]
Maintainer: Grant Izmirlian <grant.izmirlian@astrazeneca.com>
Diff between BayesFBHborrow versions 2.0.9 dated 2026-06-20 and 2.0.10 dated 2026-06-25
DESCRIPTION | 6 - MD5 | 4 R/BayesFBHborrow.R | 225 ++++++++++++++++++++++++++++++++++++----------------- 3 files changed, 159 insertions(+), 76 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: Genome-Wide Nucleic Acid Melting Temperature Profiling and
Multi-Omics Integration
Description: Accurate calculation of nucleic acid melting temperature (Tm) is fundamental to many molecular biology applications, and this software scales Tm analysis from individual sequences to genome‑wide thermodynamic profiling. This package extends Tm analysis from simple sequence level computation to comprehensive genome-wide thermodynamic profiling. It takes multiple input formats including sequence strings, FASTA files, genomic coordinates. The implementation provides three Tm calculation methods: the Wallace rule (Thein & Wallace, 1986), empirical GC‑content formulas (Marmur, 1962; Schildkraut, 2010; Wetmur, 1991; Untergasser, 2012; von Ahsen, 2001), and nearest‑neighbor thermodynamics (Breslauer, 1986; Sugimoto, 1996; Allawi, 1998; SantaLucia, 2004; Freier, 1986; Xia, 1998; Chen, 2012; Bommarito, 2000; Turner, 2010; Sugimoto, 1995; Allawi, 1997; SantaLucia, 2005). Corrections are supported for salt ions (SantaLucia, 1996, 1998; Owczarzy, 2004, 2008) and for chemical conditions such as [...truncated...]
Author: Junhui Li [cre, aut] ,
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <ljh.biostat@gmail.com>
Diff between TmCalculator versions 1.0.6 dated 2026-06-13 and 1.0.7 dated 2026-06-25
TmCalculator-1.0.6/TmCalculator/man/salt_correction.Rd |only TmCalculator-1.0.7/TmCalculator/DESCRIPTION | 10 TmCalculator-1.0.7/TmCalculator/MD5 | 32 TmCalculator-1.0.7/TmCalculator/NAMESPACE | 2 TmCalculator-1.0.7/TmCalculator/R/plot_genome_track.R | 126 ++- TmCalculator-1.0.7/TmCalculator/R/salt_correction.R | 6 TmCalculator-1.0.7/TmCalculator/R/thermodynamic_gc_params.R | 4 TmCalculator-1.0.7/TmCalculator/R/tm_gc.R | 8 TmCalculator-1.0.7/TmCalculator/R/tm_nn.R | 2 TmCalculator-1.0.7/TmCalculator/R/zzz.R | 2 TmCalculator-1.0.7/TmCalculator/data/thermodynamic_gc_params.RData |binary TmCalculator-1.0.7/TmCalculator/inst/doc/genome_wide_tm_ecoli.R | 18 TmCalculator-1.0.7/TmCalculator/inst/doc/genome_wide_tm_ecoli.Rmd | 43 - TmCalculator-1.0.7/TmCalculator/inst/doc/genome_wide_tm_ecoli.html | 341 +++++----- TmCalculator-1.0.7/TmCalculator/man/salt_correct.Rd |only TmCalculator-1.0.7/TmCalculator/man/thermodynamic_gc_params.Rd | 2 TmCalculator-1.0.7/TmCalculator/man/tm_gc.Rd | 2 TmCalculator-1.0.7/TmCalculator/vignettes/genome_wide_tm_ecoli.Rmd | 43 - 18 files changed, 368 insertions(+), 273 deletions(-)
Title: Query 'SWI'-'Prolog' from R
Description: This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).
Author: Matthias Gondan [aut, com, cre] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rolog versions 0.9.27 dated 2026-06-18 and 0.9.28 dated 2026-06-25
DESCRIPTION | 14 +-- MD5 | 18 ++-- NEWS.md | 5 + R/plbase.R | 28 ++++++- R/rolog.R | 5 - inst/doc/rolog.R | 198 ++++++++++++++++++++++++++++++++++++------------- inst/doc/rolog.Rmd | 207 +++++++++++++++++++++++++++++++++++++--------------- inst/doc/rolog.html | 84 +++++++++++---------- src/rolog.cpp | 85 +++++++-------------- vignettes/rolog.Rmd | 207 +++++++++++++++++++++++++++++++++++++--------------- 10 files changed, 567 insertions(+), 284 deletions(-)
More information about QuantileModels at CRAN
Permanent link
Title: Inbreeding-Purging Estimation in Pedigreed Populations
Description: Inbreeding-purging analysis of pedigreed populations, including the computation of the inbreeding coefficient, partial, ancestral and purged inbreeding coefficients, and measures of the opportunity of purging related to the individual reduction of inbreeding load.
In addition, functions to calculate the effective population size and other parameters relevant to population genetics are included.
See López-Cortegano E. (2022) <doi:10.1093/bioinformatics/btab599>.
Author: Eugenio Lopez-Cortegano [aut, cre]
Maintainer: Eugenio Lopez-Cortegano <elcortegano@protonmail.com>
Diff between purgeR versions 1.8.2 dated 2023-11-28 and 1.8.3 dated 2026-06-25
DESCRIPTION | 34 - MD5 | 93 +- NEWS.md | 4 R/check.R | 105 +++ R/expected.R | 57 + R/fitness.R | 6 R/inbreeding.R | 14 R/load.R |only R/maternal.R | 2 R/partial.R | 138 ++-- R/purgeR.R | 3 R/rename.R | 4 R/shiny.R |only R/time.R |only build/vignette.rds |binary data/arrui.rda |binary data/atlas.rda |binary data/dama.rda |binary data/darwin.rda |binary data/dorcas.rda |binary inst/doc/ip.R | 122 +-- inst/doc/ip.html | 1092 ++++++++++++++++++++++----------- inst/doc/purgeR-tutorial.R | 20 inst/doc/purgeR-tutorial.Rmd | 8 inst/doc/purgeR-tutorial.html | 1254 +++++++++++++++++++++++++++------------ inst/shiny/README.md |only inst/shiny/app.R |only inst/shiny/color.R |only inst/shiny/map.R |only inst/shiny/styles.css |only inst/shiny/utils.R |only man/check_B.Rd |only man/check_F.Rd |only man/check_d.Rd | 12 man/check_h.Rd |only man/check_null.Rd |only man/check_s.Rd |only man/check_u.Rd |only man/exp_g.Rd | 18 man/ip_Fa.Rd | 2 man/ip_Fij.Rd | 2 man/ip_g.Rd | 14 man/w_grandoffspring.Rd | 2 man/w_offspring.Rd | 2 src/genedrop.cpp | 20 src/inbreeding.cpp | 24 src/inbreeding_utils.cpp | 15 src/inbreeding_utils.h | 47 - src/mating.cpp | 8 src/opurging.cpp | 85 +- src/partial.cpp | 12 src/populationSize.cpp | 28 tests/testthat/test_expected.R | 27 tests/testthat/test_inbreeding.R | 5 vignettes/purgeR-tutorial.Rmd | 8 55 files changed, 2198 insertions(+), 1089 deletions(-)
Title: A Native Lazy Analytical Backend for MongoDB
Description: Provides a disciplined, lazy subset of 'dplyr' semantics for
MongoDB aggregation pipelines. Queries remain lazy until collect() and
compile into MongoDB-native aggregation stages.
Author: Paolo Bosetti [aut, cre]
Maintainer: Paolo Bosetti <paolo.bosetti@unitn.it>
Diff between mdbplyr versions 0.3.0 dated 2026-04-22 and 0.4.0 dated 2026-06-25
DESCRIPTION | 8 MD5 | 59 ++++--- NAMESPACE | 7 NEWS.md |only R/compile-pipeline.R | 70 ++++++-- R/mongo_src.R | 20 ++ R/package.R | 6 R/server-version.R |only R/tbl_mongo.R | 6 R/translate-agg.R | 84 ++++++++-- R/translate-expr.R | 25 +++ R/verbs-across.R |only R/verbs-group-summarise.R | 91 +++++++++-- R/verbs-join.R |only R/verbs-mutate.R | 126 +++++++++++---- R/verbs-select.R | 58 ++++++- R/verbs-window.R |only build/vignette.rds |binary inst/CITATION |only inst/doc/using-mdbplyr.R | 124 +++++++++++++++ inst/doc/using-mdbplyr.Rmd | 223 ++++++++++++++++++++++++++- inst/doc/using-mdbplyr.html | 192 +++++++++++++++++++++++ man/mongo_joins.Rd |only man/mongo_server_version.Rd |only man/mongo_src.Rd | 7 man/tbl_mongo.Rd | 11 + tests/testthat/helper-mock.R | 24 ++ tests/testthat/test-compile-pipeline.R | 12 + tests/testthat/test-mock-accumulators.R |only tests/testthat/test-phase1-group-summarise.R |only tests/testthat/test-phase2-select.R |only tests/testthat/test-phase3-across.R |only tests/testthat/test-phase4-window.R |only tests/testthat/test-phase5-join.R |only tests/testthat/test-semantics-flat.R | 32 +++ tests/testthat/test-server-version.R |only tests/testthat/test-translate-agg.R | 56 ++++++ vignettes/using-mdbplyr.Rmd | 223 ++++++++++++++++++++++++++- 38 files changed, 1354 insertions(+), 110 deletions(-)
Title: Overflow Data for Quantitative Peace Science Research
Description: These are data and functions to support quantitative peace science
research. The data are important state-year information on democracy and
wealth, which require periodic updates and regular maintenance. The
functions permit some exploratory and diagnostic assessment of the kinds of
data in demand by the community, but do not impose many dependencies on the
user.
Author: Steve Miller [aut, cre]
Maintainer: Steve Miller <steve@svmiller.com>
Diff between isard versions 0.1.0 dated 2025-04-10 and 0.2.0 dated 2026-06-25
DESCRIPTION | 11 ++++++----- MD5 | 48 ++++++++++++++++++++++++------------------------ NEWS.md | 9 +++++---- R/rd-cw_democracy.R | 8 ++++++-- R/rd-cw_gdppop.R | 5 +++++ R/rd-cw_gw_panel.R | 17 +++++++++++++++-- R/rd-cw_system.R | 5 +++++ R/rd-gw_cw_panel.R | 18 ++++++++++++++++-- R/rd-gw_democracy.R | 9 +++++++-- R/rd-gw_gdppop.R | 5 +++++ R/rd-gw_system.R | 14 ++++++++++++++ build/partial.rdb |binary data/cw_democracy.rda |binary data/cw_gw_panel.rda |binary data/gw_cw_panel.rda |binary data/gw_democracy.rda |binary data/gw_system.rda |binary man/cw_democracy.Rd | 9 ++++----- man/cw_gdppop.Rd | 4 ++-- man/cw_gw_panel.Rd | 18 +++++++++++++----- man/cw_system.Rd | 4 ++-- man/gw_cw_panel.Rd | 17 +++++++++++++---- man/gw_democracy.Rd | 8 ++++---- man/gw_gdppop.Rd | 4 ++-- man/gw_system.Rd | 13 +++++++++++-- 25 files changed, 159 insertions(+), 67 deletions(-)
Title: Online Changepoint Detection in Univariate and Multivariate Data
Streams
Description: Provides high-performance online changepoint detection in univariate and multivariate data
streams. Implements efficient 'C++' backends for the 'focus', 'md-focus' and 'np-focus'
algorithms, with an 'R' interface for real-time monitoring and offline analysis.
The package bundles code from 'Qhull' <http://www.qhull.org/>, by C. B. Barber and
The Geometry Center. See 'inst/COPYRIGHTS' for details.
Author: Gaetano Romano [aut, cre, trl],
Kes Ward [aut],
Yuntang Fan [aut],
Guillem Rigaill [aut],
Vincent Runge [aut],
Paul Fearnhead [aut],
Idris A. Eckley [aut],
C. B. Barber [ctb, cph] ,
The Geometry Center [cph]
Maintainer: Gaetano Romano <g.romano@lancaster.ac.uk>
Diff between focus versions 0.1.7 dated 2026-06-12 and 0.1.8 dated 2026-06-25
DESCRIPTION | 8 - MD5 | 8 - src/MultivariateInfo.h | 54 +++++++- src/focus_rcpp_module.cpp | 17 +- tests/testthat/test-generic.R | 258 ++++++++++++++++++++---------------------- 5 files changed, 192 insertions(+), 153 deletions(-)
Title: Ecological Niche Modeling using Presence-Absence Data
Description: A set of tools to perform Ecological Niche Modeling with
presence-absence data. It includes algorithms for data partitioning,
model fitting, calibration, evaluation, selection, and prediction.
Other functions help to explore signals of ecological niche using univariate
and multivariate analyses, and model features such as variable response
curves and variable importance. Unique characteristics of this package are
the ability to exclude models with concave quadratic responses, and the
option to clamp model predictions to specific variables. These tools are
implemented following principles proposed in
Cobos et al., (2022) <doi:10.17161/bi.v17i.15985>,
Cobos et al., (2019) <doi:10.7717/peerj.6281>,
and Peterson et al., (2008) <doi:10.1016/j.ecolmodel.2007.11.008>.
Author: Luis F. Arias-Giraldo [aut, cre] ,
Marlon E. Cobos [aut] ,
A. Townsend Peterson [ctb]
Maintainer: Luis F. Arias-Giraldo <lfarias.giraldo@gmail.com>
Diff between enmpa versions 0.2.4 dated 2026-05-28 and 0.2.5 dated 2026-06-25
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 5 +++++ R/short_helpers.R | 2 +- 4 files changed, 13 insertions(+), 8 deletions(-)
Title: Uncertainty Intervals and Sensitivity Analysis for Missing Data
Description: Implements functions to derive uncertainty intervals for (i) regression (linear and probit) parameters under missing not at random (non-ignorable missingness) as introduced in Genbäck, M., Stanghellini, E., and de Luna, X. (2015) <doi:10.1007/s00362-014-0610-x> and Genbäck, M., Ng, N., Stanghellini, E., and de Luna, X. (2018) <doi:10.1007/s10433-017-0448-x>. Also includes methods for doubly robust and outcome regression estimators of average causal effects under unobserved confounding as in Genbäck, M. and de Luna, X. (2018) <doi:10.1111/biom.13001>, and for partial correlation analysis following Gorbach, T. and de Luna, X. (2018) <doi:10.1016/j.spl.2018.05.027>.
Author: Minna Genbaeck [aut, cre],
Tetiana Gorbach [aut]
Maintainer: Minna Genbaeck <minna.genback@umu.se>
Diff between ui versions 0.1.1 dated 2019-11-11 and 1.0.1 dated 2026-06-25
ui-0.1.1/ui/R/LogL.probit.R |only ui-0.1.1/ui/R/Logl.sandACT.R |only ui-0.1.1/ui/R/ML.probit.R |only ui-0.1.1/ui/R/gridrho.f.R |only ui-0.1.1/ui/R/interv.p.R |only ui-0.1.1/ui/R/plot.uicausal.R |only ui-0.1.1/ui/R/sandACT.R |only ui-0.1.1/ui/R/sandImpACE.R |only ui-0.1.1/ui/R/sandImpACT.R |only ui-0.1.1/ui/R/se.ols.R |only ui-0.1.1/ui/R/sigmaOLScor0.R |only ui-0.1.1/ui/R/sigmaOLScor1.R |only ui-0.1.1/ui/R/ui.causal.R |only ui-0.1.1/ui/R/ui.ols.R |only ui-0.1.1/ui/R/ui.probit.R |only ui-0.1.1/ui/man/LogL.probit.Rd |only ui-0.1.1/ui/man/Logl.sandACT.Rd |only ui-0.1.1/ui/man/ML.probit.Rd |only ui-0.1.1/ui/man/gridrho.f.Rd |only ui-0.1.1/ui/man/interv.p.Rd |only ui-0.1.1/ui/man/plot.uicausal.Rd |only ui-0.1.1/ui/man/sandACT.Rd |only ui-0.1.1/ui/man/sandImpACE.Rd |only ui-0.1.1/ui/man/sandImpACT.Rd |only ui-0.1.1/ui/man/se.ols.Rd |only ui-0.1.1/ui/man/sigmaOLScor0.Rd |only ui-0.1.1/ui/man/sigmaOLScor1.Rd |only ui-0.1.1/ui/man/ui.causal.Rd |only ui-0.1.1/ui/man/ui.ols.Rd |only ui-0.1.1/ui/man/ui.probit.Rd |only ui-1.0.1/ui/DESCRIPTION | 30 +++-- ui-1.0.1/ui/MD5 | 115 ++++++++++++---------- ui-1.0.1/ui/NAMESPACE | 56 +++++++--- ui-1.0.1/ui/NEWS.md | 8 + ui-1.0.1/ui/R/globals.R |only ui-1.0.1/ui/R/gridrho_f.R |only ui-1.0.1/ui/R/grr.R | 28 ++--- ui-1.0.1/ui/R/hess.R | 38 +++---- ui-1.0.1/ui/R/interv_p.R |only ui-1.0.1/ui/R/logl_probit.R |only ui-1.0.1/ui/R/logl_sand_act.R |only ui-1.0.1/ui/R/ml_probit.R |only ui-1.0.1/ui/R/plot.uiols.R | 114 ++++++++++++---------- ui-1.0.1/ui/R/plot.uipcor.R |only ui-1.0.1/ui/R/plot.uiprobit.R | 90 +++++++++-------- ui-1.0.1/ui/R/print.uicausal.R | 23 ++-- ui-1.0.1/ui/R/print.uiols.R | 13 +- ui-1.0.1/ui/R/print.uipcor.R |only ui-1.0.1/ui/R/print.uiprobit.R | 13 +- ui-1.0.1/ui/R/profile.R |only ui-1.0.1/ui/R/profile.uicausal.R | 185 ++++++++++++++++++++++++++---------- ui-1.0.1/ui/R/profile.uiols.R | 61 ++++++----- ui-1.0.1/ui/R/profile.uipcor.R |only ui-1.0.1/ui/R/profile.uiprobit.R | 124 ++++++++++++------------ ui-1.0.1/ui/R/sand_dr_act.R |only ui-1.0.1/ui/R/sand_or_ace.R |only ui-1.0.1/ui/R/sand_or_act.R |only ui-1.0.1/ui/R/se_ols.R |only ui-1.0.1/ui/R/sigma_ols_cor0.R |only ui-1.0.1/ui/R/sigma_ols_cor1.R |only ui-1.0.1/ui/R/ui_causal.R |only ui-1.0.1/ui/R/ui_ols.R |only ui-1.0.1/ui/R/ui_pcor.R |only ui-1.0.1/ui/R/ui_probit.R |only ui-1.0.1/ui/man/gridrho_f.Rd |only ui-1.0.1/ui/man/grr.Rd | 10 - ui-1.0.1/ui/man/hess.Rd | 10 - ui-1.0.1/ui/man/interv_p.Rd |only ui-1.0.1/ui/man/logl_probit.Rd |only ui-1.0.1/ui/man/logl_sand_act.Rd |only ui-1.0.1/ui/man/ml_probit.Rd |only ui-1.0.1/ui/man/plot.uiols.Rd | 17 ++- ui-1.0.1/ui/man/plot.uipcor.Rd |only ui-1.0.1/ui/man/plot.uiprobit.Rd | 17 ++- ui-1.0.1/ui/man/print.uicausal.Rd | 5 ui-1.0.1/ui/man/print.uiols.Rd | 5 ui-1.0.1/ui/man/print.uipcor.Rd |only ui-1.0.1/ui/man/print.uiprobit.Rd | 5 ui-1.0.1/ui/man/profile.Rd |only ui-1.0.1/ui/man/profile.uicausal.Rd | 30 +++-- ui-1.0.1/ui/man/profile.uiols.Rd | 23 +++- ui-1.0.1/ui/man/profile.uipcor.Rd |only ui-1.0.1/ui/man/profile.uiprobit.Rd | 25 +++- ui-1.0.1/ui/man/sand_dr_act.Rd |only ui-1.0.1/ui/man/sand_or_ace.Rd |only ui-1.0.1/ui/man/sand_or_act.Rd |only ui-1.0.1/ui/man/se_ols.Rd |only ui-1.0.1/ui/man/sigma_ols_cor0.Rd |only ui-1.0.1/ui/man/sigma_ols_cor1.Rd |only ui-1.0.1/ui/man/ui_causal.Rd |only ui-1.0.1/ui/man/ui_ols.Rd |only ui-1.0.1/ui/man/ui_pcor.Rd |only ui-1.0.1/ui/man/ui_probit.Rd |only 93 files changed, 625 insertions(+), 420 deletions(-)
Title: UNHCR Refugee Population Statistics Database
Description: The Refugee Population Statistics Database published by
The Office of The United Nations High Commissioner for Refugees (UNHCR)
contains information about forcibly displaced populations
spanning more than 70 years of statistical activities.
It covers displaced populations such as refugees, asylum-seekers and
internally displaced people, including their demographics.
Stateless people are also included, most of who have never been displaced.
The database also reflects the different types of solutions
for displaced populations such as repatriation or resettlement.
More information on the data and methodology can be found on
the UNHCR Refugee Data Finder <https://www.unhcr.org/refugee-statistics/>.
Author: Hisham Galal [aut],
Ahmadou Dicko [aut],
Janis Kreuder [cre],
UNHCR [cph]
Maintainer: Janis Kreuder <kreuder@unhcr.org>
Diff between refugees versions 2025.12.0 dated 2026-06-15 and 2025.12.1 dated 2026-06-25
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NAMESPACE | 1 + NEWS.md | 6 ++++++ R/displaced-package.R | 22 ++++++++++++++++++++++ data/asylum_applications.rda |binary data/asylum_decisions.rda |binary data/demographics.rda |binary data/flows.rda |binary data/population.rda |binary man/refugees-package.Rd | 7 ++++++- 11 files changed, 49 insertions(+), 15 deletions(-)
Title: AI Assistant Gadget for 'RStudio'
Description: Provides an interactive 'RStudio' gadget for working with an AI
assistant during package and script development. The gadget can use selected
editor text, the active source file, package metadata, and uploaded files as
context for code explanation, code generation, documentation, and review
workflows. It offers model presets, assistant behavior settings, responsive
code-focused output, and explicit copy, insert, and replace actions for the
active source editor. API interactions via the 'httr' package are performed
asynchronously using 'promises' and 'future' to avoid blocking the R console.
The backend is configured via the OPENAI_API_KEY environment variable.
Author: Antoni Czolgowski [aut, cre]
Maintainer: Antoni Czolgowski <antoni.czolgowski@gmail.com>
Diff between PacketLLM versions 0.1.1 dated 2025-08-23 and 0.1.2 dated 2026-06-25
DESCRIPTION | 37 LICENSE | 4 MD5 | 107 - NAMESPACE | 94 - NEWS.md | 52 R/advanced_settings.R | 136 +- R/chat_logic.R | 399 +++--- R/editor_actions.R |only R/file_utils.R | 486 ++++---- R/gadget_rendering_helpers.R | 485 ++++++- R/gadget_ui_components.R | 123 +- R/history_menager.R | 936 ++++++++------- R/llm_chat_app.R | 1637 +++++++++++++++++---------- R/model_config.R |only R/openai_api.R | 269 ++-- R/rstudio_context.R |only README.md | 226 ++- build/vignette.rds |binary inst/WORDLIST | 36 inst/doc/PacketLLM-introduction.Rmd | 254 ++-- inst/doc/PacketLLM-introduction.html | 44 inst/rstudio |only man/add_attachment_to_active_conversation.Rd | 38 man/add_message_to_active_history.Rd | 38 man/add_user_message.Rd | 34 man/available_model_presets.Rd |only man/available_openai_models.Rd | 27 man/call_openai_chat.Rd | 66 - man/capture_rstudio_context.Rd |only man/check_api_key.Rd | 38 man/create_new_conversation.Rd | 50 man/delete_conversation.Rd | 34 man/get_active_chat_history.Rd | 28 man/get_active_conversation.Rd | 28 man/get_active_conversation_attachments.Rd | 28 man/get_active_conversation_id.Rd | 28 man/get_all_conversation_ids.Rd | 28 man/get_assistant_response.Rd | 28 man/get_conversation_attachments.Rd | 34 man/get_conversation_data.Rd | 34 man/get_conversation_history.Rd | 34 man/get_conversation_model.Rd | 34 man/get_conversation_title.Rd | 34 man/initialize_history_manager.Rd | 31 man/is_conversation_started.Rd | 34 man/packetllm_addin.Rd |only man/parse_pages.Rd | 128 +- man/read_file_content.Rd | 158 +- man/reset_history_manager.Rd | 31 man/run_llm_chat_app.Rd | 42 man/set_active_conversation.Rd | 34 man/set_conversation_model.Rd | 38 man/set_conversation_system_message.Rd | 38 tests/testthat.R | 24 tests/testthat/test-chat_logic_formatting.R | 196 +-- tests/testthat/test-history_manager.R | 300 ++-- tests/testthat/test-model_config.R |only tests/testthat/test-rendering_and_context.R |only vignettes/PacketLLM-introduction.Rmd | 254 ++-- 59 files changed, 4252 insertions(+), 3044 deletions(-)
Title: Access and Analyze Global GreenSpace Spatial Data
Description: Access and analyze multi-band greenspace seasonality data cubes
(available for 1,028 major global cities), global Normalized Difference
Vegetation Index / land cover data from the European Space Agency
WorldCover 10m Dataset, and Sentinel-2-l2a images. Users can download data
using bounding boxes, city names, and filter by year or seasonal time window.
The package also supports calculating human exposure to greenspace using a
population-weighted greenspace exposure model introduced by
Chen et al. (2022) <doi:10.1038/s41467-022-32258-4> based on Global Human
Settlement Layer population data, and calculating a set of greenspace
morphology metrics at patch and landscape levels.
Author: Xiaohao Yang [aut, cre, cph]
Maintainer: Xiaohao Yang <xiaohaoy111@gmail.com>
This is a re-admission after prior archival of version 0.1.1 dated 2025-10-30
Diff between greenSD versions 0.1.1 dated 2025-10-30 and 0.2.0 dated 2026-06-25
DESCRIPTION | 8 - MD5 | 32 ++--- R/analysis.R | 32 +++-- R/core.R | 245 ++++++++++++++++++++++++++++++++++++----- R/utils.R | 10 + build/vignette.rds |binary inst/doc/get_data.R | 27 ++++ inst/doc/get_data.Rmd | 50 +++++++- inst/doc/get_data.html | 41 ++++++ man/get_esa_wc.Rd | 54 +++++++-- man/get_s2a_ndvi.Rd | 4 man/get_tile_green.Rd | 19 +++ man/sample_values.Rd | 13 +- tests/testthat/test-analysis.R | 27 ++++ tests/testthat/test-core.R | 68 +++++++++++ tests/testthat/test-utils.R | 11 + vignettes/get_data.Rmd | 50 +++++++- 17 files changed, 598 insertions(+), 93 deletions(-)
Title: A Toolbox for Using the CPS’s Voting and Registration Supplement
Description: Provides automated methods for downloading, recoding, and merging
selected years of the Current Population Survey's Voting and Registration
Supplement <https://www.nber.org/research/data/current-population-survey-cps-supplements-voting-and-registration>,
a large N national survey about registration, voting, and non-voting in
United States federal elections. Provides documentation for appropriate use
of sample weights to generate statistical estimates, drawing from Hur &
Achen (2013) <doi:10.1093/poq/nft042> and McDonald (2018)
<https://www.electproject.org/election-data/voter-turnout-data>.
Author: Jay Lee [aut],
Paul Gronke [aut, cre],
Frank Adonteng [ctb],
John Curiel [ctb]
Maintainer: Paul Gronke <gronkep@reed.edu>
Diff between cpsvote versions 0.1.0 dated 2020-11-05 and 0.2.0 dated 2026-06-25
cpsvote-0.1.0/cpsvote/data/cps_allyears_10k.rda |only cpsvote-0.1.0/cpsvote/man/cps_allyears_10k.Rd |only cpsvote-0.2.0/cpsvote/DESCRIPTION | 53 - cpsvote-0.2.0/cpsvote/LICENSE | 4 cpsvote-0.2.0/cpsvote/MD5 | 92 +- cpsvote-0.2.0/cpsvote/NAMESPACE | 2 cpsvote-0.2.0/cpsvote/R/cps_download.R | 115 +- cpsvote-0.2.0/cpsvote/R/cps_load_basic.R | 19 cpsvote-0.2.0/cpsvote/R/cps_read.R | 36 cpsvote-0.2.0/cpsvote/R/data_doc.R | 103 ++ cpsvote-0.2.0/cpsvote/R/refactor.R | 2 cpsvote-0.2.0/cpsvote/R/utils.R |only cpsvote-0.2.0/cpsvote/build/vignette.rds |binary cpsvote-0.2.0/cpsvote/data/cps_2020_10k.rda |only cpsvote-0.2.0/cpsvote/data/cps_2022_10k.rda |only cpsvote-0.2.0/cpsvote/data/cps_2024_10k.rda |only cpsvote-0.2.0/cpsvote/data/cps_allyears_100k.rda |only cpsvote-0.2.0/cpsvote/data/cps_cols.rda |binary cpsvote-0.2.0/cpsvote/data/cps_factors.rda |binary cpsvote-0.2.0/cpsvote/data/cps_reweight.rda |binary cpsvote-0.2.0/cpsvote/inst/WORDLIST |only cpsvote-0.2.0/cpsvote/inst/doc/add-variables.R | 4 cpsvote-0.2.0/cpsvote/inst/doc/add-variables.Rmd | 8 cpsvote-0.2.0/cpsvote/inst/doc/add-variables.html | 288 ++++--- cpsvote-0.2.0/cpsvote/inst/doc/background.R | 4 cpsvote-0.2.0/cpsvote/inst/doc/background.Rmd | 80 -- cpsvote-0.2.0/cpsvote/inst/doc/background.html | 445 +++++++---- cpsvote-0.2.0/cpsvote/inst/doc/basics.R | 2 cpsvote-0.2.0/cpsvote/inst/doc/basics.Rmd | 66 + cpsvote-0.2.0/cpsvote/inst/doc/basics.html | 458 ++++++++--- cpsvote-0.2.0/cpsvote/inst/doc/vote_method_trends.R |only cpsvote-0.2.0/cpsvote/inst/doc/vote_method_trends.Rmd |only cpsvote-0.2.0/cpsvote/inst/doc/vote_method_trends.html |only cpsvote-0.2.0/cpsvote/inst/doc/voting.R | 3 cpsvote-0.2.0/cpsvote/inst/doc/voting.Rmd | 180 +--- cpsvote-0.2.0/cpsvote/inst/doc/voting.html | 668 ++++++++++------- cpsvote-0.2.0/cpsvote/inst/extdata |only cpsvote-0.2.0/cpsvote/man/cps_2020_10k.Rd |only cpsvote-0.2.0/cpsvote/man/cps_2022_10k.Rd |only cpsvote-0.2.0/cpsvote/man/cps_2024_10k.Rd |only cpsvote-0.2.0/cpsvote/man/cps_allyears_100k.Rd |only cpsvote-0.2.0/cpsvote/man/cps_cols.Rd | 2 cpsvote-0.2.0/cpsvote/man/cps_data_dir.Rd |only cpsvote-0.2.0/cpsvote/man/cps_docs_dir.Rd |only cpsvote-0.2.0/cpsvote/man/cps_download_data.Rd | 14 cpsvote-0.2.0/cpsvote/man/cps_download_docs.Rd | 14 cpsvote-0.2.0/cpsvote/man/cps_factors.Rd | 2 cpsvote-0.2.0/cpsvote/man/cps_load_basic.Rd | 13 cpsvote-0.2.0/cpsvote/man/cps_read.Rd | 8 cpsvote-0.2.0/cpsvote/man/cps_reweight.Rd | 4 cpsvote-0.2.0/cpsvote/vignettes/add-variables.Rmd | 8 cpsvote-0.2.0/cpsvote/vignettes/articles |only cpsvote-0.2.0/cpsvote/vignettes/background.Rmd | 80 -- cpsvote-0.2.0/cpsvote/vignettes/basics.Rmd | 66 + cpsvote-0.2.0/cpsvote/vignettes/snowglobe.gif |only cpsvote-0.2.0/cpsvote/vignettes/vote_method_trends.Rmd |only cpsvote-0.2.0/cpsvote/vignettes/voting.Rmd | 180 +--- 57 files changed, 1893 insertions(+), 1130 deletions(-)
Title: Access Data from the 'Impect' API
Description: Pull data from the 'Impect' Customer API <https://glossary.impect.com/api-design>. The package can retrieve data such as events or match sums.
Author: Impect GmbH [cph],
Florian Schmitt [aut, cre],
Thomas Walentin [ctb]
Maintainer: Florian Schmitt <florian.schmitt@impect.com>
Diff between impectR versions 2.5.5 dated 2026-04-14 and 2.5.6 dated 2026-06-25
DESCRIPTION | 6 +++--- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 6 ++++++ R/getFormations.R | 2 +- R/getMatches.R | 5 +++++ R/getPlayerIterationAverages.R | 2 ++ R/getPlayerIterationScores.R | 2 ++ R/getPlayerMatchScores.R | 3 ++- R/getPlayerMatchsums.R | 3 ++- R/getPlayerProfileScores.R | 3 ++- R/getSquadCoefficients.R | 4 +++- R/getSquadIterationAverages.R | 4 +++- R/getSquadIterationScores.R | 4 +++- R/getSquadMatchScores.R | 4 +++- R/getSquadMatchsums.R | 4 +++- R/getSquadRatings.R | 4 +++- R/utils.R | 12 +++++++++--- README.md | 6 +++--- 18 files changed, 72 insertions(+), 36 deletions(-)
Title: Miscellaneous Functions for "Grid" Graphics
Description: Provides a number of user-level functions to work with "grid"
graphics, notably to arrange multiple grid-based plots on a page, and draw
tables.
Author: Baptiste Auguie [aut, cre],
Anton Antonov [ctb]
Maintainer: Baptiste Auguie <baptiste.auguie@vuw.ac.nz>
Diff between gridExtra versions 2.3 dated 2017-09-09 and 2.3.1 dated 2026-06-25
DESCRIPTION | 10 MD5 | 20 - build/vignette.rds |binary inst/doc/arrangeGrob.R | 16 - inst/doc/arrangeGrob.html | 229 +++++++++---------- inst/doc/gtable.R | 24 +- inst/doc/gtable.html | 281 ++++++++++++----------- inst/doc/ngonGrob.R | 8 inst/doc/ngonGrob.html | 180 ++++++--------- inst/doc/tableGrob.R | 32 +- inst/doc/tableGrob.html | 539 ++++++++++++++++++++++++---------------------- 11 files changed, 684 insertions(+), 655 deletions(-)
Title: Optimal Distribution Preserving Down-Sampling of Bio-Medical
Data
Description: An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data <doi:10.1371/journal.pone.0255838>.
Author: Jorn Lotsch [aut, cre] ,
Sebastian Malkusch [aut] ,
Alfred Ultsch [aut]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between opdisDownsampling versions 1.0.1 dated 2024-04-15 and 1.6 dated 2026-06-25
opdisDownsampling-1.0.1/opdisDownsampling/R/CompDistrib.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/CompareReducedDataMat.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/EucDist.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/KullbLeiblKLD2.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/MakeReducedDataMat.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/SmoothDensHist1dim.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/amrdd.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/relevant_PCAvariables.R |only opdisDownsampling-1.0.1/opdisDownsampling/R/sample_and_analyze.R |only opdisDownsampling-1.6/opdisDownsampling/DESCRIPTION | 37 - opdisDownsampling-1.6/opdisDownsampling/MD5 | 40 - opdisDownsampling-1.6/opdisDownsampling/NAMESPACE | 8 opdisDownsampling-1.6/opdisDownsampling/R/RcppExports.R |only opdisDownsampling-1.6/opdisDownsampling/R/chunk_processing.R |only opdisDownsampling-1.6/opdisDownsampling/R/data_compare_reduced.R |only opdisDownsampling-1.6/opdisDownsampling/R/data_make_reduced.R |only opdisDownsampling-1.6/opdisDownsampling/R/data_sample_analyze.R |only opdisDownsampling-1.6/opdisDownsampling/R/data_variable_selection.R |only opdisDownsampling-1.6/opdisDownsampling/R/density_smooth_hist.R |only opdisDownsampling-1.6/opdisDownsampling/R/dist_amrdd.R |only opdisDownsampling-1.6/opdisDownsampling/R/dist_compare.R |only opdisDownsampling-1.6/opdisDownsampling/R/dist_entropy.R |only opdisDownsampling-1.6/opdisDownsampling/R/dist_euclidean.R |only opdisDownsampling-1.6/opdisDownsampling/R/dist_kld.R |only opdisDownsampling-1.6/opdisDownsampling/R/get_seed.R | 218 ++++++ opdisDownsampling-1.6/opdisDownsampling/R/make_and_analyse_subsample.R |only opdisDownsampling-1.6/opdisDownsampling/R/memory_chunk_size.R |only opdisDownsampling-1.6/opdisDownsampling/R/opdisDownsampling.R | 321 ++++++++-- opdisDownsampling-1.6/opdisDownsampling/R/select_best_sample.R |only opdisDownsampling-1.6/opdisDownsampling/R/utils.R |only opdisDownsampling-1.6/opdisDownsampling/README.md |only opdisDownsampling-1.6/opdisDownsampling/build |only opdisDownsampling-1.6/opdisDownsampling/man/get_seed.Rd |only opdisDownsampling-1.6/opdisDownsampling/man/opdisDownsampling.Rd | 123 +++ opdisDownsampling-1.6/opdisDownsampling/src |only 35 files changed, 639 insertions(+), 108 deletions(-)
More information about opdisDownsampling at CRAN
Permanent link
Title: A Tool for Rating Text/Image/Audio Stimuli via 'LLMs'
Description: Evaluates stimuli using Large Language Models.
Supports multiple LLM providers: 'OpenAI', 'Anthropic', 'Ollama', 'LM Studio',
'DeepSeek', 'Groq', 'Mistral', and 'OpenAI-compatible' endpoints.
Stimuli: plain text, local image/audio files, or image URLs.
Audio is transcribed via 'OpenAI Whisper' before rating.
Supports numeric, text, and raw return types.
Author: Shiyang Zheng [aut, cre]
Maintainer: Shiyang Zheng <Shiyang.Zheng@nottingham.ac.uk>
Diff between chatRater versions 1.3.0 dated 2026-05-14 and 1.3.1 dated 2026-06-25
DESCRIPTION | 8 MD5 | 18 - NAMESPACE | 12 NEWS.md | 80 ++++ R/chatRater.R | 700 +++++++++++++++++++++++++++++----------- README.md | 57 ++- build |only inst |only man/alignment.Rd |only man/generate_ratings.Rd | 156 +++----- man/generate_ratings_for_all.Rd | 54 +-- 11 files changed, 743 insertions(+), 342 deletions(-)
Title: Simplified Vertex-Wise Analyses of Whole-Brain and Subcortical
Surface
Description: Provides functions to run statistical analyses on
surface-based neuroimaging data, computing measures including cortical
thickness and surface area of the whole-brain and of the hippocampi.
It can make use of 'FreeSurfer', 'fMRIprep', 'XCP-D', 'HCP' and 'CAT12'
preprocessed datasets, 'HippUnfold' hippocampal outputs and
'SubCortexMesh' subcortical outputs for a given sample by
restructuring the data values into a single file. The single file can
then be used by the package for analyses independently from its base
dataset and without need for its access.
Author: Junhong Yu [aut] ,
Charly Billaud [aut, cre]
Maintainer: Charly Billaud <charly.billaud@ntu.edu.sg>
Diff between VertexWiseR versions 1.5.1 dated 2026-04-08 and 1.5.2 dated 2026-06-25
DESCRIPTION | 8 +-- MD5 | 32 ++++++++------- NAMESPACE | 2 NEWS.md | 11 ++++- R/SCMvextract.R | 8 +-- R/SURFvextract.R | 4 - R/conversion_functions.R | 93 +++++++++++++++++++++++++++++++++++++++++++++ R/data.R | 22 +++++++--- README.md | 6 +- data/fslr_to_fs5_map.rdata |only man/ROImap_fs5.Rd | 2 man/ROImap_fs6.Rd | 2 man/ROImap_fslr32k.Rd | 2 man/ROImap_hip.Rd | 2 man/fs5_to_fslr.Rd |only man/fs6_to_fs5_map.Rd | 2 man/fslr_to_fs5.Rd |only man/fslr_to_fs5_map.Rd |only man/hip_points_cells.Rd | 2 19 files changed, 158 insertions(+), 40 deletions(-)
Title: Context Engineering for Large Language Model Agents
Description: Context-engineering primitives for Artificial Intelligence (AI)
coding agents working in R. Assembles agent context from memory and
instruction files ('AGENTS.md', 'CLAUDE.md'), traces function call
blast radius across projects, generates project briefings, parses
source into Abstract Syntax Tree (AST) symbol indices, discovers
dependency graphs, and introspects installed packages.
Zero dependencies.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between saber versions 0.7.1 dated 2026-05-15 and 0.7.2 dated 2026-06-25
DESCRIPTION | 7 ++++--- MD5 | 16 ++++++++-------- NEWS.md | 18 ++++++++++++++++++ R/briefing.R | 19 ++++++++++++++++--- R/fn_graph.R | 11 ++++++++--- inst/scripts/session-start.R | 15 +++++++++++++-- inst/tinytest/test_briefing.R | 14 ++++++++++++++ inst/tinytest/test_fn_graph.R | 2 +- man/fn_graph.Rd | 10 ++++++++-- 9 files changed, 90 insertions(+), 22 deletions(-)
Title: Pedigree Reconstruction
Description: Reconstruct pedigrees from genotype data, by optimising the
likelihood over all possible pedigrees subject to given restrictions.
Tailor-made plots facilitate evaluation of the output. This package is
part of the 'pedsuite' ecosystem for pedigree analysis. In
particular, it imports 'pedprobr' for calculating pedigree likelihoods
and 'forrel' for estimating pairwise relatedness.
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedbuildr versions 0.3.0 dated 2023-08-22 and 0.4.0 dated 2026-06-25
DESCRIPTION | 17 ++--- MD5 | 45 +++++++------ NAMESPACE | 13 +--- NEWS.md | 13 +++- R/addMissingParents.R | 47 +++++++++----- R/adjMatrix.R | 4 - R/buildPeds.R | 16 ++-- R/buildPedsExtra.R | 78 ++++++++++++------------ R/buildPedsParents.R | 9 +- R/data.R | 2 R/inferPO.R | 2 R/likelihood.R | 33 +++------- R/linearInbreeding.R | 60 +++++++++++++++++- R/prepareData.R | 10 +-- R/reconstruct.R | 117 +++++++++++++++++++++--------------- R/utils.R | 38 +++++++---- README.md | 36 +++++------ man/figures/README-singletons-1.png |binary man/figures/README-top6-1.png |binary man/figures/README-top6new-1.png |binary man/pedbuildr-package.Rd | 5 + man/reconstruct.Rd | 39 +++++++++--- man/trioData.Rd | 2 tests/testthat/test_reconstruct.R |only 24 files changed, 358 insertions(+), 228 deletions(-)
Title: Microbial Ecology by Tandem Mass Spectrometry
Description: Tools that researchers can use to analyze untargeted metabolomics data generated using tandem mass spectroscopy from microbial communities. The overall approach taken to analyze metabolomics data parallels that used to analyze microbial communities using 16S rRNA gene sequencing data. Thus, we have a number of methods a user is able to use to generate data. Firstly, users can import Mass Spectrometry 1(MS1) data and filter it. Users are then able to match Mass Spectrometry 2(MS2) data to the filtered (or unfiltered) MS1 data. With the matched data users are able to cluster it, annotate it, predict de novo chemical formulas and calculate alpha and beta diversity. For chemical formula predictions, this was the method used; "Towards de novo identification of metabolites by analyzing tandem mass spectra" (Sebastian Böcker, Florian Rasche (2008) <doi:10.1093/bioinformatics/btn270>). The similarity/dissimilarity calculations we used to cluster our data together was: "Spectral entropy o [...truncated...]
Author: Allison Mason [aut] ,
Gregory Johnson [aut] ,
Patrick Schloss [aut, cre] ,
Anton Pervukhin [ctb, cph],
Florian Rasche [ctb, cph],
Henner Sudek [ctb, cph],
Marcel Martin [ctb, cph],
Yuanyue Li [ctb, cph]
Maintainer: Patrick Schloss <pschloss@umich.edu>
Diff between mums2 versions 0.1.0 dated 2026-06-10 and 0.1.1 dated 2026-06-25
mums2-0.1.0/mums2/src/CustomProgressBar/ETAProgressBar.h |only mums2-0.1.0/mums2/src/test-Utils.cpp |only mums2-0.1.1/mums2/DESCRIPTION | 12 mums2-0.1.1/mums2/MD5 | 106 - mums2-0.1.1/mums2/NAMESPACE | 1 mums2-0.1.1/mums2/NEWS.md | 4 mums2-0.1.1/mums2/R/RcppExports.R | 40 mums2-0.1.1/mums2/R/annotate_ms2.R | 9 mums2-0.1.1/mums2/R/dist_ms2.R | 8 mums2-0.1.1/mums2/R/diversity_metrics.R | 14 mums2-0.1.1/mums2/R/filter.R | 1 mums2-0.1.1/mums2/R/fragmentation_tree.R | 7 mums2-0.1.1/mums2/R/limit_cores.R | 5 mums2-0.1.1/mums2/R/ms2_ms1_comparison.R | 1 mums2-0.1.1/mums2/R/mums2-package.R | 1 mums2-0.1.1/mums2/R/rarefy_ms.R | 8 mums2-0.1.1/mums2/R/read_ms_data.R | 87 mums2-0.1.1/mums2/README.md | 2 mums2-0.1.1/mums2/inst/doc/mums2.html | 983 ++++------ mums2-0.1.1/mums2/man/alpha_summary.Rd | 4 mums2-0.1.1/mums2/man/annotate_ms2.Rd | 4 mums2-0.1.1/mums2/man/compute_molecular_formulas.Rd | 8 mums2-0.1.1/mums2/man/dist_ms2.Rd | 4 mums2-0.1.1/mums2/man/dist_shared.Rd | 4 mums2-0.1.1/mums2/man/filter_peak_table.Rd | 1 mums2-0.1.1/mums2/man/rarefy_ms.Rd | 10 mums2-0.1.1/mums2/src/AnnotationController.cpp | 4 mums2-0.1.1/mums2/src/AnnotationStructure/AnnotationController.h | 2 mums2-0.1.1/mums2/src/CustomProgressBar/CliProgressBar.h | 21 mums2-0.1.1/mums2/src/Distance.cpp | 4 mums2-0.1.1/mums2/src/Distance/Distance.h | 2 mums2-0.1.1/mums2/src/HMDB/HumanMetabolomicsDB.h | 2 mums2-0.1.1/mums2/src/HumanMetabolomicsDB.cpp | 4 mums2-0.1.1/mums2/src/Rarefaction.cpp | 22 mums2-0.1.1/mums2/src/RcppExports.cpp | 90 mums2-0.1.1/mums2/src/ReadSpectra.cpp | 9 mums2-0.1.1/mums2/src/Spectra/ReadSpectra.h | 4 mums2-0.1.1/mums2/src/annotateMs2Features.cpp | 4 mums2-0.1.1/mums2/src/denovo_molecular_formula_prediction.cpp | 6 mums2-0.1.1/mums2/src/distMs2.cpp | 6 mums2-0.1.1/mums2/src/diversityCalculations.cpp | 8 mums2-0.1.1/mums2/src/humanMetabolomicsDBController.cpp | 8 mums2-0.1.1/mums2/src/progressBar.cpp | 4 mums2-0.1.1/mums2/src/spectrumReaders.cpp | 8 mums2-0.1.1/mums2/src/test-cpp_matrix.cpp | 3 mums2-0.1.1/mums2/src/test-rarefaction.cpp | 2 mums2-0.1.1/mums2/tests/testthat/test-annotate_ms2.R | 18 mums2-0.1.1/mums2/tests/testthat/test-community_object.R | 26 mums2-0.1.1/mums2/tests/testthat/test-create_data_structures.R | 10 mums2-0.1.1/mums2/tests/testthat/test-dist_ms2.R | 25 mums2-0.1.1/mums2/tests/testthat/test-diversity_metris.R | 99 - mums2-0.1.1/mums2/tests/testthat/test-fragmentation_tree.R | 17 mums2-0.1.1/mums2/tests/testthat/test-mass_data_set_wrapper.R | 4 mums2-0.1.1/mums2/tests/testthat/test-rarefy_ms.R | 15 mums2-0.1.1/mums2/tests/testthat/test-read_ms_data.R | 13 55 files changed, 897 insertions(+), 867 deletions(-)
Title: Various Methods for the Two Sample Problem in D>1 Dimensions
Description: The routine twosample_test() in this package runs the
two-sample test using various test statistic for multivariate data.
The user can also run several tests and then find a p value adjusted for simultaneous inference.
The p values are found via permutation or via the parametric bootstrap.
The routine twosample_power() allows the estimation of the power of the tests.
The routine run.studies() allows a user to quickly study the power of a new method and
how it compares to those included in the package.
For details of the methods and references see the included vignettes.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>
Diff between MD2sample versions 1.2.1 dated 2026-05-12 and 1.2.2 dated 2026-06-25
DESCRIPTION | 6 MD5 | 26 +- NEWS.md | 3 R/run.studies.R | 202 ++++++++++------ R/twosample_power.R | 293 +++++++++++++++-------- R/twosample_test.R | 413 +++++++++++++++++++++------------ R/twosample_test_adjusted_pvalue.R | 459 ++++++++++++++++++++++--------------- build/vignette.rds |binary inst/doc/CaseStudies.html | 68 ++--- inst/doc/MD2sample.R | 20 - inst/doc/MD2sample.Rmd | 26 +- inst/doc/MD2sample.html | 32 +- man/run.studies.Rd | 16 - vignettes/MD2sample.Rmd | 26 +- 14 files changed, 986 insertions(+), 604 deletions(-)
Title: Animated Glass-Style Tabs and Multi-Select Filter for 'Shiny'
Description: Tools for creating animated glassmorphism-style tab
navigation and select filter widgets in 'Shiny' applications.
Provides a tab navigation component with a sliding glass halo
animation, a searchable multi-select dropdown, and a single-select
dropdown - all with multiple colour themes and server-side update
helpers. Tabs support icons, numeric badges, disable/enable toggling,
runtime append/remove, reactive rendering via 'renderGlassTabs()', URL
bookmarking, and compact mode for dashboard card layouts.
'glassTabCondition()' generates 'conditionalPanel()' condition strings
without needing to recall the internal input key pattern.
'glasstabs_news()' displays the release notes from the R console.
Built-in example apps can be launched with 'runGlassExample()'. All
widgets are compatible with standard 'Shiny' layouts and 'bs4Dash'
dashboards and 'bslib' themed applications. For full documentation
and examples see Arthur (2026) <https://prigasg.github.io/glasstabs/>.
Author: George Arthur [aut, cre]
Maintainer: George Arthur <prigasgenthian48@gmail.com>
Diff between glasstabs versions 0.3.2 dated 2026-05-23 and 0.3.3 dated 2026-06-24
DESCRIPTION | 27 MD5 | 108 NAMESPACE | 58 NEWS.md | 500 ++- R/dependencies.R | 241 - R/glassSelect.R | 247 + R/glass_multiselect.R | 457 +++ R/glass_select_theme.R | 2 R/glass_tab_theme.R | 286 +- R/glass_tabs.R | 1545 +++++------ R/zzz.R | 2 README.md | 985 +++---- inst/WORDLIST | 7 inst/doc/glassSelect.R | 47 inst/doc/glassSelect.Rmd | 91 inst/doc/glassSelect.html | 336 +- inst/doc/multiselect.R | 46 inst/doc/multiselect.Rmd | 88 inst/doc/multiselect.html | 345 +- inst/examples/basic/app.R | 116 inst/examples/bs4dash/app.R | 131 inst/examples/bslib |only inst/examples/dashboard/app.R | 35 inst/examples/server-select |only inst/examples/smoke-test/app.R | 485 +-- inst/examples/square-corners |only inst/www/glass.css | 2024 ++++++++------- inst/www/glass.js | 3879 +++++++++++++++-------------- man/glassMultiSelect.Rd | 226 - man/glassMultiSelectServer.Rd |only man/glassSelect.Rd | 34 man/glassSelectServer.Rd |only man/glassTabCondition.Rd | 4 man/glassTabPanel.Rd | 86 man/glassTabsOutput.Rd | 2 man/glassTabsServer.Rd | 4 man/glassTabsUI.Rd | 10 man/glass_tab_theme.Rd | 2 man/glasstabs_news.Rd | 42 man/runGlassExample.Rd | 69 man/updateGlassMultiSelect.Rd | 111 man/updateGlassSelect.Rd | 17 man/updateGlassTabBadge.Rd | 2 man/useGlassTabs.Rd | 4 tests/testthat.R | 17 tests/testthat/apps |only tests/testthat/test-browser-interactions.R |only tests/testthat/test-dependencies.R | 2 tests/testthat/test-glassselect.R | 99 tests/testthat/test-multiselect.R | 119 tests/testthat/test-new-features.R | 648 ++-- tests/testthat/test-public-readiness.R | 43 tests/testthat/test-roadmap-phase1.R | 324 +- tests/testthat/test-selectize-parity.R |only tests/testthat/test-server-select.R |only tests/testthat/test-square-corners.R |only tests/testthat/test-tabs.R | 97 tests/testthat/test-themes.R | 4 vignettes/glassSelect.Rmd | 91 vignettes/multiselect.Rmd | 88 60 files changed, 8064 insertions(+), 6169 deletions(-)
Title: Ready-to-Use Omics Formatting, Analysis, and Visualization
Pipeline
Description: Provides a flexible and streamlined pipeline for formatting, analyzing, and
visualizing omics data, regardless of omics type (e.g. transcriptomics, proteomics,
metabolomics). The package includes tools for shaping input data into analysis-ready
structures, fitting linear or mixed-effect models, extracting key contrasts, and
generating a rich variety of ready-to-use publication-quality plots.
Designed for transparency and reproducibility across a wide range of study designs,
with customizable components for statistical modeling.
Author: Laura Martinez-Gili [cre, aut, cph]
Maintainer: Laura Martinez-Gili <martinez.gili.laura@gmail.com>
Diff between readyomics versions 0.2.0 dated 2025-10-20 and 0.2.1 dated 2026-06-24
DESCRIPTION | 12 MD5 | 28 NEWS.md | 4 R/dana.R | 4 R/ready_plots.R | 14 R/utils_analysis.R | 31 build/partial.rdb |binary build/vignette.rds |binary inst/doc/readyomics.R | 276 +++--- inst/doc/readyomics.Rmd | 6 inst/doc/readyomics.html | 1574 +------------------------------------- man/adjust_pval.Rd | 2 man/permanova.Rd | 2 tests/testthat/test-ready_plots.R | 4 vignettes/readyomics.Rmd | 6 15 files changed, 257 insertions(+), 1706 deletions(-)
Title: LLM Wiki Engine
Description: Personal wiki engine with a large language model (LLM) as
research assistant. Supports guided sessions through a 'Claude Code'
<https://github.com/anthropics/claude-code> skill bundle and
autonomous research runs from R via autoresearch(). Results land in
a structured vault of markdown pages with 'YAML' frontmatter and
wikilinks, ready for hand-editing in your favourite editor
alongside the LLM. Vaults are seeded with 'CLAUDE.md' and
'AGENTS.md' so 'Claude Code', 'Codex'
<https://github.com/openai/codex>, and other agents share the same
operating instructions. Can adopt an existing 'Obsidian'
<https://obsidian.md/> vault in place via init_vault(adopt = TRUE).
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between pensar versions 0.6.3 dated 2026-05-19 and 0.6.4 dated 2026-06-24
DESCRIPTION | 8 - MD5 | 110 +++++++++++++------------- NAMESPACE | 1 NEWS.md | 49 +++++++++++ R/audits.R | 70 ++++++---------- R/autoresearch.R | 51 +++++------- R/autoresearch_backends.R | 26 ++---- R/autoresearch_steps.R | 110 ++++++++++++-------------- R/db.R | 32 ++++++- R/export.R | 154 ++++++++++++++++++++++++++++++++++--- R/git.R | 3 R/index.R | 10 -- R/ingest_agent_context.R | 14 +-- R/ingest_url.R | 5 - R/lint.R | 39 +++++++-- R/manifest.R | 32 +++---- R/outlinks.R | 15 +-- R/parse.R | 22 +++++ R/pensarignore.R |only R/registry.R | 4 R/retrieval.R | 66 ++++++--------- R/skills.R | 1 R/vault.R | 21 ++++- R/wiki_write.R | 3 build/partial.rdb |only inst/scripts/backlog.R |only inst/tinytest/test_autoresearch.R | 26 ++++++ inst/tinytest/test_export.R | 40 +++++++++ inst/tinytest/test_lint.R | 55 +++++++++---- inst/tinytest/test_parse.R | 20 ++++ inst/tinytest/test_resolve_vault.R | 14 +++ man/backlinks.Rd | 5 - man/dedup.Rd | 12 -- man/default_vault.Rd |only man/ingest.Rd | 5 - man/ingest_agent_context.Rd | 12 -- man/ingest_briefing.Rd | 2 man/ingest_repo.Rd | 23 ++--- man/ingest_url.Rd | 11 -- man/init_vault.Rd | 5 - man/lint.Rd | 5 - man/log_entry.Rd | 5 - man/manifest_path.Rd | 23 ++--- man/migrate_briefings_to_repos.Rd | 9 -- man/outlinks.Rd | 5 - man/pensar-package.Rd | 16 +-- man/pensar_skill_path.Rd | 5 - man/read_manifest.Rd | 2 man/search_pages.Rd | 7 - man/show_page.Rd | 5 - man/status.Rd | 5 - man/tags.Rd | 3 man/update_index.Rd | 5 - man/update_manifest.Rd | 3 man/vault_commit.Rd | 9 -- man/vault_export.Rd | 17 ++-- man/vault_graph.Rd | 5 - man/vault_registry.Rd | 43 ++++------ 58 files changed, 774 insertions(+), 474 deletions(-)
Title: Forecasting Models for Intermittent Time Series
Description: Extends the 'fable' framework to support forecasting methods
specifically designed for intermittent time series data, where demand
occurs sporadically with many zero values. All methods produce probabilistic
forecasts returned as 'distributional' objects. The returned forecasts can be
used to evaluate accuracy, plot and print the results seamlessly with 'fable'.
The methods include:
Harvey, Fernandes (1989) <doi:10.1080/07350015.1989.10509750>,
Willemain, Smart, Schwarz (2004) <doi:10.1016/S0169-2070(03)00013-X>,
Zhou, Viswanathan (2011) <doi:10.1016/j.ijpe.2010.09.021>,
Snyder, Ord, Beaumont (2012) <doi:10.1016/j.ijforecast.2011.03.009>,
Kolassa (2016) <doi:10.1016/j.ijforecast.2015.12.004>,
Hasni, Aguir, Babai, Jemai (2019) <doi:10.1080/00207543.2018.1424375>,
Damato, Azzimonti, Corani (2025) <doi:10.1016/j.ijforecast.2025.10.001>,
Sbrana (2025) <doi:10.1080/01605682.2025.2569661>.
Author: Stefano Damato [aut, cre, cph] ,
Lorenzo Zambon [aut] ,
Dario Azzimonti [aut]
Maintainer: Stefano Damato <stefanodamato128@gmail.com>
Diff between fable.intermittent versions 0.1.0 dated 2026-06-18 and 0.1.1 dated 2026-06-24
fable.intermittent-0.1.0/fable.intermittent/R/zzz.R |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.BETANBB.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.EMPDISTR.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.GAMPOISB.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.HSPES.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.MARWAL.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.NEGBINES.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.STATICDISTR.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.TWEES.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.VZ.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/model_sum.WSS.Rd |only fable.intermittent-0.1.0/fable.intermittent/man/quantile.dist_inflated.Rd |only fable.intermittent-0.1.1/fable.intermittent/DESCRIPTION | 15 fable.intermittent-0.1.1/fable.intermittent/MD5 | 90 +--- fable.intermittent-0.1.1/fable.intermittent/NAMESPACE | 27 + fable.intermittent-0.1.1/fable.intermittent/NEWS.md | 14 fable.intermittent-0.1.1/fable.intermittent/R/betanbb.R | 28 - fable.intermittent-0.1.1/fable.intermittent/R/dist_tweedie.R | 10 fable.intermittent-0.1.1/fable.intermittent/R/empdistr.R | 29 - fable.intermittent-0.1.1/fable.intermittent/R/fable.intermittent-package.R | 6 fable.intermittent-0.1.1/fable.intermittent/R/gampoisb.R | 27 - fable.intermittent-0.1.1/fable.intermittent/R/hspes.R | 41 + fable.intermittent-0.1.1/fable.intermittent/R/marwal.R | 212 +--------- fable.intermittent-0.1.1/fable.intermittent/R/negbines.R | 32 - fable.intermittent-0.1.1/fable.intermittent/R/staticdistr.R | 51 +- fable.intermittent-0.1.1/fable.intermittent/R/twees.R | 36 + fable.intermittent-0.1.1/fable.intermittent/R/utils.R | 25 - fable.intermittent-0.1.1/fable.intermittent/R/vz.R | 28 - fable.intermittent-0.1.1/fable.intermittent/R/wss.R | 31 - fable.intermittent-0.1.1/fable.intermittent/README.md | 2 fable.intermittent-0.1.1/fable.intermittent/inst/doc/fable.intermittent.html | 24 - fable.intermittent-0.1.1/fable.intermittent/man/BETANBB.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/EMPDISTR.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/GAMPOISB.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/HSPES.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/MARWAL.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/NEGBINES.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/STATICDISTR.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/TWEES.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/VZ.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/man/WSS.Rd | 5 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/helper.R | 1 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-betanbb.R | 6 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-empdistr.R | 6 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-gampoisb.R | 6 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-hspes.R | 11 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-marwal.R | 8 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-negbines.R | 11 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-staticdistr.R | 13 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-twees.R | 11 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-vz.R | 6 fable.intermittent-0.1.1/fable.intermittent/tests/testthat/test-wss.R | 6 52 files changed, 469 insertions(+), 394 deletions(-)
More information about fable.intermittent at CRAN
Permanent link
Title: Base R Code Formatter
Description: A minimal R code formatter following base R style conventions.
Formats R code with consistent spacing, indentation, and structure.
Author: Troy Hernandez [aut, cre] ,
Dirk Eddelbuettel [ctb] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between rformat versions 0.1.0 dated 2026-03-09 and 0.2.0 dated 2026-06-24
DESCRIPTION | 13 +- MD5 | 23 ++--- NEWS.md |only R/ast_else.R | 7 + R/ast_funcdef.R | 21 ++++ R/ast_wrap.R | 112 ++++++++++++++++++++---- R/rformat.R | 12 +- build/vignette.rds |binary inst/doc/rformat-options.html | 2 inst/tinytest/test_rformat.R | 190 ++++++++++++++++++++++++++++++++++++++++++ src/else.cpp | 10 ++ src/funcdef.cpp | 29 ++++++ src/wrap.cpp | 114 ++++++++++++++++++++++--- 13 files changed, 479 insertions(+), 54 deletions(-)
Title: Empirical Reservoir Eutrophication Modelling with Oklahoma
Calibration
Description: Empirical reservoir water quality modelling using Walker's
'BATHTUB' Model 1 (second-order available-phosphorus sedimentation)
from Walker (1985) <https://hdl.handle.net/11681/13884>
and Walker (1996) <https://hdl.handle.net/11681/4353> as the
default retention model. The Vollenweider (1976) hydraulic-
residence form and the equivalent formulation of Larsen and Mercier
(1976) are available as alternatives. Predicts in-lake total
phosphorus, total nitrogen, chlorophyll-a, and Secchi depth from
tributary nutrient and hydraulic loading inputs, and computes
Carlson (1977) <doi:10.4319/lo.1977.22.2.0361> Trophic State
Indices. Optional Oklahoma-specific chlorophyll and Secchi
regression coefficients are provided, calibrated from publicly
available state lake monitoring data. Supports single-segment and
multi-segment reservoir configurations and load-reduction scenario
analysis. Designed to complement watershed loading models such as
the Soil and Water Assessment Tool ('SWA [...truncated...]
Author: Jordon Henderson [aut, cre, cph]
Maintainer: Jordon Henderson <jordon.henderson@owrb.ok.gov>
Diff between okBATHTUB versions 0.1.10 dated 2026-05-29 and 0.1.11 dated 2026-06-24
DESCRIPTION | 6 MD5 | 42 +- NEWS.md | 49 +++ R/lake_ecoregions.R | 331 ++++++++++----------- R/okBATHTUB-package.R | 82 ++--- data/ok_lake_ecoregions.rda |binary data/ok_reservoirs.rda |binary inst/doc/getting-started.html | 36 +- inst/doc/hawqs-linkage.html | 26 - inst/doc/oklahoma-workflow.html | 96 +++--- inst/extdata |only man/dot-oklahoma_coefficients.Rd | 116 +++---- man/okBATHTUB-package.Rd | 192 ++++++------ man/ok_lake_ecoregions.Rd | 175 +++++------ man/ok_plot_segments.Rd | 90 ++--- tests/testthat/test-calibration-metadata.R | 219 ++++++-------- tests/testthat/test-inlake-tsi.R | 440 ++++++++++++++--------------- tests/testthat/test-lake-ecoregions.R | 276 +++++++++--------- tests/testthat/test-reservoirs.R | 303 +++++++++---------- 19 files changed, 1269 insertions(+), 1210 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.6.7 dated 2026-04-27 and 1.6.8 dated 2026-06-24
DESCRIPTION | 8 MD5 | 43 R/GPModel.R | 21 R/gpb.Booster.R | 42 README.md | 4 configure.ac | 2 demo/GPBoost_algorithm.R | 39 demo/generalized_linear_Gaussian_process_mixed_effects_models.R | 33 man/GPModel.Rd | 13 man/GPModel_shared_params.Rd | 17 man/fitGPModel.Rd | 13 man/predict.GPModel.Rd | 4 man/predict.gpb.Booster.Rd | 21 src/Makevars.win | 2 src/include/GPBoost/likelihoods.h | 31 src/include/GPBoost/re_model_template.h | 686 +++++----- src/re_model.cpp | 6 tests/testthat/Rplots.pdf |only tests/testthat/_snaps |only tests/testthat/test_GPModel_combined_GP_random_effects.R | 10 tests/testthat/test_GPModel_gaussian_process.R | 4 tests/testthat/test_GPModel_non_Gaussian_data.R | 67 tests/testthat/test_z_GPBoost_algorithm.R | 12 tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R | 13 24 files changed, 595 insertions(+), 496 deletions(-)
Title: 'VigiBase' Pharmacovigilance Database Toolbox
Description: Perform the analysis of the World Health Organization
(WHO) Pharmacovigilance database 'VigiBase' (Extract Case Level version),
<https://who-umc.org/>
e.g., load data, perform data management,
disproportionality analysis, and descriptive statistics. Intended for
pharmacovigilance routine use or studies.
This package is NOT supported nor reflect the opinion of the WHO, or the
Uppsala Monitoring Centre.
Disproportionality methods are described by Norén et
al (2013) <doi:10.1177/0962280211403604>.
Author: Charles Dolladille [aut, cre] ,
Basile Chretien [aut] ,
Universite de Caen Normandie [cph] ,
Unite de pharmaco-epidemiologie [cph]
Maintainer: Charles Dolladille <cdolladille@hotmail.com>
Diff between vigicaen versions 1.0.0 dated 2026-02-06 and 2.0.0 dated 2026-06-24
vigicaen-1.0.0/vigicaen/tests/testthat/_snaps/macos |only vigicaen-2.0.0/vigicaen/DESCRIPTION | 8 vigicaen-2.0.0/vigicaen/MD5 | 168 vigicaen-2.0.0/vigicaen/NAMESPACE | 6 vigicaen-2.0.0/vigicaen/NEWS.md | 853 ++-- vigicaen-2.0.0/vigicaen/R/add_dose.R | 6 vigicaen-2.0.0/vigicaen/R/add_drug.R | 6 vigicaen-2.0.0/vigicaen/R/check_data_type.R | 4 vigicaen-2.0.0/vigicaen/R/check_id_list.R | 22 vigicaen-2.0.0/vigicaen/R/create_example_tables.R | 500 +- vigicaen-2.0.0/vigicaen/R/data_doc.R | 6 vigicaen-2.0.0/vigicaen/R/desc_outcome.R | 346 - vigicaen-2.0.0/vigicaen/R/get_atc_code.R | 28 vigicaen-2.0.0/vigicaen/R/get_drecno.R | 39 vigicaen-2.0.0/vigicaen/R/get_llt_smq.R | 15 vigicaen-2.0.0/vigicaen/R/get_llt_soc.R | 2 vigicaen-2.0.0/vigicaen/R/query_data_type.R | 4 vigicaen-2.0.0/vigicaen/R/reader.R | 27 vigicaen-2.0.0/vigicaen/R/screen_adr.R | 364 - vigicaen-2.0.0/vigicaen/R/screen_drug.R | 272 - vigicaen-2.0.0/vigicaen/R/tb_subset.R | 14 vigicaen-2.0.0/vigicaen/R/tb_vigibase.R | 666 +-- vigicaen-2.0.0/vigicaen/R/tb_who.R | 629 --- vigicaen-2.0.0/vigicaen/R/vigi_routine.R | 1890 +++++----- vigicaen-2.0.0/vigicaen/build/partial.rdb |binary vigicaen-2.0.0/vigicaen/build/vignette.rds |binary vigicaen-2.0.0/vigicaen/data/drug_.rda |binary vigicaen-2.0.0/vigicaen/data/mp_.rda |binary vigicaen-2.0.0/vigicaen/data/thg_.rda |binary vigicaen-2.0.0/vigicaen/inst/doc/basic_workflow.Rmd | 8 vigicaen-2.0.0/vigicaen/inst/doc/basic_workflow.html | 25 vigicaen-2.0.0/vigicaen/inst/doc/getting_started.Rmd | 6 vigicaen-2.0.0/vigicaen/inst/doc/getting_started.html | 5 vigicaen-2.0.0/vigicaen/man/add_dose.Rd | 6 vigicaen-2.0.0/vigicaen/man/add_drug.Rd | 6 vigicaen-2.0.0/vigicaen/man/create_example_tables.Rd | 73 vigicaen-2.0.0/vigicaen/man/demo_.Rd | 2 vigicaen-2.0.0/vigicaen/man/get_atc_code.Rd | 10 vigicaen-2.0.0/vigicaen/man/get_drecno.Rd | 16 vigicaen-2.0.0/vigicaen/man/mp_.Rd | 4 vigicaen-2.0.0/vigicaen/man/tb_subset.Rd | 6 vigicaen-2.0.0/vigicaen/man/tb_vigibase.Rd | 10 vigicaen-2.0.0/vigicaen/man/tb_who.Rd | 10 vigicaen-2.0.0/vigicaen/man/vigicaen-package.Rd | 1 vigicaen-2.0.0/vigicaen/tests/testthat/Rplots.pdf |binary vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/add_adr.md | 256 - vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/add_dose.md | 8 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/add_drug.md | 432 +- vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/add_ind.md | 64 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/check_data_type.md | 1090 ++--- vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/check_id_list.md | 361 + vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/desc_cont.md | 144 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/get_drecno.md | 10 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/get_llt_soc.md | 3 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/query_data_type.md | 116 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/screen_drug.md | 10 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/tb_meddra.md | 8 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/tb_subset.md | 6 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/tb_vigibase.md | 325 - vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/tb_who.md | 84 vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/vigi_routine/exporting-arrow.svg |only vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/vigi_routine/no-rechallenge-arrow.svg |only vigicaen-2.0.0/vigicaen/tests/testthat/_snaps/vigi_routine/no-time-to-onset-arrow.svg |only vigicaen-2.0.0/vigicaen/tests/testthat/test-add_adr.R | 4 vigicaen-2.0.0/vigicaen/tests/testthat/test-add_dose.R | 52 vigicaen-2.0.0/vigicaen/tests/testthat/test-add_drug.R | 20 vigicaen-2.0.0/vigicaen/tests/testthat/test-add_ind.R | 14 vigicaen-2.0.0/vigicaen/tests/testthat/test-check_data_type.R | 8 vigicaen-2.0.0/vigicaen/tests/testthat/test-check_id_list.R | 45 vigicaen-2.0.0/vigicaen/tests/testthat/test-create_example_tables.R | 109 vigicaen-2.0.0/vigicaen/tests/testthat/test-desc_outcome.R | 2 vigicaen-2.0.0/vigicaen/tests/testthat/test-get_atc_code.R | 14 vigicaen-2.0.0/vigicaen/tests/testthat/test-get_drecno.R | 59 vigicaen-2.0.0/vigicaen/tests/testthat/test-get_llt_smq.R | 728 +-- vigicaen-2.0.0/vigicaen/tests/testthat/test-query_data_type.R | 2 vigicaen-2.0.0/vigicaen/tests/testthat/test-screen_drug.R | 6 vigicaen-2.0.0/vigicaen/tests/testthat/test-tb_subset.R | 1036 ++--- vigicaen-2.0.0/vigicaen/tests/testthat/test-tb_vigibase.R | 405 -- vigicaen-2.0.0/vigicaen/tests/testthat/test-tb_who.R | 42 vigicaen-2.0.0/vigicaen/tests/testthat/test-vigi_routine.R | 6 vigicaen-2.0.0/vigicaen/vignettes/basic_workflow.Rmd | 8 vigicaen-2.0.0/vigicaen/vignettes/getting_started.Rmd | 6 82 files changed, 5709 insertions(+), 5837 deletions(-)
Title: Minimal R Documentation Generator
Description: A deterministic, dependency-free documentation generator for R
packages. Generates valid Rd files and NAMESPACE from 'roxygen2'-style comments
using only base R. Supports a strict subset of tags with no markdown parsing,
no inference magic, and explicit-only behavior.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between tinyrox versions 0.3.3 dated 2026-04-15 and 0.4.0 dated 2026-06-24
tinyrox-0.3.3/tinyrox/man/check_code_lines.Rd |only tinyrox-0.3.3/tinyrox/man/check_description_cran.Rd |only tinyrox-0.3.3/tinyrox/man/check_webservice_links.Rd |only tinyrox-0.3.3/tinyrox/man/escape_regex.Rd |only tinyrox-0.3.3/tinyrox/man/find_unquoted_names.Rd |only tinyrox-0.3.3/tinyrox/man/fix_description_cran.Rd |only tinyrox-0.3.3/tinyrox/man/get_dependency_packages.Rd |only tinyrox-0.3.3/tinyrox/man/get_maintainer_from_desc.Rd |only tinyrox-0.3.3/tinyrox/man/quote_names_in_text.Rd |only tinyrox-0.4.0/tinyrox/DESCRIPTION | 16 tinyrox-0.4.0/tinyrox/MD5 | 75 +- tinyrox-0.4.0/tinyrox/NAMESPACE | 2 tinyrox-0.4.0/tinyrox/NEWS.md | 14 tinyrox-0.4.0/tinyrox/R/check_code.R |only tinyrox-0.4.0/tinyrox/R/cran.R | 574 +----------------- tinyrox-0.4.0/tinyrox/R/document.R | 75 +- tinyrox-0.4.0/tinyrox/R/namespace.R | 196 +++--- tinyrox-0.4.0/tinyrox/R/parse.R | 205 +++--- tinyrox-0.4.0/tinyrox/R/rd.R | 446 ++++++++----- tinyrox-0.4.0/tinyrox/R/tags.R | 366 +++++------ tinyrox-0.4.0/tinyrox/README.md | 26 tinyrox-0.4.0/tinyrox/inst/tinytest/test_check_code.R |only tinyrox-0.4.0/tinyrox/inst/tinytest/test_cran.R | 89 -- tinyrox-0.4.0/tinyrox/inst/tinytest/test_namespace.R | 41 + tinyrox-0.4.0/tinyrox/inst/tinytest/test_parse.R | 95 ++ tinyrox-0.4.0/tinyrox/inst/tinytest/test_prune.R |only tinyrox-0.4.0/tinyrox/inst/tinytest/test_rd.R | 126 +++ tinyrox-0.4.0/tinyrox/inst/tinytest/test_rdname.R | 108 +++ tinyrox-0.4.0/tinyrox/inst/tinytest/test_tags.R | 68 ++ tinyrox-0.4.0/tinyrox/man/RD_MARKER.Rd |only tinyrox-0.4.0/tinyrox/man/SUPPORTED_DOC_TAGS.Rd | 2 tinyrox-0.4.0/tinyrox/man/SUPPORTED_TAGS.Rd | 2 tinyrox-0.4.0/tinyrox/man/assigned_names.Rd |only tinyrox-0.4.0/tinyrox/man/call_expr_text.Rd |only tinyrox-0.4.0/tinyrox/man/check_code_cran.Rd | 5 tinyrox-0.4.0/tinyrox/man/check_code_file.Rd |only tinyrox-0.4.0/tinyrox/man/check_code_tokens.Rd |only tinyrox-0.4.0/tinyrox/man/check_cran.Rd | 2 tinyrox-0.4.0/tinyrox/man/detect_s3_method.Rd | 3 tinyrox-0.4.0/tinyrox/man/document.Rd | 14 tinyrox-0.4.0/tinyrox/man/format_usage.Rd | 3 tinyrox-0.4.0/tinyrox/man/generate_all_rd.Rd | 5 tinyrox-0.4.0/tinyrox/man/generate_rd.Rd | 3 tinyrox-0.4.0/tinyrox/man/generate_rd_grouped.Rd | 3 tinyrox-0.4.0/tinyrox/man/prune_stale_rd.Rd |only tinyrox-0.4.0/tinyrox/man/render_sections.Rd |only tinyrox-0.4.0/tinyrox/man/root_function_name.Rd |only tinyrox-0.4.0/tinyrox/man/tinyrox_owns_rd.Rd |only tinyrox-0.4.0/tinyrox/man/token_root.Rd |only tinyrox-0.4.0/tinyrox/man/warn_dropped_directives.Rd |only 50 files changed, 1291 insertions(+), 1273 deletions(-)
Title: Minimal R Package Development Utilities
Description: Lightweight wrappers around 'R CMD INSTALL', 'R CMD check',
'R CMD build', 'win-builder' uploads, and 'CRAN' submission. Provides
functions for installing, loading, checking, building, and submitting
R packages with minimal dependencies (only 'curl' for uploads).
Background on R package development is in Wickham and Bryan (2023,
ISBN:9781098134945), "Writing R Extensions"
<https://cran.r-project.org/doc/manuals/R-exts.html>, and the 'CRAN'
Repository Policy <https://cran.r-project.org/web/packages/policies.html>.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between tinypkgr versions 0.2.1 dated 2026-04-22 and 0.2.2 dated 2026-06-24
DESCRIPTION | 7 ++-- MD5 | 19 ++++++------- NAMESPACE | 1 NEWS.md | 5 +++ R/dev.R | 68 +++++++++++++++++++++++++++++++++++++++++------ R/release.R | 14 ++------- R/use.R | 44 +++++++----------------------- README.md | 2 - inst/tinytest/test_dev.R | 48 +++++++++++++++++++++++++++------ man/document.Rd |only man/load_all.Rd | 22 ++++++++++----- 11 files changed, 151 insertions(+), 79 deletions(-)
Title: Statistical Tools Designed for End Users
Description: The statistical tools in this package do one of four things:
1) Enhance basic statistical functions with more
flexible inputs, smarter defaults, and richer, clearer, and ready-to-use
output (e.g., t.test2())
2) Produce publication-ready commonly needed figures with one line of code (e.g., plot_cdf())
3) Implement novel analytical tools developed by the authors (e.g., twolines())
4) Deliver niche functions of high value to the authors that are not easily
available elsewhere (e.g., clear(), convert_to_sql(), resize_images()).
Author: Uri Simonsohn [aut, cre]
Maintainer: Uri Simonsohn <urisohn@gmail.com>
Diff between statuser versions 0.3.0 dated 2026-05-20 and 0.3.1 dated 2026-06-24
DESCRIPTION | 6 MD5 | 60 ++--- NEWS.md | 18 + R/lm2.R | 95 ++++++-- R/plot_cdf.R | 37 ++- R/plot_means.R | 153 +++++++++---- R/statuser-package.R | 10 R/stimulus.beeswarm.R | 2 R/stimulus.plot.R | 2 R/table2.R | 105 --------- R/utils.R | 33 -- R/validate.R | 19 + R/zzz.R | 6 README.md | 410 ++++++++++++++++-------------------- man/lm2.Rd | 5 man/plot_cdf.Rd | 5 man/plot_means.Rd | 6 man/print.lm2.Rd | 5 man/print.table2.Rd | 10 man/statuser-package.Rd | 10 man/stimulus.beeswarm.Rd | 2 man/stimulus.plot.Rd | 2 man/table2.Rd | 4 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/lm2.md | 14 - tests/testthat/_snaps/table2.md | 99 ++++---- tests/testthat/test-lm2.R | 102 ++++++++ tests/testthat/test-plot_cdf.R | 26 +- tests/testthat/test-plot_means.R | 95 ++++++++ tests/testthat/test-table2.R | 24 ++ tests/testthat/test-validate_plot.R | 47 ++++ 31 files changed, 851 insertions(+), 561 deletions(-)
Title: Principal Curves of Oriented Points
Description: Principal curves generalize the notion of a first principal component to the case in which it is a nonlinear smooth curve. This package provides a function pcop(X) to compute principal curves with the algorithm defined in Delicado (2001) <doi:10.1006/jmva.2000.1917> from a data matrix X.
Author: Pedro Delicado [aut] ,
Mario Huerta [aut] ,
Kevin Michael Frick [trl, aut, cre] ,
Stephen L. Moshier [cph] for symmetric matrix
eigendecomposition)
Maintainer: Kevin Michael Frick <kmfrick@proton.me>
This is a re-admission after prior archival of version 1.1 dated 2023-07-16
Diff between Rpcop versions 1.1 dated 2023-07-16 and 1.2.3 dated 2026-06-24
DESCRIPTION | 47 MD5 | 64 - NAMESPACE | 16 NEWS.md |only R/RcppExports.R | 17 R/Rpcop-package.R |only R/Rpcop.R | 341 +++++- R/srr-general-standards.R |only R/srr-testing-standards.R |only README.md |only build |only inst |only man/Rpcop-package.Rd |only man/pcop-methods.Rd |only man/pcop.Rd | 57 - man/pcop_backend.Rd | 13 src/RcppExports.cpp | 33 src/espai.h | 58 - src/espai_rba_f.cpp | 2544 +++++++++++++++++++++++----------------------- src/ll_flt.h | 60 - src/ll_p.cpp | 305 +++-- src/ll_p.h | 85 - src/ll_pnt.h | 14 src/ll_q.cpp | 5 src/ll_q.h | 6 src/ma.cpp | 52 src/ma.h | 12 src/main.cpp | 102 + src/mb.cpp | 197 ++- src/mb.h | 31 src/pila.cpp | 10 src/pila.h | 5 tests |only vignettes |only 34 files changed, 2305 insertions(+), 1769 deletions(-)
Title: Manipulate SNOMED CT Diagnosis Lists
Description: Functions and methods for manipulating 'SNOMED CT'
concepts. The package contains functions for loading the 'SNOMED CT'
release into a convenient R environment, selecting 'SNOMED CT'
concepts using regular expressions, and navigating the 'SNOMED CT'
ontology. It provides the 'SNOMEDconcept' S3 class for a vector of
'SNOMED CT' concepts (stored as 64-bit integers) and the
'SNOMEDcodelist' S3 class for a table of concepts IDs with
descriptions. The package can be used to construct sets of
'SNOMED CT' concepts for research (<doi:10.1093/jamia/ocac158>).
For more information about 'SNOMED CT' visit
<https://www.snomed.org/>.
Author: Anoop D. Shah [aut, cre]
Maintainer: Anoop D. Shah <anoop@doctors.org.uk>
This is a re-admission after prior archival of version 1.4.0 dated 2025-01-29
Diff between Rdiagnosislist versions 1.4.0 dated 2025-01-29 and 1.5.1 dated 2026-06-24
Rdiagnosislist-1.4.0/Rdiagnosislist/data/MANUAL_SYNONYMS.R |only Rdiagnosislist-1.4.0/Rdiagnosislist/data/MANUAL_SYNONYMS.csv |only Rdiagnosislist-1.5.1/Rdiagnosislist/DESCRIPTION | 14 Rdiagnosislist-1.5.1/Rdiagnosislist/MD5 | 66 Rdiagnosislist-1.5.1/Rdiagnosislist/NAMESPACE | 1 Rdiagnosislist-1.5.1/Rdiagnosislist/NEWS | 34 Rdiagnosislist-1.5.1/Rdiagnosislist/R/Rdiagnosislist.R | 2 Rdiagnosislist-1.5.1/Rdiagnosislist/R/SNOMEDcodelist.R | 22 Rdiagnosislist-1.5.1/Rdiagnosislist/R/addComposeLookupToCDB.R | 25 Rdiagnosislist-1.5.1/Rdiagnosislist/R/cdb.R | 495 ++++-- Rdiagnosislist-1.5.1/Rdiagnosislist/R/compose.R | 54 Rdiagnosislist-1.5.1/Rdiagnosislist/R/decompose.R | 47 Rdiagnosislist-1.5.1/Rdiagnosislist/R/loadSNOMED.R | 54 Rdiagnosislist-1.5.1/Rdiagnosislist/R/mapping.R | 49 Rdiagnosislist-1.5.1/Rdiagnosislist/R/orphanet.R | 4 Rdiagnosislist-1.5.1/Rdiagnosislist/build/vignette.rds |binary Rdiagnosislist-1.5.1/Rdiagnosislist/data/MANUAL_SYNONYMS.csv.gz |only Rdiagnosislist-1.5.1/Rdiagnosislist/data/MANUAL_SYNONYMS.rda |only Rdiagnosislist-1.5.1/Rdiagnosislist/inst/doc/SNOMEDcodelists.html | 792 ++++++---- Rdiagnosislist-1.5.1/Rdiagnosislist/inst/doc/convertingAndCreatingCodelists.html | 464 +++-- Rdiagnosislist-1.5.1/Rdiagnosislist/inst/doc/creatingConceptDatabaseForNLP.Rmd | 4 Rdiagnosislist-1.5.1/Rdiagnosislist/inst/doc/creatingConceptDatabaseForNLP.html | 353 +++- Rdiagnosislist-1.5.1/Rdiagnosislist/inst/doc/customHierarchy.html | 294 ++- Rdiagnosislist-1.5.1/Rdiagnosislist/man/Rdiagnosislist-package.Rd | 7 Rdiagnosislist-1.5.1/Rdiagnosislist/man/addComposeLookupToCDB.Rd | 6 Rdiagnosislist-1.5.1/Rdiagnosislist/man/addInactiveConcepts.Rd | 12 Rdiagnosislist-1.5.1/Rdiagnosislist/man/compose.Rd | 2 Rdiagnosislist-1.5.1/Rdiagnosislist/man/createCDB.Rd | 33 Rdiagnosislist-1.5.1/Rdiagnosislist/man/downloadOrphanet.Rd | 5 Rdiagnosislist-1.5.1/Rdiagnosislist/man/exportMiADECDB.Rd | 19 Rdiagnosislist-1.5.1/Rdiagnosislist/man/getMaps.Rd | 7 Rdiagnosislist-1.5.1/Rdiagnosislist/man/loadSNOMED.Rd | 3 Rdiagnosislist-1.5.1/Rdiagnosislist/tests/testthat/test_cdb.R | 31 Rdiagnosislist-1.5.1/Rdiagnosislist/tests/testthat/test_loadSNOMED.R | 50 Rdiagnosislist-1.5.1/Rdiagnosislist/tests/testthat/test_mapping.R | 11 Rdiagnosislist-1.5.1/Rdiagnosislist/vignettes/creatingConceptDatabaseForNLP.Rmd | 4 36 files changed, 1940 insertions(+), 1024 deletions(-)
More information about Rdiagnosislist at CRAN
Permanent link
Title: An R Package for Facilitating Large-Scale Latent Variable
Analyses in Mplus
Description: Leverages the R language to automate latent variable model estimation
and interpretation using 'Mplus', a powerful latent variable modeling program
developed by Muthen and Muthen (<https://www.statmodel.com>). Specifically, this package
provides routines for creating related groups of models, running batches of
models, and extracting and tabulating model parameters and fit statistics.
Author: Michael Hallquist [aut, cre],
Joshua Wiley [aut],
Caspar van Lissa [ctb],
Daniel Morillo [ctb]
Maintainer: Michael Hallquist <michael.hallquist@gmail.com>
Diff between MplusAutomation versions 1.2 dated 2025-09-02 and 1.3 dated 2026-06-24
MplusAutomation-1.2/MplusAutomation/man/dot-convertData.Rd |only MplusAutomation-1.2/MplusAutomation/man/dot-mplusMultinomial.Rd |only MplusAutomation-1.3/MplusAutomation/DESCRIPTION | 10 MplusAutomation-1.3/MplusAutomation/MD5 | 275 +++ MplusAutomation-1.3/MplusAutomation/NAMESPACE | 2 MplusAutomation-1.3/MplusAutomation/NEWS | 15 MplusAutomation-1.3/MplusAutomation/R/MplusAutomation.R | 8 MplusAutomation-1.3/MplusAutomation/R/extractAuxDis.R | 7 MplusAutomation-1.3/MplusAutomation/R/extractIndirect.R | 53 MplusAutomation-1.3/MplusAutomation/R/extractParameters.R | 4 MplusAutomation-1.3/MplusAutomation/R/extractRandomStarts.R |only MplusAutomation-1.3/MplusAutomation/R/extractSaveData.R | 9 MplusAutomation-1.3/MplusAutomation/R/extractSvalues.R |only MplusAutomation-1.3/MplusAutomation/R/extractTech10.R |only MplusAutomation-1.3/MplusAutomation/R/graphModels.R | 10 MplusAutomation-1.3/MplusAutomation/R/mixtures.R | 63 MplusAutomation-1.3/MplusAutomation/R/mplus.R | 126 - MplusAutomation-1.3/MplusAutomation/R/mplusModel.R | 718 ++++++++-- MplusAutomation-1.3/MplusAutomation/R/mplusVariableParser.R |only MplusAutomation-1.3/MplusAutomation/R/mplusglm.R | 18 MplusAutomation-1.3/MplusAutomation/R/parseOutput.R | 401 ++--- MplusAutomation-1.3/MplusAutomation/R/prepareMplusData.R | 40 MplusAutomation-1.3/MplusAutomation/R/readModels.R | 229 ++- MplusAutomation-1.3/MplusAutomation/R/summary.R | 171 ++ MplusAutomation-1.3/MplusAutomation/R/utilityFunctions.R | 372 ++++- MplusAutomation-1.3/MplusAutomation/build/vignette.rds |binary MplusAutomation-1.3/MplusAutomation/inst/doc/mplusModel.R |only MplusAutomation-1.3/MplusAutomation/inst/doc/mplusModel.Rmd |only MplusAutomation-1.3/MplusAutomation/inst/doc/mplusModel.html |only MplusAutomation-1.3/MplusAutomation/inst/doc/submitModels.html | 4 MplusAutomation-1.3/MplusAutomation/inst/doc/vignette.Rmd | 4 MplusAutomation-1.3/MplusAutomation/inst/doc/vignette.html | 44 MplusAutomation-1.3/MplusAutomation/man/HTMLSummaryTable.Rd | 6 MplusAutomation-1.3/MplusAutomation/man/LatexSummaryTable.Rd | 6 MplusAutomation-1.3/MplusAutomation/man/MplusAutomation.Rd | 4 MplusAutomation-1.3/MplusAutomation/man/MplusAutomationUtils.Rd | 18 MplusAutomation-1.3/MplusAutomation/man/SummaryTable.Rd | 6 MplusAutomation-1.3/MplusAutomation/man/convertData.Rd |only MplusAutomation-1.3/MplusAutomation/man/createMixtures.Rd | 4 MplusAutomation-1.3/MplusAutomation/man/extractMplusVariables.Rd |only MplusAutomation-1.3/MplusAutomation/man/extractRandomStarts.Rd |only MplusAutomation-1.3/MplusAutomation/man/extractSummaries_1plan.Rd | 3 MplusAutomation-1.3/MplusAutomation/man/extractSvalues.Rd |only MplusAutomation-1.3/MplusAutomation/man/extractTech10.Rd | 5 MplusAutomation-1.3/MplusAutomation/man/getMultilineSection.Rd | 4 MplusAutomation-1.3/MplusAutomation/man/getSavedata_Bparams.Rd | 4 MplusAutomation-1.3/MplusAutomation/man/get_results.Rd | 4 MplusAutomation-1.3/MplusAutomation/man/mixtureSummaryTable.Rd | 6 MplusAutomation-1.3/MplusAutomation/man/mplusGLM.Rd | 2 MplusAutomation-1.3/MplusAutomation/man/mplusModel.Rd | 9 MplusAutomation-1.3/MplusAutomation/man/mplusModel_r6.Rd | 52 MplusAutomation-1.3/MplusAutomation/man/mplusModeler.Rd | 9 MplusAutomation-1.3/MplusAutomation/man/mplusMultinomial.Rd |only MplusAutomation-1.3/MplusAutomation/man/readModels.Rd | 7 MplusAutomation-1.3/MplusAutomation/man/sanitize_mplus_text.Rd |only MplusAutomation-1.3/MplusAutomation/tests/testthat/iris_1_class.out | 6 MplusAutomation-1.3/MplusAutomation/tests/testthat/iris_2_class.out | 6 MplusAutomation-1.3/MplusAutomation/tests/testthat/iris_3_class.out | 6 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_batch_files/1_ex3.1.sbatch | 2 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_batch_files/2_ex3.2.sbatch | 2 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_batch_files/3_ex3.3.sbatch | 2 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_batch_files/4_ex3.4.sbatch | 2 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_batch_files/5_ex3.5.sbatch | 2 MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_ug/8.11/ch5 |only MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_ug/8.11/ch7 |only MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_ug/8.11/ch8/ex8.6_svalues.inp |only MplusAutomation-1.3/MplusAutomation/tests/testthat/mplus_ug/8.11/ch8/ex8.6_svalues.out |only MplusAutomation-1.3/MplusAutomation/tests/testthat/submitModels/job_combine/batchfiles |only MplusAutomation-1.3/MplusAutomation/tests/testthat/svalues |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-data-summary.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-empty-section-contract.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-encoding-robustness.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-issue158_createmixtures.R | 7 MplusAutomation-1.3/MplusAutomation/tests/testthat/test-issue206.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-lca.R | 114 + MplusAutomation-1.3/MplusAutomation/tests/testthat/test-model-table.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-mplusModel.R | 616 ++++++++ MplusAutomation-1.3/MplusAutomation/tests/testthat/test-sampstat-missing.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-section-parsing.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-svalues.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-tech10.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-tech4.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-typed-empties.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-ug-ch5.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/test-variable-detection.R |only MplusAutomation-1.3/MplusAutomation/tests/testthat/three_cov.out |only MplusAutomation-1.3/MplusAutomation/tests/testthat/threeclass1.out |only MplusAutomation-1.3/MplusAutomation/vignettes/mplusModel.Rmd |only MplusAutomation-1.3/MplusAutomation/vignettes/vignette.Rmd | 4 89 files changed, 2773 insertions(+), 728 deletions(-)
More information about MplusAutomation at CRAN
Permanent link
Title: Hybrid Markov Chain Monte Carlo Using Gaussian Processes
Description: Hybrid Markov chain Monte Carlo (MCMC) for sampling from
multimodal target distributions when derivatives are unavailable.
A Gaussian process approximation is used to emulate derivatives,
enabling efficient exploration with parallel tempering. The method
is described in Fielding, Nott and Liong (2011)
<doi:10.1198/TECH.2010.09195>. The research was carried out as part
of the Singapore-Delft Water Alliance Multi-Objective Multi-Reservoir
Management programme (R-264-001-272).
Author: Mark J. Fielding [aut, cre]
Maintainer: Mark J. Fielding <mark.fielding@gmx.com>
This is a re-admission after prior archival of version 5.4 dated 2020-11-12
Diff between MCMChybridGP versions 5.4 dated 2020-11-12 and 7.0.1 dated 2026-06-24
MCMChybridGP-5.4/MCMChybridGP/src/MCMChybridGP.c |only MCMChybridGP-7.0.1/MCMChybridGP/DESCRIPTION | 46 - MCMChybridGP-7.0.1/MCMChybridGP/MD5 | 18 MCMChybridGP-7.0.1/MCMChybridGP/NAMESPACE | 22 MCMChybridGP-7.0.1/MCMChybridGP/R/GProcess.R | 192 ++-- MCMChybridGP-7.0.1/MCMChybridGP/R/MCMChybridGP-internal.R | 52 + MCMChybridGP-7.0.1/MCMChybridGP/R/RcppExports.R |only MCMChybridGP-7.0.1/MCMChybridGP/R/hybrid.explore.R | 630 ++++++++------ MCMChybridGP-7.0.1/MCMChybridGP/R/hybrid.sample.R | 226 +++-- MCMChybridGP-7.0.1/MCMChybridGP/man/hybrid.sample.Rd | 2 MCMChybridGP-7.0.1/MCMChybridGP/src/MCMChybridGP.cpp |only MCMChybridGP-7.0.1/MCMChybridGP/src/RcppExports.cpp |only 12 files changed, 738 insertions(+), 450 deletions(-)
Title: Statistical Combination of Diagnostic Tests
Description: A system for combining two diagnostic tests using various approaches
that include statistical and machine-learning-based methodologies.
These approaches are divided into four groups: linear combination
methods, non-linear combination methods, mathematical operators,
and machine learning algorithms. See
the <https://biotools.erciyes.edu.tr/dtComb/> website
for more information, documentation, and examples.
Author: Serra Ilayda Yerlitas Tastan [aut, ctb],
Serra Bersan Gengec [aut, ctb],
Necla Kochan [aut, ctb],
Gozde Erturk Zararsiz [aut, ctb],
Selcuk Korkmaz [aut, ctb],
Gokmen Zararsiz [aut, ctb, cre]
Maintainer: Gokmen Zararsiz <gokmen.zararsiz@gmail.com>
Diff between dtComb versions 1.0.7 dated 2025-03-30 and 1.0.8 dated 2026-06-24
DESCRIPTION | 12 - LICENSE | 2 MD5 | 86 ++++++------ R/linComb.R | 202 ++++++----------------------- R/mathComb.R | 192 ++++------------------------ R/mlComb.R | 267 +++++++++++++++++++++------------------ R/nonlinComb.R | 183 +++++++------------------- R/plotComb.R | 4 R/predict.dtComb.R | 7 - R/printtrain.R | 4 R/rocsum.R | 10 - R/standardization.R | 6 R/validator.R |only inst/doc/vignettedtComb.R | 6 inst/doc/vignettedtComb.Rnw | 11 - inst/doc/vignettedtComb.pdf |binary man/availableMethods.Rd | 2 man/dtComb.Rd | 2 man/helper_PCL.Rd | 2 man/helper_PT.Rd | 2 man/helper_TS.Rd | 2 man/helper_minimax.Rd | 2 man/helper_minmax.Rd | 2 man/kappa.accuracy.Rd | 2 man/linComb.Rd | 6 man/mathComb.Rd | 6 man/mlComb.Rd | 48 ++++--- man/nonlinComb.Rd | 6 man/plotComb.Rd | 4 man/predict.dtComb.Rd | 6 man/print_train.Rd | 2 man/rocsum.Rd | 4 man/std.test.Rd | 2 man/std.train.Rd | 2 man/transform_math.Rd | 2 man/validateLinComb.Rd |only man/validateMathComb.Rd |only man/validateMlComb.Rd |only man/validateNonlinComb.Rd |only man/validateParameters.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test-linComb.R | 37 +++-- tests/testthat/test-mathComb.R | 39 ++--- tests/testthat/test-mlComb.R | 20 +- tests/testthat/test-nonlinComb.R | 32 ++-- vignettes/dtComb.bib | 11 - vignettes/vignettedtComb.Rnw | 11 - 47 files changed, 492 insertions(+), 754 deletions(-)
Title: Mutation Testing
Description: Measure quality of your tests.
'muttest' introduces small changes (mutations) to your code
and runs your tests to check if they catch the changes.
If they do, your tests are good.
If not, your assertions are not specific enough.
'muttest' gives you percent score of how often your tests catch the changes.
Author: Jakub Sobolewski [aut, cre]
Maintainer: Jakub Sobolewski <jakupsob@gmail.com>
Diff between muttest versions 0.2.0 dated 2026-05-14 and 0.2.1 dated 2026-06-24
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 4 ++++ R/mutator-boolean.R | 4 ++-- R/mutator-call.R | 2 +- R/mutator-condition.R | 2 +- R/mutator-index.R | 4 ++-- R/mutator-na.R | 2 +- R/mutator-numeric.R | 2 +- R/mutator-operator.R | 8 ++++++-- R/mutator-return.R | 5 ++++- R/mutator-statement.R | 10 +++++----- R/mutator-string.R | 4 ++-- R/mutator-unary.R | 2 +- 14 files changed, 47 insertions(+), 36 deletions(-)
Title: Create Vector Tiles from Spatial Data
Description: Create vector tile archives in 'PMTiles' format from 'sf' spatial
data frames. Supports 'Mapbox Vector Tile' ('MVT') and 'MapLibre Tile'
('MLT') output formats. Uses a 'Rust' backend via 'extendr' for fast,
in-memory tiling with zero external system dependencies.
Author: Kyle Walker [aut, cre]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between freestiler versions 0.1.7 dated 2026-05-12 and 0.2.0 dated 2026-06-24
DESCRIPTION | 10 +- MD5 | 21 +++--- NAMESPACE | 2 NEWS.md | 26 +++++++ R/freestile_h3.R |only man/freestile_h3.Rd |only man/view_h3_tiles.Rd |only src/rust/Cargo.lock | 68 +++++++++---------- src/rust/freestiler-core/src/lib.rs | 1 src/rust/freestiler-core/src/mlt.rs | 101 +++++++++------------------- src/rust/freestiler-core/src/mvt.rs | 108 ++++++------------------------- src/rust/freestiler-core/src/quantize.rs |only src/rust/vendor.tar.xz |binary tests/testthat/test-h3.R |only 14 files changed, 136 insertions(+), 201 deletions(-)
Title: DSM and LiDAR Downloader
Description: A collection of functions to search and download
DSM (Digital Surface Model) and LiDAR (Light Detection and Ranging) data via APIs,
including 'OpenTopography' <https://portal.opentopography.org/apidocs/> and
'TNMAccess' <https://apps.nationalmap.gov/tnmaccess/#/>.
Author: Xiaohao Yang [aut, cre, cph],
Nathan Fox [aut],
Derek Van Berkel [aut],
Mark Lindquist [aut]
Maintainer: Xiaohao Yang <xiaohaoy@umich.edu>
This is a re-admission after prior archival of version 1.2.2 dated 2025-10-24
Diff between dsmSearch versions 1.2.2 dated 2025-10-24 and 1.2.4 dated 2026-06-24
dsmSearch-1.2.2/dsmSearch/R/sysdata.rda |only dsmSearch-1.2.4/dsmSearch/DESCRIPTION | 20 dsmSearch-1.2.4/dsmSearch/MD5 | 20 dsmSearch-1.2.4/dsmSearch/NAMESPACE | 7 dsmSearch-1.2.4/dsmSearch/R/canopy_height_internal.R |only dsmSearch-1.2.4/dsmSearch/R/get_dsm_30.R | 9 dsmSearch-1.2.4/dsmSearch/R/get_lidar.R | 28 - dsmSearch-1.2.4/dsmSearch/R/lidar_search.R | 2 dsmSearch-1.2.4/dsmSearch/R/utils.R | 375 -------------- dsmSearch-1.2.4/dsmSearch/build/vignette.rds |binary dsmSearch-1.2.4/dsmSearch/man/get_lidar.Rd | 27 - dsmSearch-1.2.4/dsmSearch/tests/testthat/test-get_lidar.R | 9 12 files changed, 53 insertions(+), 444 deletions(-)
Title: Imputation for Proteomics
Description: Functions to analyse missing value mechanisms and to impute data sets in the context of bottom-up MS-based proteomics.
Author: Quentin Giai Gianetto [aut, cre],
Samuel Wieczorek [ctb],
Yohann Coute [ctb],
Thomas Burger [aut]
Maintainer: Quentin Giai Gianetto <quentin.giaigianetto@pasteur.fr>
Diff between imp4p versions 1.2 dated 2021-09-02 and 1.3 dated 2026-06-24
DESCRIPTION | 21 +- MD5 | 26 +-- NAMESPACE | 2 R/impute_RF.R | 22 -- R/impute_mi.R | 25 --- R/impute_mix.R | 17 -- R/impute_slsa.R | 446 +++++++++++++++++++++++++++--------------------------- R/mi_mix.R | 16 - build/partial.rdb |binary man/impute_PCA.Rd | 4 man/impute_RF.Rd | 32 +-- man/impute_mi.Rd | 18 -- man/impute_mix.Rd | 20 -- man/mi_mix.Rd | 20 -- 14 files changed, 302 insertions(+), 367 deletions(-)
Title: Comprehensive R Wrapper and Shiny Interface for 'Alphavantage
Financial Data' API
Description: Download, manage, and visualize via Shiny App 'Alphavantage financial data' <https://www.alphavantage.co/documentation/>. Data is downloaded and organized into `data.table` objects using a single calling function with optional helper functions to extract and simplify more complex data. A Shiny interface is also provided to download, manage, and graph asset prices and characteristics.
Author: Derek Holmes [aut, cre, cph]
Maintainer: Derek Holmes <derek@derekholmes.com>
Diff between alphavantagepf versions 0.8.0 dated 2026-06-22 and 0.8.1 dated 2026-06-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 8 ++++++++ R/preamble.R | 17 ++++++++++++----- 4 files changed, 26 insertions(+), 11 deletions(-)
More information about alphavantagepf at CRAN
Permanent link
Title: Identify Rogue Taxa in Sets of Phylogenetic Trees
Description: Rogue ("wildcard") taxa are leaves with uncertain phylogenetic
position.
Their position may vary from tree to tree under inference methods that yield a
tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony).
The presence of rogue taxa in a tree set can potentially remove all
information from a consensus tree. The information content of a consensus
tree - a function of its resolution and branch support values - can often be
increased by removing rogue taxa.
'Rogue' provides an explicitly information-theoretic approach to rogue
detection (Smith 2022) <doi:10.1093/sysbio/syab099>,
and an interface to 'RogueNaRok' (Aberer et al. 2013)
<doi:10.1093/sysbio/sys078>.
Author: Martin R. Smith [aut, cre, cph] ,
Andre J. Aberer [aut, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Rogue versions 2.2.0 dated 2026-03-25 and 2.2.1 dated 2026-06-24
DESCRIPTION | 12 - MD5 | 28 +- NAMESPACE | 8 NEWS.md | 6 R/RogueTaxa.R | 11 R/SPIC.R | 4 R/stability.R | 562 +++++++++++++++++++++++------------------------- build/partial.rdb |binary inst/doc/Bayesian.html | 4 man/RogueTaxa.Rd | 15 - man/TipInstability.Rd | 4 src/Makevars | 7 src/Rogue_init.c | 2 src/geodesic.h |only src/graph_geodesic.c | 2 src/tip_instability.cpp |only 16 files changed, 343 insertions(+), 322 deletions(-)
Title: Make Symmetric and Asymmetric ARDL Estimations
Description: Implements estimation procedures for Autoregressive Distributed Lag (ARDL)
and Nonlinear ARDL (NARDL) models, which allow researchers to investigate both
short- and long-run relationships in time series data under mixed orders of integration.
The package supports simultaneous modeling of symmetric and asymmetric regressors,
flexible treatment of short-run and long-run asymmetries, and automated equation handling.
It includes several cointegration testing approaches such as the Pesaran-Shin-Smith F
and t bounds tests, and narayan test.
Methodological foundations are provided in Pesaran, Shin, and Smith (2001)
<doi:10.1016/S0304-4076(01)00049-5> and Shin, Yu, and Greenwood-Nimmo (2014, ISBN:9780123855079).
Author: Huseyin karamelikli [aut, cre] ,
Huseyin Utku Demir [aut]
Maintainer: Huseyin karamelikli <hakperest@gmail.com>
Diff between kardl versions 1.3.1 dated 2026-04-30 and 2.0.2 dated 2026-06-24
kardl-1.3.1/kardl/inst/examples |only kardl-1.3.1/kardl/man/modelCriterion.Rd |only kardl-2.0.2/kardl/DESCRIPTION | 18 kardl-2.0.2/kardl/MD5 | 108 kardl-2.0.2/kardl/NAMESPACE | 39 kardl-2.0.2/kardl/NEWS.md | 58 kardl-2.0.2/kardl/R/critvals.R |only kardl-2.0.2/kardl/R/data.R | 24 kardl-2.0.2/kardl/R/extract.R |only kardl-2.0.2/kardl/R/kardl-package.R |only kardl-2.0.2/kardl/R/kardl.R | 1801 ++++-- kardl-2.0.2/kardl/R/longrun.R | 281 - kardl-2.0.2/kardl/R/miscellaneous.R | 409 - kardl-2.0.2/kardl/R/multipliers.R | 1122 ++-- kardl-2.0.2/kardl/R/prepare.R | 1259 ++-- kardl-2.0.2/kardl/R/print.R | 532 + kardl-2.0.2/kardl/R/srr-stats-standards.R | 510 + kardl-2.0.2/kardl/R/tests.R | 2727 ++++++---- kardl-2.0.2/kardl/R/zzz.R | 128 kardl-2.0.2/kardl/README.md | 325 - kardl-2.0.2/kardl/build/partial.rdb |only kardl-2.0.2/kardl/build/vignette.rds |binary kardl-2.0.2/kardl/data/imf_example_data.rda |binary kardl-2.0.2/kardl/inst/doc/intro.R | 217 kardl-2.0.2/kardl/inst/doc/intro.Rmd | 263 kardl-2.0.2/kardl/inst/doc/intro.html | 642 +- kardl-2.0.2/kardl/man/bootstrap.Rd | 145 kardl-2.0.2/kardl/man/ecm.Rd | 332 - kardl-2.0.2/kardl/man/figures/lifecycle-deprecated.svg |only kardl-2.0.2/kardl/man/figures/lifecycle-experimental.svg |only kardl-2.0.2/kardl/man/figures/lifecycle-stable.svg |only kardl-2.0.2/kardl/man/figures/lifecycle-superseded.svg |only kardl-2.0.2/kardl/man/imf_example_data.Rd | 20 kardl-2.0.2/kardl/man/kardl-package.Rd |only kardl-2.0.2/kardl/man/kardl.Rd | 342 - kardl-2.0.2/kardl/man/kardl_extract.Rd |only kardl-2.0.2/kardl/man/kardl_get.Rd | 17 kardl-2.0.2/kardl/man/kardl_longrun.Rd | 82 kardl-2.0.2/kardl/man/kardl_reset.Rd | 9 kardl-2.0.2/kardl/man/kardl_set.Rd | 27 kardl-2.0.2/kardl/man/lmerge.Rd | 61 kardl-2.0.2/kardl/man/model_criterion.Rd |only kardl-2.0.2/kardl/man/mplier.Rd | 160 kardl-2.0.2/kardl/man/narayan.Rd | 119 kardl-2.0.2/kardl/man/parse_formula_vars.Rd | 32 kardl-2.0.2/kardl/man/parse_model_specs.Rd |only kardl-2.0.2/kardl/man/pssf.Rd | 138 kardl-2.0.2/kardl/man/psst.Rd | 93 kardl-2.0.2/kardl/man/symmetrytest.Rd | 249 kardl-2.0.2/kardl/tests/testthat/Rplots.pdf |binary kardl-2.0.2/kardl/tests/testthat/test-bounds-tests.R |only kardl-2.0.2/kardl/tests/testthat/test-comprehensive-coverage.R |only kardl-2.0.2/kardl/tests/testthat/test-decision-advanced.R |only kardl-2.0.2/kardl/tests/testthat/test-error-conditions.R |only kardl-2.0.2/kardl/tests/testthat/test-extract-advanced.R |only kardl-2.0.2/kardl/tests/testthat/test-extract.R |only kardl-2.0.2/kardl/tests/testthat/test-kardl.R | 158 kardl-2.0.2/kardl/tests/testthat/test-miscellaneous-advanced.R |only kardl-2.0.2/kardl/tests/testthat/test-multipliers.R | 95 kardl-2.0.2/kardl/tests/testthat/test-parse-model-specs.R |only kardl-2.0.2/kardl/tests/testthat/test-print-advanced.R |only kardl-2.0.2/kardl/tests/testthat/test-print-summary.R | 61 kardl-2.0.2/kardl/tests/testthat/test-print.R |only kardl-2.0.2/kardl/tests/testthat/test-settings.R | 80 kardl-2.0.2/kardl/tests/testthat/test-tests.R | 187 kardl-2.0.2/kardl/tests/testthat/test-utils.R | 96 kardl-2.0.2/kardl/vignettes/intro.Rmd | 263 67 files changed, 8218 insertions(+), 5011 deletions(-)
Title: Plot the Effects of Variables in Interaction Terms
Description: Plots the conditional coefficients ("marginal effects") of
variables included in multiplicative interaction terms.
Author: Frederick Solt [aut],
Yue Hu [aut, cre],
Brenton Kenkel [ctb]
Maintainer: Yue Hu <yuehu@tsinghua.edu.cn>
Diff between interplot versions 0.2.3 dated 2021-02-18 and 1.2.0 dated 2026-06-24
DESCRIPTION | 17 MD5 | 59 +- NAMESPACE | 21 NEWS.md | 65 ++ R/Interplot.R | 41 - R/Interplot_brms.R |only R/Interplot_default.R | 975 +++++++++++++++++++++------------- R/Interplot_mi.R | 1117 +++++++++++++++++---------------------- R/Interplot_mlm.R | 942 ++++++++++++++------------------ R/Interplot_mlmmi.R | 996 ++++++++++++++++------------------ R/Interplot_plot.R | 455 ++++++++++++--- R/bin_layer.R |only R/johnson_neyman.R |only R/utils.R |only README.md | 2 build/vignette.rds |binary inst/doc/interplot-vignette.R | 50 + inst/doc/interplot-vignette.Rmd | 112 +++ inst/doc/interplot-vignette.html | 995 ++++++++++++++++++++++++++-------- man/bin_layer.Rd |only man/interplot.Rd | 15 man/interplot.brmsfit.Rd |only man/interplot.default.Rd | 11 man/interplot.lmerMod.Rd | 9 man/interplot.lmmi.Rd | 13 man/interplot.mlmmi.Rd | 11 man/interplot.plot.Rd | 3 man/jn_interval.Rd |only man/jn_layer.Rd |only tests |only vignettes/interplot-vignette.Rmd | 112 +++ vignettes/vignette.bib | 4 32 files changed, 3555 insertions(+), 2470 deletions(-)
More information about productshotaiR at CRAN
Permanent link
Title: Create Non-Confidential Multi-Resolution Grids
Description: The need for anonymization of individual survey responses often leads to many suppressed grid cells in a regular grid. Here we provide functionality for creating multi-resolution gridded data, respecting the confidentiality rules, such as a minimum number of units and dominance by one or more units for each grid cell. The functions also include the possibility for contextual suppression of data. For more details see Skoien et al. (2025) <doi:10.48550/arXiv.2410.17601>.
Author: Jon Olav Skoien [aut, cre],
Nicolas Lampach [aut]
Maintainer: Jon Olav Skoien <jon.skoien@gmail.com>
Diff between MRG versions 0.3.25 dated 2026-02-26 and 0.3.29 dated 2026-06-24
DESCRIPTION | 6 - MD5 | 43 +++++---- NAMESPACE | 8 + R/MRGmerge.R | 216 +++++++++++++++++++++++++++++++++++++++++++++---- R/MRGplot.R | 4 R/confid.R | 5 - R/createMRGobject.R | 24 ++++- R/fssgeo.R | 1 R/gridData.R | 52 +++++++---- R/gridData2.R |only R/ifsDoc.R | 3 R/ifsDoc_himg5.R |only R/multiResGrid.R | 37 ++++++-- R/remSmall.R | 4 R/roxygen_eval.R | 31 +++++-- data/himg5.rda |only man/MRGplot.Rd | 5 - man/MRGpostProcess.Rd | 16 ++- man/createMRGobject.Rd | 29 +++++- man/gridData.Rd | 5 + man/gridData2.Rd |only man/himg5.Rd |only man/ifs_dk.Rd | 5 - man/multiResGrid.Rd | 28 ++++-- man/remSmall.Rd | 4 25 files changed, 416 insertions(+), 110 deletions(-)
More information about hypergraph.sizing at CRAN
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More information about ExtremeConformal at CRAN
Permanent link
Title: Access 'umwelt.info' API
Description: Provides an R-based access to the datasets including their
resources from the portal <https://umwelt.info>. The package allows for
an easy integration of those datasets into your R-based workflows. The
functionality of the package mirrors the web-based access as provided
at <https://umwelt.info>. You can use the same queries and get the same
datasets by accessing our API.
Author: Johannes Vogel [aut, cre],
Maximilian Berthold [aut],
Luise Quoss [ctb],
Nationales Zentrum fuer Umwelt- und Naturschutzinformationen [cph]
Maintainer: Johannes Vogel <johannes.vogel@uba.de>
Diff between umweltapir versions 0.2.0 dated 2026-06-18 and 0.2.1 dated 2026-06-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/fetch_api.R | 3 ++- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Minimal OAuth 2.0 Client
Description: A dependency-light OAuth 2.0
<https://www.rfc-editor.org/rfc/rfc6749> client supporting the
client-credentials and authorization-code grants with token refresh.
Built on 'curl' and 'jsonlite', with base R's socket server for the
redirect listener, avoiding heavier HTTP stacks.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between tinyoauth versions 0.1.0 dated 2026-06-17 and 0.1.1 dated 2026-06-24
DESCRIPTION | 17 ++----- MD5 | 53 ++++++++++++++--------- NAMESPACE | 2 NEWS.md | 9 ++++ R/anthropic.R |only R/api.R | 82 +++++++++++++++++++------------------ R/authcode.R | 27 ++++-------- R/cache.R | 4 - R/client.R | 1 R/import.R | 1 R/jwt.R | 1 R/openai_codex.R | 14 ------ R/request.R | 76 +++++++++++++++++----------------- R/tinyoauth-package.R | 1 R/token.R | 17 +------ build/partial.rdb |binary inst/tinytest/test_anthropic.R |only man/anthropic_claude_client.Rd |only man/dot-anthropic_authorize_url.Rd |only man/dot-anthropic_exchange.Rd |only man/dot-anthropic_login.Rd |only man/dot-anthropic_nonce.Rd |only man/dot-anthropic_parse_code.Rd |only man/dot-anthropic_pkce.Rd |only man/dot-anthropic_post_json.Rd |only man/dot-anthropic_refresh.Rd |only man/dot-b64url.Rd |only man/oauth_bearer.Rd | 9 +--- man/oauth_cache_path.Rd | 4 - man/oauth_exchange_code.Rd | 6 -- man/oauth_expired.Rd | 8 --- man/oauth_token_anthropic.Rd |only man/openai_codex_account_id.Rd | 11 ---- tests/tinytest.R | 6 -- 34 files changed, 155 insertions(+), 194 deletions(-)
Title: A Fast Algorithm to Factorize High-Dimensional Tensor Product
Matrices
Description: Here we provide tools for the computation and factorization of high-dimensional
tensor products that are formed by smaller matrices. The methods are based on
properties of Kronecker products (Searle 1982, p. 265, ISBN-10: 0470009616).
We evaluated this methodology by benchmark testing and illustrated its use in
Gaussian Linear Models ('Lopez-Cruz et al., 2024') <doi:10.1093/g3journal/jkae001>.
Author: Marco Lopez-Cruz [aut, cre],
Gustavo de los Campos [aut],
Paulino Perez-Rodriguez [aut]
Maintainer: Marco Lopez-Cruz <maraloc@gmail.com>
This is a re-admission after prior archival of version 0.1.4 dated 2024-09-03
Diff between tensorEVD versions 0.1.4 dated 2024-09-03 and 0.1.5 dated 2026-06-24
DESCRIPTION | 11 - MD5 | 64 +++---- NEWS.md | 8 R/Hadamard.R | 2 R/Hadamard_cov.R | 2 R/Kronecker.R | 2 R/Kronecker_cov.R | 2 R/Sum.R | 6 R/rrr_functions.R | 56 ++++-- R/tensorEVD.R | 70 +++++-- R/tensorVec_x.R |only inst/Rmd/hadamard.Rmd | 19 +- inst/Rmd/hadamard.html | 132 +++++++------- inst/Rmd/kronecker.Rmd | 22 +- inst/Rmd/kronecker.html | 138 +++++++-------- inst/Rmd/tensorEVD.Rmd | 37 ++-- inst/Rmd/tensorEVD.html | 231 +++++++++++-------------- inst/doc/tensorEVD-documentation.R | 4 inst/doc/tensorEVD-documentation.Rmd | 6 inst/doc/tensorEVD-documentation.html | 4 man/hadamard.Rd | 14 - man/kronecker.Rd | 13 - man/multivariate_covariance.Rd | 26 +- man/sum.Rd | 8 man/tensorEVD.Rd | 51 +++-- src/Makevars | 1 src/c_hadamard.c | 14 - src/c_sum.c | 8 src/c_tensor_evd.c | 309 +++++++++++++++++++++------------- src/c_tensor_vec_x.c |only src/init.c | 14 - src/tensorEVD.h | 13 + src/utils.c | 158 +++++++++++++++-- vignettes/tensorEVD-documentation.Rmd | 6 34 files changed, 863 insertions(+), 588 deletions(-)
Title: Integrated Retrieval and Analysis of 'PubMed', 'NIH', and 'NLM'
Literature Data
Description: Retrieve and analyze biomedical literature from 'PubMed' and
the wider 'NIH'/'NLM' data stack through a single, PMID-centered
interface. A PubMed search resolves to a set of PMIDs, which can be used
to retrieve article metadata and abstracts, author affiliations,
'iCite' citation data and links, 'PubTator3' entity and relation
annotations, and open-access full text from 'PMC'. A local analysis layer
operates on the retrieved tables, supporting corpus expansion through
citation links, citation network construction, sentence-level entity
co-occurrence, inspection of relation evidence, and 'MeSH' descriptor
keyness.
Author: Jason Timm [aut, cre]
Maintainer: Jason Timm <JaTimm@salud.unm.edu>
Diff between puremoe versions 1.0.4 dated 2026-04-21 and 1.1.0 dated 2026-06-24
puremoe-1.0.4/puremoe/R/data_pmc_list.R |only puremoe-1.0.4/puremoe/R/source_pubtations.R |only puremoe-1.0.4/puremoe/build |only puremoe-1.0.4/puremoe/inst |only puremoe-1.0.4/puremoe/man/data_pmc_list.Rd |only puremoe-1.0.4/puremoe/vignettes |only puremoe-1.1.0/puremoe/DESCRIPTION | 31 ++- puremoe-1.1.0/puremoe/MD5 | 59 +++-- puremoe-1.1.0/puremoe/NAMESPACE | 18 + puremoe-1.1.0/puremoe/NEWS.md | 46 ++++ puremoe-1.1.0/puremoe/R/citation_network.R |only puremoe-1.1.0/puremoe/R/citation_snowball.R |only puremoe-1.1.0/puremoe/R/data_mesh_frequencies.R | 2 puremoe-1.1.0/puremoe/R/endpoint_info.R | 124 +++++++----- puremoe-1.1.0/puremoe/R/get_records.R | 207 ++++++++++++++++++--- puremoe-1.1.0/puremoe/R/globals.R |only puremoe-1.1.0/puremoe/R/mesh_keyness.R |only puremoe-1.1.0/puremoe/R/pubtator_context.R |only puremoe-1.1.0/puremoe/R/pubtator_cooccurrence.R |only puremoe-1.1.0/puremoe/R/pubtator_network.R |only puremoe-1.1.0/puremoe/R/search_pubmed.R | 10 - puremoe-1.1.0/puremoe/R/source_icites.R | 90 ++------- puremoe-1.1.0/puremoe/R/source_pubtator.R |only puremoe-1.1.0/puremoe/R/utils-data-table.R | 8 puremoe-1.1.0/puremoe/README.md | 30 ++- puremoe-1.1.0/puremoe/man/citation_network.Rd |only puremoe-1.1.0/puremoe/man/citation_snowball.Rd |only puremoe-1.1.0/puremoe/man/data_mesh_frequencies.Rd | 2 puremoe-1.1.0/puremoe/man/get_records.Rd | 32 ++- puremoe-1.1.0/puremoe/man/mesh_keyness.Rd |only puremoe-1.1.0/puremoe/man/pubtator_context.Rd |only puremoe-1.1.0/puremoe/man/pubtator_cooccurrence.Rd |only puremoe-1.1.0/puremoe/man/pubtator_network.Rd |only puremoe-1.1.0/puremoe/man/search_pubmed.Rd | 8 puremoe-1.1.0/puremoe/tests/testthat |only puremoe-1.1.0/puremoe/tests/testthat.R |only 36 files changed, 453 insertions(+), 214 deletions(-)
Title: Inferential Methods for Multimodal and Other Networks
Description: A set of tools for testing networks.
It includes functions for univariate and multivariate conditional uniform graph
and quadratic assignment procedure testing, and network regression.
The package is a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Built on the 'manynet' package, all functions operate with matrices,
edge lists, and 'igraph', 'network', and 'tidygraph' objects,
and on one-mode and two-mode (bipartite) networks.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Jael Tan [ctb] ,
Bernhard Bieri [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 1.6.2 dated 2026-04-17 and 1.6.6 dated 2026-06-24
migraph-1.6.2/migraph/R/reexports_classes.R |only migraph-1.6.2/migraph/tests/testthat/test-tutorials_netrics.R |only migraph-1.6.6/migraph/DESCRIPTION | 18 +-- migraph-1.6.6/migraph/MD5 | 46 ++++------ migraph-1.6.6/migraph/NAMESPACE | 2 migraph-1.6.6/migraph/NEWS.md | 38 ++++++++ migraph-1.6.6/migraph/R/class_makes.R | 2 migraph-1.6.6/migraph/R/class_models.R | 2 migraph-1.6.6/migraph/R/migraph-package.R | 2 migraph-1.6.6/migraph/R/model_distrib.R | 11 +- migraph-1.6.6/migraph/R/model_tests.R | 1 migraph-1.6.6/migraph/README.md | 33 ++----- migraph-1.6.6/migraph/build/partial.rdb |binary migraph-1.6.6/migraph/inst/migraph.png |binary migraph-1.6.6/migraph/inst/tutorials/tutorial0/tutorial0.Rmd | 9 + migraph-1.6.6/migraph/inst/tutorials/tutorial8/diversity.Rmd | 2 migraph-1.6.6/migraph/inst/tutorials/tutorial9/ergm.Rmd | 10 +- migraph-1.6.6/migraph/man/migraph-package.Rd | 5 + migraph-1.6.6/migraph/man/reexports.Rd | 7 - migraph-1.6.6/migraph/man/regression.Rd | 2 migraph-1.6.6/migraph/man/test_distributions.Rd | 2 migraph-1.6.6/migraph/man/tests.Rd | 2 migraph-1.6.6/migraph/tests/testthat/Rplots.pdf |binary migraph-1.6.6/migraph/tests/testthat/test-model_distrib.R | 2 migraph-1.6.6/migraph/tests/testthat/test-model_tests.R | 8 - 25 files changed, 119 insertions(+), 85 deletions(-)
Title: Processing Time Series Data Using the Matching Pursuit Algorithm
Description: Provides tools for analysing and decomposing time series data using the Matching Pursuit (MP) algorithm, a greedy signal decomposition technique that represents complex signals as a linear combination of simpler functions (called atoms) selected from a redundant dictionary. Support for the Orthogonal Matching Pursuit (OMP) variant of the classical MP algorithm is also provided. For more details see Mallat and Zhang (1993) <doi:10.1109/78.258082>, Pati et al. (1993) <doi:10.1109/ACSSC.1993.342465>, Elad (2010) <doi:10.1007/978-1-4419-7011-4> and Różański (2024) <doi:10.1145/3674832>.
Author: Artur Gramacki [aut, cre] ,
Jaroslaw Gramacki [ctb] ,
Piotr T. Rożanski [ctb]
Maintainer: Artur Gramacki <a.gramacki@gmail.com>
Diff between MatchingPursuit versions 1.0.1 dated 2026-04-14 and 1.1.0 dated 2026-06-24
MatchingPursuit-1.0.1/MatchingPursuit/R/atom.params.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/check.checksum.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/clear.cache.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/eeg.montage.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/empi.check.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/empi.execute.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/empi.install.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/empi.locate.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/empi2tf.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/filters.coeff.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/gabor.fun.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/read.csv.signals.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/read.edf.params.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/read.edf.signals.R |only MatchingPursuit-1.0.1/MatchingPursuit/R/read.empi.db.file.R |only MatchingPursuit-1.0.1/MatchingPursuit/inst/extdata/EEG.db |only MatchingPursuit-1.0.1/MatchingPursuit/man/atom.params.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/clear.cache.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/eeg.montage.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/empi.check.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/empi.execute.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/empi.install.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/empi.locate.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/empi2tf.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/filters.coeff.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/gabor.fun.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/read.csv.signals.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/read.edf.params.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/read.edf.signals.Rd |only MatchingPursuit-1.0.1/MatchingPursuit/man/read.empi.db.file.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/DESCRIPTION | 10 MatchingPursuit-1.1.0/MatchingPursuit/MD5 | 120 MatchingPursuit-1.1.0/MatchingPursuit/NAMESPACE | 48 MatchingPursuit-1.1.0/MatchingPursuit/NEWS.md | 22 MatchingPursuit-1.1.0/MatchingPursuit/R/atom_params.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/check_checksum.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/clear_cache.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/eeg_montage.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/empi_check.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/empi_execute.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/empi_install.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/empi_locate.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/filters_coeff.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/gabor_fun.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/gabor_proj_fft.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/omp_core.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/omp_execute.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/package.R | 91 MatchingPursuit-1.1.0/MatchingPursuit/R/plot.ecg.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/plot.edf.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/plot.mp.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_csv_signals.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_dict.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_ecg_signals.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_edf_params.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_edf_signals.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_empi_db_file.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/run_omp_pipeline.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/sig2bin.R | 105 MatchingPursuit-1.1.0/MatchingPursuit/R/tf_map.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/topk_atoms.R |only MatchingPursuit-1.1.0/MatchingPursuit/README.md | 31 MatchingPursuit-1.1.0/MatchingPursuit/inst/doc/MatchingPursuit.R | 403 +- MatchingPursuit-1.1.0/MatchingPursuit/inst/doc/MatchingPursuit.Rmd | 1076 +++++-- MatchingPursuit-1.1.0/MatchingPursuit/inst/doc/MatchingPursuit.html | 1434 +++++++--- MatchingPursuit-1.1.0/MatchingPursuit/inst/examples |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/00001_lr.csv |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/00001_lr.dat |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/00001_lr.db |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/00001_lr.hea |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered.bin |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered.csv |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/one_block_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample1_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample2_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3.csv | 513 +-- MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3.db |binary MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3_dict_EMPI.xml |only MatchingPursuit-1.1.0/MatchingPursuit/man/MatchingPursuit.Rd | 91 MatchingPursuit-1.1.0/MatchingPursuit/man/atom_params.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/clear_cache.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/eeg_montage.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/empi_check.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/empi_execute.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/empi_install.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/empi_locate.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/filters_coeff.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/gabor_fun.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/gabor_proj_fft.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/omp_core.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/omp_execute.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/plot.ecg.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/plot.edf.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/plot.mp.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_csv_signals.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_dict.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_ecg_signals.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_edf_params.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_edf_signals.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_empi_db_file.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/run_omp_pipeline.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/sig2bin.Rd | 55 MatchingPursuit-1.1.0/MatchingPursuit/man/tf_map.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/topk_atoms.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/vignettes/MatchingPursuit.Rmd | 1076 +++++-- 107 files changed, 3554 insertions(+), 1521 deletions(-)
More information about MatchingPursuit at CRAN
Permanent link
Title: Many Ways to Make, Manipulate, and Modify Myriad Networks
Description: Many tools for making, manipulating, and modifying many different types of networks.
All functions operate with matrices, edge lists, and 'igraph', 'network', and 'tidygraph' objects,
on directed, multiplex, multimodal, signed, and other networks.
The package includes functions for importing and exporting, creating and generating networks,
modifying networks and node and tie attributes,
and describing networks with sensible defaults.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Christian Steglich [ctb],
Alvaro Uzaheta [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between manynet versions 2.1.2 dated 2026-06-21 and 2.1.3 dated 2026-06-24
DESCRIPTION | 6 - MD5 | 12 +- NEWS.md | 17 ++++ R/manip_info.R | 147 +++++++++++++++++++++++++++--------- R/measure_properties.R | 4 man/manip_info.Rd | 32 ++++++- tests/testthat/test-class_stocnet.R | 6 - 7 files changed, 169 insertions(+), 55 deletions(-)
Title: Access the Intergovernmental Organizations ('IGO') Database
Description: Provides tools for searching, extracting and recoding the
Intergovernmental Organizations ('IGO') Database (version 3),
distributed by the Correlates of War Project
<https://correlatesofwar.org/>. Includes 'IGO'-year and country-year
membership data, state system data and functions for deriving
dyad-year joint membership results. For a description of the data, see
Pevehouse, J. C. et al. (2020) <doi:10.1177/0022343319881175>.
Author: Diego Hernangomez [aut, cre, cph] ,
The Correlates of War Project [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between igoR versions 1.0.2 dated 2026-05-23 and 1.0.3 dated 2026-06-24
DESCRIPTION | 24 +- MD5 | 96 +++++------ NAMESPACE | 24 +- NEWS.md | 17 + R/data.R | 195 +++++++++++----------- R/igoR-package.R | 8 R/igo_dyadic.R | 223 ++++++++++++-------------- R/igo_members.R | 96 ++++------- R/igo_recode.R | 34 +-- R/igo_search.R | 72 ++++---- R/igo_search_states.R | 74 +++----- R/igo_state_membership.R | 105 +++++------- R/internals.R |only README.md | 63 ++++--- build/vignette.rds |binary inst/CITATION | 6 inst/COPYRIGHTS | 9 + inst/REFERENCES.bib | 5 inst/WORDLIST | 135 +++++++-------- inst/doc/igoR.R | 14 - inst/doc/igoR.html | 62 +++---- inst/doc/igoR.qmd | 90 +++++----- inst/doc/mapping.html | 88 +++++----- inst/doc/mapping.qmd | 63 +++---- inst/schemaorg.json | 8 man/igoR-package.Rd | 11 + man/igo_dyadic.Rd | 78 +++++---- man/igo_members.Rd | 35 ++-- man/igo_recode.Rd | 23 -- man/igo_search.Rd | 39 ++-- man/igo_search_states.Rd | 21 +- man/igo_state_membership.Rd | 39 ++-- man/igo_year_format3.Rd | 78 ++++----- man/state_year_format3.Rd | 48 ++--- man/states2016.Rd | 41 ++-- tests/testthat/_snaps/igo_dyadic.md | 40 ++-- tests/testthat/_snaps/igo_members.md | 16 - tests/testthat/_snaps/igo_search.md | 2 tests/testthat/_snaps/igo_search_states.md | 6 tests/testthat/_snaps/igo_state_membership.md | 22 +- tests/testthat/test-igo_dyadic.R | 29 +++ tests/testthat/test-igo_recode.R | 18 ++ tests/testthat/test-igo_search.R | 20 ++ tests/testthat/test-igo_search_states.R | 9 + tests/testthat/test-internals.R |only vignettes/REFERENCES.bib | 5 vignettes/fig-AustShared-1.png |binary vignettes/fig-NAShared-1.png |binary vignettes/igoR.qmd | 90 +++++----- vignettes/mapping.qmd | 63 +++---- 50 files changed, 1175 insertions(+), 1069 deletions(-)
Title: Curry, Compose, and Other Higher-Order Functions
Description: Provides a small collection of higher-order functions for
functional-style programming in R, including 'Curry' (partial
application), 'CurryL' (lazy partial application), 'Compose'
(function composition, including a multi-argument variant),
'Identity', 'Negate' and 'Swap'.
Author: Peter Danenberg [aut, cre]
Maintainer: Peter Danenberg <pcd@roxygen.org>
Diff between functional versions 0.6 dated 2014-07-16 and 0.7 dated 2026-06-24
DESCRIPTION | 28 +++++++++++++++++-------- MD5 | 22 +++++++++---------- NAMESPACE | 4 ++- R/functional.R | 47 +++++++++++++++++++++++++++++++++++------- man/Compose.Rd | 8 ++++++- man/Curry.Rd | 8 +++++-- man/CurryL.Rd | 7 +++++- man/Identity.Rd | 3 +- man/Negate.Rd | 3 +- man/Swap.Rd | 3 +- man/multi.argument.Compose.Rd | 3 +- tests/functional.R | 12 ++++++++++ 12 files changed, 113 insertions(+), 35 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-14 0.2.0
2024-05-21 0.1.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-24 0.1.2
2024-08-30 0.1.1
2024-08-27 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-01-29 0.1.18
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-13 0.3.3
2019-04-12 0.3.1
2018-11-30 0.3
2018-05-18 0.2.7
2018-03-06 0.2.6
2016-10-17 0.2.4
2016-05-25 0.2.3
2016-03-24 0.2.2
2015-08-20 0.2.0
2015-02-11 0.1.7
2014-06-10 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-30 1.2.1
2024-03-01 1.2.0
2023-05-09 1.1.0
2022-04-08 1.0.2
2022-03-28 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-28 1.2.0
Title: A Lightweight Interface Between 'igraph' and 'ggplot2' Graphics
Description: An interface to integrate 'igraph' and 'ggplot2' graphics within
a normalized coordinate system. 'RGraphSpace' extends 'ggplot2' with
graph-aware geometries optimized for large networks. The 'GraphSpace' class
integrates directly with 'ggplot2' through specialized 'geoms' and lazy
resolution of node attributes, supporting customization of aesthetics and
visual styles. These 'geoms' use a dual-anchor normalization approach to
align layers, particularly useful for analyses in which network elements
must be spatially aligned with reference maps and images.
Author: Sysbiolab Team [aut],
Flavio Kessler [ctb],
Jonathan Back [ctb],
Lana Querne [ctb],
Victor Apolonio [ctb],
Vinicius Chagas [ctb],
Mauro Castro [cre]
Maintainer: Mauro Castro <mauro.a.castro@gmail.com>
Diff between RGraphSpace versions 1.4.0 dated 2026-06-13 and 1.4.1 dated 2026-06-24
RGraphSpace-1.4.0/RGraphSpace/man/annotation_gspace.Rd |only RGraphSpace-1.4.1/RGraphSpace/DESCRIPTION | 6 RGraphSpace-1.4.1/RGraphSpace/MD5 | 63 - RGraphSpace-1.4.1/RGraphSpace/NAMESPACE | 1 RGraphSpace-1.4.1/RGraphSpace/R/annotation-gspace.R | 86 +- RGraphSpace-1.4.1/RGraphSpace/R/geom-edgespace.R | 16 RGraphSpace-1.4.1/RGraphSpace/R/geom-graphspace.R | 5 RGraphSpace-1.4.1/RGraphSpace/R/geom-nodespace.R | 2 RGraphSpace-1.4.1/RGraphSpace/R/gspace-checks.R | 23 RGraphSpace-1.4.1/RGraphSpace/R/gspace-classes.R | 93 ++ RGraphSpace-1.4.1/RGraphSpace/R/gspace-coercion.R | 92 ++ RGraphSpace-1.4.1/RGraphSpace/R/gspace-constructor.R | 28 RGraphSpace-1.4.1/RGraphSpace/R/gspace-features.R | 45 + RGraphSpace-1.4.1/RGraphSpace/R/gspace-generics.R | 7 RGraphSpace-1.4.1/RGraphSpace/R/gspace-ggplot-constructor.R | 40 - RGraphSpace-1.4.1/RGraphSpace/R/gspace-methods.R | 333 +++++----- RGraphSpace-1.4.1/RGraphSpace/R/gspace-misc.R | 40 - RGraphSpace-1.4.1/RGraphSpace/R/gspace-normalize.R | 200 +++--- RGraphSpace-1.4.1/RGraphSpace/R/gspace-supplements.R | 2 RGraphSpace-1.4.1/RGraphSpace/R/gspace-themes.R | 1 RGraphSpace-1.4.1/RGraphSpace/R/gspace-validation.R | 44 - RGraphSpace-1.4.1/RGraphSpace/inst/NEWS.Rd | 6 RGraphSpace-1.4.1/RGraphSpace/inst/doc/RGraphSpace.R | 19 RGraphSpace-1.4.1/RGraphSpace/inst/doc/RGraphSpace.Rmd | 29 RGraphSpace-1.4.1/RGraphSpace/inst/doc/RGraphSpace.html | 41 - RGraphSpace-1.4.1/RGraphSpace/man/GraphSpace-accessors.Rd | 7 RGraphSpace-1.4.1/RGraphSpace/man/RGraphSpace-package.Rd | 20 RGraphSpace-1.4.1/RGraphSpace/man/annotation_gspace_image.Rd |only RGraphSpace-1.4.1/RGraphSpace/man/as_colorraster.Rd | 2 RGraphSpace-1.4.1/RGraphSpace/man/getGraphSpace-methods.Rd | 4 RGraphSpace-1.4.1/RGraphSpace/man/gtoys.Rd | 3 RGraphSpace-1.4.1/RGraphSpace/man/normalizeGraphSpace-methods.Rd | 24 RGraphSpace-1.4.1/RGraphSpace/man/updateGraphSpace.Rd |only RGraphSpace-1.4.1/RGraphSpace/vignettes/RGraphSpace.Rmd | 29 34 files changed, 819 insertions(+), 492 deletions(-)
Title: Read Markdown Tables into Tibbles
Description: Efficient reading of raw markdown tables into tibbles. Designed to
accept content from strings, files, and URLs with the ability to extract
and read multiple tables from markdown for analysis.
Author: Jordan Bradford [aut, cre, cph]
Maintainer: Jordan Bradford <jrdnbradford@gmail.com>
Diff between readMDTable versions 0.3.3 dated 2026-05-31 and 0.4.0 dated 2026-06-24
readMDTable-0.3.3/readMDTable/man/extract_md_tables.Rd |only readMDTable-0.4.0/readMDTable/DESCRIPTION | 14 - readMDTable-0.4.0/readMDTable/MD5 | 35 +-- readMDTable-0.4.0/readMDTable/NEWS.md | 4 readMDTable-0.4.0/readMDTable/R/extract_md_tables.R | 105 ---------- readMDTable-0.4.0/readMDTable/R/read_md_table.R | 90 ++++++-- readMDTable-0.4.0/readMDTable/R/source_file.R | 1 readMDTable-0.4.0/readMDTable/README.md | 32 +-- readMDTable-0.4.0/readMDTable/inst/doc/rvest-benchmarks.R | 12 - readMDTable-0.4.0/readMDTable/inst/doc/rvest-benchmarks.Rmd | 12 - readMDTable-0.4.0/readMDTable/inst/doc/rvest-benchmarks.html | 26 +- readMDTable-0.4.0/readMDTable/man/read_md_table.Rd | 42 ++-- readMDTable-0.4.0/readMDTable/tests/testthat/test-extract_md_tables.R | 58 ++++- readMDTable-0.4.0/readMDTable/tests/testthat/test-read_md_table.R | 38 ++- readMDTable-0.4.0/readMDTable/vignettes/img/benchmark-1.png |binary readMDTable-0.4.0/readMDTable/vignettes/img/benchmark-2.png |binary readMDTable-0.4.0/readMDTable/vignettes/img/benchmark-3.png |binary readMDTable-0.4.0/readMDTable/vignettes/img/benchmark-4.png |binary readMDTable-0.4.0/readMDTable/vignettes/rvest-benchmarks.Rmd | 12 - 19 files changed, 237 insertions(+), 244 deletions(-)
Title: An Implementation of the PREVENT and Pooled Cohort Equations
Description: Implements the American Heart Association Predicting
Risk of cardiovascular disease EVENTs (PREVENT) equations from Khan
SS, Matsushita K, Sang Y, and colleagues (2023)
<doi:10.1161/CIRCULATIONAHA.123.067626>, with optional comparison
with their de facto predecessor, the Pooled Cohort Equations from the
American Heart Association and American College of Cardiology (2013)
<doi:10.1161/01.cir.0000437741.48606.98> and the revision to the Pooled
Cohort Equations from Yadlowsky and colleagues (2018)
<doi:10.7326/M17-3011>.
Author: Martin Mayer [aut, cre, cph]
Maintainer: Martin Mayer <mmayer@ebsco.com>
Diff between preventr versions 0.11.0 dated 2025-01-26 and 0.12.0 dated 2026-06-24
preventr-0.11.0/preventr/R/prevent_equations.R |only preventr-0.11.0/preventr/tests/testthat/_snaps/prevent_equations.md |only preventr-0.11.0/preventr/tests/testthat/test-prevent_equations.R |only preventr-0.12.0/preventr/DESCRIPTION | 20 preventr-0.12.0/preventr/MD5 | 329 preventr-0.12.0/preventr/NAMESPACE | 20 preventr-0.12.0/preventr/NEWS.md | 29 preventr-0.12.0/preventr/R/estimate_risk.R |only preventr-0.12.0/preventr/R/globals.R | 10 preventr-0.12.0/preventr/R/helpers.R | 47 preventr-0.12.0/preventr/R/helpers_plot.R |only preventr-0.12.0/preventr/R/helpers_test.R | 76 preventr-0.12.0/preventr/R/plot_risk.R |only preventr-0.12.0/preventr/R/prep_data_for_use.R | 8 preventr-0.12.0/preventr/R/sysdata.rda |binary preventr-0.12.0/preventr/README.md | 74 preventr-0.12.0/preventr/build/vignette.rds |binary preventr-0.12.0/preventr/inst/doc/plot-risk.R |only preventr-0.12.0/preventr/inst/doc/plot-risk.Rmd |only preventr-0.12.0/preventr/inst/doc/plot-risk.html |only preventr-0.12.0/preventr/inst/doc/using-data-frame.R | 5 preventr-0.12.0/preventr/inst/doc/using-data-frame.Rmd | 5 preventr-0.12.0/preventr/inst/doc/using-data-frame.html | 3778 ++++------ preventr-0.12.0/preventr/man/app.Rd | 2 preventr-0.12.0/preventr/man/estimate_risk.Rd | 83 preventr-0.12.0/preventr/man/figures/README-risk-1.png |only preventr-0.12.0/preventr/man/figures/README-risk-2.png |only preventr-0.12.0/preventr/man/plot_risk.Rd |only preventr-0.12.0/preventr/tests/testthat/_data |only preventr-0.12.0/preventr/tests/testthat/_snaps/estimate_risk.md |only preventr-0.12.0/preventr/tests/testthat/_snaps/plot_risk |only preventr-0.12.0/preventr/tests/testthat/test-estimate_risk.R |only preventr-0.12.0/preventr/tests/testthat/test-plot_risk.R |only preventr-0.12.0/preventr/vignettes/plot-risk.Rmd |only preventr-0.12.0/preventr/vignettes/using-data-frame.Rmd | 5 35 files changed, 2463 insertions(+), 2028 deletions(-)
Title: Detect and Characterize Sub-Daily Flow Fluctuations
Description: An important environmental impact on running water ecosystems
is caused by hydropeaking - the discontinuous release of turbine water
because of peaks of energy demand. An event-based algorithm is implemented
to detect flow fluctuations referring to increase events (IC) and decrease
events (DC). For each event, a set of parameters related to the fluctuation
intensity is calculated. The framework is introduced in Greimel et al. (2016)
"A method to detect and characterize sub-daily flow fluctuations"
<doi:10.1002/hyp.10773> and can be used to identify different fluctuation
types according to the potential source: e.g., sub-daily flow fluctuations
caused by hydropeaking, rainfall, or snow and glacier melt.
This is a companion to the package 'hydroroute', which is used to detect and
follow hydropower plant-specific hydropeaking waves at the sub-catchment
scale and to describe how hydropeaking flow parameters change along the
longitudinal flow path as proposed and validated in Greimel [...truncated...]
Author: Bettina Gruen [cre, ctb] ,
Julia Haider [aut],
Benjamin Altmann [ctb] ,
Franz Greimel [ctb]
Maintainer: Bettina Gruen <Bettina.Gruen@R-project.org>
Diff between hydropeak versions 0.1.2 dated 2022-11-15 and 0.1.3 dated 2026-06-24
DESCRIPTION | 20 +- MD5 | 30 +-- NAMESPACE | 8 R/events.R | 56 ++--- R/metrics.R | 251 ++++++++++++++++++++++++- build/vignette.rds |binary inst/CITATION | 14 - inst/NEWS.Rd | 18 + inst/doc/hydropeak-intro.R | 2 inst/doc/hydropeak-intro.html | 420 ++++++++++++++++++++++++------------------ man/durmid.Rd |only man/flow.Rd | 14 - man/maxfr.Rd |only man/mefr1.Rd |only man/mefr2.Rd |only man/minfr.Rd |only man/qfrom.Rd |only man/qmid.Rd |only man/qto.Rd |only tests/testthat/test-events.R | 50 +++-- 20 files changed, 621 insertions(+), 262 deletions(-)
Title: Simulated Point-Pattern via Vectorized Parameterization
Description: An intuitive interface to simulate superimposed (marked) point patterns with vectorized parameterization of random point pattern and distribution of marks. The author has retired from academic research. Accordingly, this package should not be considered a validated tool for use in peer-reviewed publications or as the basis for grant applications.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between groupedHyperframe.random versions 0.3.1 dated 2026-06-02 and 0.3.2 dated 2026-06-24
DESCRIPTION | 10 +++++----- MD5 | 5 +++-- R/0PACKAGE.R | 23 +++++++++++++++++++++-- man/groupedHyperframe.random-package.Rd |only 4 files changed, 29 insertions(+), 9 deletions(-)
More information about groupedHyperframe.random at CRAN
Permanent link
Title: Dot-and-Whisker Plots of Regression Results
Description: Create quick and easy dot-and-whisker plots of regression results. It takes as input either (1) a coefficient table in standard form or (2) one (or a list of) fitted model objects (of any type that has methods implemented in the 'parameters' package). It returns 'ggplot' objects that can be further customized using tools from the 'ggplot2' package. The package also includes helper functions for tasks such as rescaling coefficients or relabeling predictor variables. See more methodological discussion of the visualization and data management methods used in this package in Kastellec and Leoni (2007) <doi:10.1017/S1537592707072209> and Gelman (2008) <doi:10.1002/sim.3107>.
Author: Frederick Solt [aut],
Yue Hu [aut, cre],
Ben Bolker [ctb],
Os Keyes [ctb],
Stefan Mueller [ctb],
Thomas Leeper [ctb],
Chris Wallace [ctb],
Christopher Warshaw [ctb]
Maintainer: Yue Hu <yuehu@tsinghua.edu.cn>
Diff between dotwhisker versions 0.8.4 dated 2025-05-06 and 0.8.6 dated 2026-06-24
DESCRIPTION | 14 MD5 | 28 - NAMESPACE | 3 NEWS.md | 26 R/add_brackets.R | 67 -- R/dwplot.R | 1057 +++++++++++++++++--------------------- R/relabel_predictors.R | 6 R/secret_weapon.R | 8 R/small_multiple.R | 40 - build/vignette.rds |binary inst/doc/dotwhisker-vignette.html | 47 - inst/doc/kl2007_examples.html | 14 man/dwplot.Rd | 14 man/small_multiple.Rd | 14 tests |only 15 files changed, 636 insertions(+), 702 deletions(-)
Title: Create Interactive Chart with the JavaScript 'ApexCharts'
Library
Description: Provides an 'htmlwidgets' interface to 'apexcharts.js'.
'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API.
'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Juned Chhipa [cph] ,
Mike Bostock [cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between apexcharter versions 0.4.5 dated 2026-01-07 and 0.5.0 dated 2026-06-23
DESCRIPTION | 8 MD5 | 66 NAMESPACE | 1 NEWS.md | 16 R/apex-utils.R | 2611 +++++++++++++--------------- R/apex.R | 12 R/apexcharter.R | 2 R/parse-data.R | 413 ++-- inst/doc/apexcharter.R | 78 inst/doc/apexcharter.Rmd | 801 ++++---- inst/doc/apexcharter.html | 479 ++--- inst/htmlwidgets/apexcharter.js | 2 inst/htmlwidgets/apexcharter.js.LICENSE.txt | 37 man/apex.Rd | 20 man/ax-series.Rd | 4 man/ax_annotations.Rd | 20 man/ax_fill.Rd | 6 man/ax_forecast_data_points.Rd | 6 man/ax_grid.Rd | 6 man/ax_labels.Rd | 14 man/ax_legend.Rd | 4 man/ax_markers.Rd | 6 man/ax_nodata.Rd | 2 man/ax_plotOptions.Rd | 10 man/ax_responsive.Rd | 4 man/ax_states.Rd | 2 man/ax_stroke.Rd | 4 man/ax_theme.Rd | 6 man/ax_title.Rd | 2 man/ax_tooltip.Rd | 6 man/ax_xaxis.Rd | 10 man/ax_yaxis.Rd | 4 tests/testthat/test-apex-utils.R | 94 - vignettes/apexcharter.Rmd | 801 ++++---- 34 files changed, 2920 insertions(+), 2637 deletions(-)
Title: Facilitate Analysis of Proteomic Data from Olink
Description: A collection of functions to facilitate analysis of proteomic
data from Olink, primarily NPX data that has been exported from Olink
Software. The functions also work on QUANT data from
Olink by log- transforming the QUANT data. The functions are focused
on reading data, facilitating data wrangling and quality control
analysis, performing statistical analysis and generating figures to
visualize the results of the statistical analysis. The goal of this
package is to help users extract biological insights from proteomic
data run on the Olink platform.
Author: Kathleen Nevola [aut, cre] ,
Marianne Sandin [aut] ,
Jamey Guess [aut] ,
Simon Forsberg [aut] ,
Christoffer Cambronero [aut] ,
Pascal Pucholt [aut] ,
Boxi Zhang [aut] ,
Masoumeh Sheikhi [aut] ,
Klev Diamanti [aut] ,
Amrita Kar [aut] ,
Lei Conze [aut] [...truncated...]
Maintainer: Kathleen Nevola <biostattools@olink.com>
Diff between OlinkAnalyze versions 5.0.0 dated 2026-03-28 and 5.0.2 dated 2026-06-23
OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_assay_na.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_assay_type.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_assay_warning.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_col_class.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_control_sample_id.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_duplicate_sample_id.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_invalid_oid.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_nonunique_uniprot.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_qc_warning.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/clean_sample_type.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_annotate_heatmap.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_color_heatmap.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_extract_ellipsis_arg.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_lst_styling.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_run.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/pheatmap_set_plot_theme.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/plot_heatmap_check_inputs.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/plot_heatmap_clean_df.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/plot_heatmap_df_to_wide.Rd |only OlinkAnalyze-5.0.0/OlinkAnalyze/man/plot_heatmap_pheatmap_args.Rd |only OlinkAnalyze-5.0.2/OlinkAnalyze/DESCRIPTION | 13 OlinkAnalyze-5.0.2/OlinkAnalyze/MD5 | 169 OlinkAnalyze-5.0.2/OlinkAnalyze/NEWS.md | 643 - 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Title: Analysis of Copy Number Signatures
Description: A workflow to generate and analyze signatures based on copy number
data using non-negative matrix factorization (NMF) in an approach similar
to that used in mutational signatures. It can be used to extract features
from Copy number segment data and use that to find a subset of copy number
signatures which can be further used to correlate with other relevant data.
For more on 'NMF' see Gaujoux (2013) <doi:10.1186/1471-2105-11-367>.
Author: David Tallman [aut],
Shawn Striker [cre, ctb],
Daniel Stover [cph]
Maintainer: Shawn Striker <striker.35@osu.edu>
Diff between CNSigs versions 0.1.0 dated 2026-01-08 and 0.1.1 dated 2026-06-23
DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- NEWS.md |only R/findExposures.R | 6 +++--- build/vignette.rds |binary inst/doc/CNSigs.pdf |binary man/findExposures.Rd | 2 +- 7 files changed, 16 insertions(+), 15 deletions(-)
Title: Sequential Trial Emulation
Description: Implementation of sequential trial emulation for the analysis of observational databases.
The 'SEQTaRget' software accommodates time-varying treatments and confounders, as well as binary
and failure time outcomes. 'SEQTaRget' allows to compare both static and dynamic strategies,
can be used to estimate observational analogs of intention-to-treat
and per-protocol effects, and can adjust for potential selection bias
induced by losses-to-follow-up. (Paper to come).
Author: Ryan O'Dea [aut, cre] ,
Alejandro Szmulewicz [aut] ,
Tom Palmer [aut] ,
Paul Madley-Dowd [aut] ,
Miguel Hernan [aut] ,
The President and Fellows of Harvard College [cph]
Maintainer: Ryan O'Dea <ryan.odea@psi.ch>
Diff between SEQTaRget versions 1.4.2 dated 2026-05-21 and 1.4.3 dated 2026-06-23
DESCRIPTION | 6 MD5 | 68 ++-- NAMESPACE | 5 NEWS.md | 43 ++ R/SEQestimate.R | 9 R/SEQexpand.R | 43 +- R/SEQopts.R | 32 +- R/SEQuential.R | 126 ++++++- R/class_definitions.R | 2 R/class_methods.R | 73 +++- R/class_setters.R | 15 R/internal_analysis.R | 46 ++ R/internal_covariates.R | 5 R/internal_hazard.R | 57 ++- R/internal_misc.R | 101 +++++- R/internal_survival.R | 25 - R/internal_weights.R | 46 ++ build/vignette.rds |binary inst/doc/ITT.html | 3 inst/doc/SEQuential.html | 646 +++++++++++++++++++---------------------- inst/doc/censoring.html | 3 inst/doc/doseresponse.html | 3 man/SEQestimate.Rd | 8 man/SEQopts.Rd | 24 - man/SEQoutput-class.Rd | 2 man/SEQuential.Rd | 40 +- man/bootstrap_id_relabeler.Rd |only man/diagnostics.Rd | 13 man/followup.table.Rd |only man/risk_comparison.Rd | 9 tests/testthat/test_coverage.R | 249 +++++++++++++++ tests/testthat/test_hazard.R | 103 ++++++ tests/testthat/test_misc.R | 155 +++++++++ tests/testthat/test_setters.R | 22 + tests/testthat/test_survival.R | 43 ++ tests/testthat/test_warnings.R | 22 + 36 files changed, 1499 insertions(+), 548 deletions(-)
Title: Visually Exploring Random Forests
Description: Graphic elements for exploring Random Forests using the
'randomForest' or 'randomForestSRC' package for survival, regression
and classification forests and 'ggplot2' package plotting. Implements
visualisations of the methods described in Breiman (2001)
<doi:10.1023/A:1010933404324> and Ishwaran, Kogalur, Blackstone, and
Lauer (2008) <doi:10.1214/08-AOAS169>.
Author: John Ehrlinger [aut, cre]
Maintainer: John Ehrlinger <john.ehrlinger@gmail.com>
Diff between ggRandomForests versions 3.1.2 dated 2026-06-13 and 3.2.0 dated 2026-06-23
DESCRIPTION | 12 - MD5 | 23 +- NEWS.md | 39 ++++ R/gg_partial_varpro.R | 183 ++++++++++++++++++++- R/gg_partialpro.R | 15 - R/gg_varpro.R | 24 ++ inst/doc/ggRandomForests-regression.html | 34 ++-- inst/doc/ggRandomForests-survival.html | 40 ++-- inst/doc/ggRandomForests.html | 4 inst/doc/varpro.html | 4 man/gg_partial_varpro.Rd | 88 ++++++++-- tests/testthat/test_gg_partial_varpro.R | 193 ++++++++++++++++++++++- tests/testthat/test_gg_varpro_empty_importance.R |only 13 files changed, 557 insertions(+), 102 deletions(-)
More information about ggRandomForests at CRAN
Permanent link
Title: Triangle Meshes and Related Geometry Tools
Description: Generate planar and spherical triangle meshes,
compute finite element calculations for 1-, 2-, and 3-dimensional flat
and curved manifolds with associated basis function spaces, methods for
lines and polygons, and transparent handling of coordinate reference
systems and coordinate transformation, including 'sf' and 'sp' geometries.
The core 'fmesher' library code was originally part of the 'INLA' package,
and implements parts of "Triangulations and Applications" by
Hjelle and Daehlen (2006) <doi:10.1007/3-540-33261-8>.
Author: Finn Lindgren [aut, cre, cph] ,
Seaton Andy [ctb] ,
Suen Man Ho [ctb] ,
Fabian E. Bachl [ctb]
Maintainer: Finn Lindgren <finn.lindgren@gmail.com>
Diff between fmesher versions 0.7.0 dated 2026-02-19 and 0.8.0 dated 2026-06-23
fmesher-0.7.0/fmesher/man/fm_nonconvex_hull_inla.Rd |only fmesher-0.8.0/fmesher/DESCRIPTION | 8 fmesher-0.8.0/fmesher/MD5 | 167 ++--- fmesher-0.8.0/fmesher/NAMESPACE | 5 fmesher-0.8.0/fmesher/NEWS.md | 70 +- fmesher-0.8.0/fmesher/R/basis.R | 31 - fmesher-0.8.0/fmesher/R/crs.R | 42 - fmesher-0.8.0/fmesher/R/deprecated.R | 4 fmesher-0.8.0/fmesher/R/diameter.R | 26 fmesher-0.8.0/fmesher/R/evaluator.R | 21 fmesher-0.8.0/fmesher/R/fem.R | 57 +- fmesher-0.8.0/fmesher/R/integration.R | 284 +++++----- fmesher-0.8.0/fmesher/R/lattice_Nd.R | 4 fmesher-0.8.0/fmesher/R/matern.R | 8 fmesher-0.8.0/fmesher/R/mesh.R | 5 fmesher-0.8.0/fmesher/R/mesh_2d.R | 32 - fmesher-0.8.0/fmesher/R/nonconvex_hull.R | 12 fmesher-0.8.0/fmesher/R/plot.R | 10 fmesher-0.8.0/fmesher/R/segm.R | 52 - fmesher-0.8.0/fmesher/R/sf_mesh.R | 2 fmesher-0.8.0/fmesher/R/simplify.R | 4 fmesher-0.8.0/fmesher/R/sp_mesh.R | 14 fmesher-0.8.0/fmesher/R/split_lines.R | 2 fmesher-0.8.0/fmesher/R/utils.R | 7 fmesher-0.8.0/fmesher/README.md | 65 -- fmesher-0.8.0/fmesher/build/partial.rdb |binary fmesher-0.8.0/fmesher/build/vignette.rds |binary fmesher-0.8.0/fmesher/inst/doc/basic_use.html | 12 fmesher-0.8.0/fmesher/inst/doc/fmesher_library.html | 3 fmesher-0.8.0/fmesher/inst/doc/variable_mesh_quality.html | 16 fmesher-0.8.0/fmesher/man/call-stack.Rd | 4 fmesher-0.8.0/fmesher/man/figures/README-example1-plot-1.png |binary fmesher-0.8.0/fmesher/man/figures/README-example2-plot-1.png |binary fmesher-0.8.0/fmesher/man/figures/README-example2hex-plot-1.png |binary fmesher-0.8.0/fmesher/man/fm_CRS_sp.Rd | 5 fmesher-0.8.0/fmesher/man/fm_as_collect.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_fm.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_lattice_2d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_lattice_Nd.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_mesh_1d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_mesh_2d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_mesh_3d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_segm.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_sfc.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_as_tensor.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_collect.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_contains.Rd | 2 fmesher-0.8.0/fmesher/man/fm_cprod.Rd | 2 fmesher-0.8.0/fmesher/man/fm_diameter.Rd | 18 fmesher-0.8.0/fmesher/man/fm_evaluate.Rd | 21 fmesher-0.8.0/fmesher/man/fm_fem.Rd | 27 fmesher-0.8.0/fmesher/man/fm_int.Rd | 13 fmesher-0.8.0/fmesher/man/fm_int_mesh_2d.Rd | 5 fmesher-0.8.0/fmesher/man/fm_lattice_2d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_lattice_Nd.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_mesh_1d.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_mesh_2d.Rd | 49 - fmesher-0.8.0/fmesher/man/fm_nonconvex_hull.Rd | 19 fmesher-0.8.0/fmesher/man/fm_rcdt_2d.Rd | 13 fmesher-0.8.0/fmesher/man/fm_segm.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_segm_contour_helper.Rd | 6 fmesher-0.8.0/fmesher/man/fm_simplify.Rd | 36 - fmesher-0.8.0/fmesher/man/fm_simplify_helper.Rd | 8 fmesher-0.8.0/fmesher/man/fm_subset.Rd | 3 fmesher-0.8.0/fmesher/man/fm_tensor.Rd | 36 - fmesher-0.8.0/fmesher/man/fmesher-deprecated.Rd | 93 ++- fmesher-0.8.0/fmesher/man/fmesher-package.Rd | 5 fmesher-0.8.0/fmesher/man/fmesher_sparse.Rd | 3 fmesher-0.8.0/fmesher/src/Rcpp_interface.cc | 2 fmesher-0.8.0/fmesher/src/ioutils.h | 20 fmesher-0.8.0/fmesher/src/locator.h | 5 fmesher-0.8.0/fmesher/src/locator_t.h | 2 fmesher-0.8.0/fmesher/src/mesh.h | 10 fmesher-0.8.0/fmesher/src/mesh3.h | 6 fmesher-0.8.0/fmesher/src/meshc.cc | 12 fmesher-0.8.0/fmesher/src/meshc.h | 30 - fmesher-0.8.0/fmesher/src/trees.h | 6 fmesher-0.8.0/fmesher/src/trees_t.h | 2 fmesher-0.8.0/fmesher/src/vector.h | 18 fmesher-0.8.0/fmesher/src/vector_t.h | 12 fmesher-0.8.0/fmesher/tests/testthat/test-01-integration.R | 16 fmesher-0.8.0/fmesher/tests/testthat/test-02-rcdt_2d.R | 28 fmesher-0.8.0/fmesher/tests/testthat/test-fem.R | 4 fmesher-0.8.0/fmesher/tests/testthat/test-subdivide.R | 3 fmesher-0.8.0/fmesher/tests/testthat/test-utils.R | 9 85 files changed, 1109 insertions(+), 947 deletions(-)
Title: Exponential-Family Random Network Models
Description: Estimation of fully and partially observed Exponential-Family Random Network Models (ERNM). Exponential-family Random Graph Models (ERGM) and Gibbs Fields are special cases of ERNMs and can also be estimated with the package. Please cite Fellows and Handcock (2012), "Exponential-family Random Network Models" available at <doi:10.48550/arXiv.1208.0121>.
Author: Ian Fellows [aut],
Duncan Clark [aut, cre]
Maintainer: Duncan Clark <dac6@williams.edu>
Diff between ernm versions 1.0.4 dated 2025-10-14 and 1.0.5 dated 2026-06-23
DESCRIPTION | 10 ++-- MD5 | 18 ++++---- NAMESPACE | 1 R/ernm-gof.R | 46 ++++++++++++++++----- R/zzz.R | 1 inst/examplePackage/ErnmExtension/src/Makevars | 28 ------------ inst/examplePackage/ErnmExtension/src/Makevars.win | 4 - man/ernm_gof.Rd | 7 ++- src/Makevars | 26 ----------- src/Makevars.win | 2 10 files changed, 57 insertions(+), 86 deletions(-)
Title: Vectorised Probability Distributions
Description: Vectorised distribution objects with tools for manipulating,
visualising, and using probability distributions. Designed to allow model
prediction outputs to return distributions rather than their parameters,
allowing users to directly interact with predictive distributions in a
data-oriented workflow. In addition to providing generic replacements for
p/d/q/r functions, other useful statistics can be computed including means,
variances, intervals, and highest density regions.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Matthew Kay [aut] ,
Alex Hayes [aut] ,
Rob Hyndman [aut] ,
Earo Wang [ctb] ,
Vencislav Popov [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between distributional versions 0.7.1 dated 2026-06-11 and 0.8.0 dated 2026-06-23
distributional-0.7.1/distributional/man/dist_percentile.Rd |only distributional-0.8.0/distributional/DESCRIPTION | 6 distributional-0.8.0/distributional/MD5 | 27 distributional-0.8.0/distributional/NAMESPACE | 35 - distributional-0.8.0/distributional/NEWS.md | 22 distributional-0.8.0/distributional/R/default.R | 14 distributional-0.8.0/distributional/R/dist_convolved.R |only distributional-0.8.0/distributional/R/dist_mixture.R | 348 +++++++--- distributional-0.8.0/distributional/R/dist_normal.R | 6 distributional-0.8.0/distributional/R/dist_percentile.R | 102 +- distributional-0.8.0/distributional/R/dist_transformed.R | 8 distributional-0.8.0/distributional/man/dist_convolved.Rd |only distributional-0.8.0/distributional/man/dist_mixture.Rd | 72 +- distributional-0.8.0/distributional/man/dist_quantile.Rd |only distributional-0.8.0/distributional/tests/testthat/test-dist-convolved.R |only distributional-0.8.0/distributional/tests/testthat/test-dist-percentile.R | 2 distributional-0.8.0/distributional/tests/testthat/test-mixture.R | 75 ++ 17 files changed, 557 insertions(+), 160 deletions(-)
More information about distributional at CRAN
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Title: Bayes Factor Design for Two-Arm Binomial Trials
Description: Design and analysis of one- and two-stage binomial
clinical phase II trials using Bayes factors. Implements Bayes factors
for point-null and directional hypotheses, predictive densities under
different hypotheses, and power and sample size calibration. Both one-arm
trials with only a single treatment arm and two-arm trials with treatment
and control arm are implemented for the one- and two-stage designs.
Author: Riko Kelter [aut, cre]
Maintainer: Riko Kelter <rkelter@uni-koeln.de>
Diff between bfbin2arm versions 0.1.3 dated 2026-06-01 and 0.1.4 dated 2026-06-23
bfbin2arm-0.1.3/bfbin2arm/tests/testthat/test-singlearm-ce-correction.R |only bfbin2arm-0.1.3/bfbin2arm/tests/testthat/test-singlearm-table6_2.R |only bfbin2arm-0.1.4/bfbin2arm/DESCRIPTION | 19 bfbin2arm-0.1.4/bfbin2arm/MD5 | 161 ++- bfbin2arm-0.1.4/bfbin2arm/NAMESPACE | 6 bfbin2arm-0.1.4/bfbin2arm/R/design_singlearm_onestage_rope.R |only bfbin2arm-0.1.4/bfbin2arm/R/s3-singlearm_bf_onestage_design.R | 15 bfbin2arm-0.1.4/bfbin2arm/R/s3-singlearm_rope_onestage.R |only bfbin2arm-0.1.4/bfbin2arm/R/utils_rope.R |only bfbin2arm-0.1.4/bfbin2arm/build/vignette.rds |binary bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-overview.R |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-overview.Rmd | 53 - bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-overview.html | 55 - bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-calibration.R |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-calibration.Rmd |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-calibration.html |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-design.R |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-design.Rmd |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-rope-singlearm-onestage-design.html |only bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-onestage.R | 17 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-onestage.Rmd | 35 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-onestage.html | 82 +- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-twostage_bayesian.R | 19 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-twostage_bayesian.Rmd | 40 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm-twostage_bayesian.html | 98 -- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_frequentist.R | 13 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_frequentist.Rmd | 59 - bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_frequentist.html | 66 - bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_full.R | 15 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_full.Rmd | 81 +- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_full.html | 78 + bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_hybrid.R | 13 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_hybrid.Rmd | 68 - bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-singlearm_twostage_hybrid.html | 141 +-- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm-twostage_Bayesian.R | 28 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm-twostage_Bayesian.Rmd | 181 ++-- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm-twostage_Bayesian.html | 404 +++++----- bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm_onestage_Bayesian.R | 12 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm_onestage_Bayesian.Rmd | 35 bfbin2arm-0.1.4/bfbin2arm/inst/doc/bfbin2arm-twoarm_onestage_Bayesian.html | 157 ++- bfbin2arm-0.1.4/bfbin2arm/man/bfbin2arm.Rd | 4 bfbin2arm-0.1.4/bfbin2arm/man/design_singlearm_onestage_rope.Rd |only bfbin2arm-0.1.4/bfbin2arm/man/figures |only bfbin2arm-0.1.4/bfbin2arm/tests/testthat/test-design_singlearm_onestage_rope.R |only bfbin2arm-0.1.4/bfbin2arm/tests/testthat/test-powerbinbf01seq.R | 10 bfbin2arm-0.1.4/bfbin2arm/tests/testthat/test-singlearm-helpers.R | 12 bfbin2arm-0.1.4/bfbin2arm/tests/testthat/test-singlearm-seq-identities.R | 18 bfbin2arm-0.1.4/bfbin2arm/vignettes/bfbin2arm-overview.Rmd | 53 - 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Title: Optimal Stratification of Univariate Populations
Description: The stratification of univariate populations under stratified sampling designs is implemented according to Khan et al. (2002) <doi:10.1177/0008068320020518> and Khan et al. (2015) <doi:10.1080/02664763.2015.1018674> in this library. It determines the Optimum Strata Boundaries (OSB) and Optimum Sample Sizes (OSS) for the study variable, y, using the best-fit frequency distribution of a survey variable (if data is available) or a hypothetical distribution (if data is not available). The method formulates the problem of determining the OSB as mathematical programming problem which is solved by using a dynamic programming technique. If a dataset of the population is available to the surveyor, the method estimates its best-fit distribution and determines the OSB and OSS under Neyman allocation directly. When the dataset is not available, stratification is made based on the assumption that the values of the study variable, y, are available as hypothetical realizations of proxy va [...truncated...]
Author: Karuna G. Reddy [aut, cre],
M. G. M. Khan [aut]
Maintainer: Karuna G. Reddy <karuna.reddy@auckland.ac.nz>
This is a re-admission after prior archival of version 1.0-4 dated 2025-02-23
Diff between stratifyR versions 1.0-4 dated 2025-02-23 and 1.0-5 dated 2026-06-23
stratifyR-1.0-4/stratifyR/tests |only stratifyR-1.0-5/stratifyR/DESCRIPTION | 22 stratifyR-1.0-5/stratifyR/MD5 | 84 stratifyR-1.0-5/stratifyR/NAMESPACE | 13 stratifyR-1.0-5/stratifyR/NEWS.md |only stratifyR-1.0-5/stratifyR/R/create.mat.R | 73 stratifyR-1.0-5/stratifyR/R/data.R | 216 stratifyR-1.0-5/stratifyR/R/data.alloc.R | 163 stratifyR-1.0-5/stratifyR/R/data.optim.R | 213 stratifyR-1.0-5/stratifyR/R/data.root.R | 542 +- stratifyR-1.0-5/stratifyR/R/distr.alloc.R | 1015 +-- stratifyR-1.0-5/stratifyR/R/distr.optim.R | 210 stratifyR-1.0-5/stratifyR/R/distr.root.R | 518 + stratifyR-1.0-5/stratifyR/R/erf.R | 64 stratifyR-1.0-5/stratifyR/R/get.dist.R | 293 - stratifyR-1.0-5/stratifyR/R/import.R |only stratifyR-1.0-5/stratifyR/R/minim.val.R | 40 stratifyR-1.0-5/stratifyR/R/mode.val.r | 34 stratifyR-1.0-5/stratifyR/R/realloc.R | 104 stratifyR-1.0-5/stratifyR/R/strata.data.R | 307 - stratifyR-1.0-5/stratifyR/R/strata.distr.R | 498 - stratifyR-1.0-5/stratifyR/R/summary.strata.R | 314 - stratifyR-1.0-5/stratifyR/README.md |only stratifyR-1.0-5/stratifyR/build/vignette.rds |binary stratifyR-1.0-5/stratifyR/inst/doc/stratifyR-vignette.R | 52 stratifyR-1.0-5/stratifyR/inst/doc/stratifyR-vignette.Rmd | 2131 ++++--- stratifyR-1.0-5/stratifyR/inst/doc/stratifyR-vignette.html | 3471 +++++++++++-- stratifyR-1.0-5/stratifyR/man/anaemia.Rd | 73 stratifyR-1.0-5/stratifyR/man/create.mat.Rd | 4 stratifyR-1.0-5/stratifyR/man/data.alloc.Rd | 25 stratifyR-1.0-5/stratifyR/man/data.optim.Rd | 2 stratifyR-1.0-5/stratifyR/man/data.root.Rd | 22 stratifyR-1.0-5/stratifyR/man/distr.alloc.Rd | 16 stratifyR-1.0-5/stratifyR/man/distr.optim.Rd | 2 stratifyR-1.0-5/stratifyR/man/distr.root.Rd | 23 stratifyR-1.0-5/stratifyR/man/erf.Rd | 2 stratifyR-1.0-5/stratifyR/man/get.dist.Rd | 34 stratifyR-1.0-5/stratifyR/man/minim.val.Rd | 2 stratifyR-1.0-5/stratifyR/man/mode.val.Rd | 2 stratifyR-1.0-5/stratifyR/man/realloc.Rd | 2 stratifyR-1.0-5/stratifyR/man/strata.data.Rd | 69 stratifyR-1.0-5/stratifyR/man/strata.distr.Rd | 4 stratifyR-1.0-5/stratifyR/man/summary.strata.Rd | 38 stratifyR-1.0-5/stratifyR/vignettes/stratifyR-vignette.Rmd | 2131 ++++--- 44 files changed, 7704 insertions(+), 5124 deletions(-)
Title: Plant Phenotyping and Bayesian Statistics
Description: Analyse common types of plant phenotyping data, provide a simplified interface
to longitudinal growth modeling and select Bayesian statistics,
and streamline use of 'PlantCV' output.
Several Bayesian methods and reporting guidelines for Bayesian methods are described in
Kruschke (2018) <doi:10.1177/2515245918771304>,
Kruschke (2013) <doi:10.1037/a0029146>, and Kruschke (2021) <doi:10.1038/s41562-021-01177-7>.
Author: Josh Sumner [aut, cre] ,
Jeffrey Berry [aut] ,
Noah Fahlgren [rev] ,
Donald Danforth Plant Science Center [cph]
Maintainer: Josh Sumner <jsumner@danforthcenter.org>
Diff between pcvr versions 1.3.1 dated 2025-08-18 and 1.4.1 dated 2026-06-23
DESCRIPTION | 10 MD5 | 115 + NAMESPACE | 6 NEWS.md | 4 R/barg.R | 21 R/brmPlot.R | 14 R/brmSurvPlot.R | 14 R/brmViolin.R | 13 R/bwtime.R | 3 R/combineDraws.R | 26 R/conjugate.R | 91 + R/conjugate_BernoulliHelpers.R | 12 R/conjugate_bayes_factors.R | 13 R/conjugate_betaHelpers.R | 20 R/conjugate_binomialHelpers.R | 12 R/conjugate_bivariate_gaussianHelpers.R | 2 R/conjugate_bivariate_lognormalHelpers.R | 2 R/conjugate_bivariate_uniformHelpers.R | 4 R/conjugate_class.R | 19 R/conjugate_exponentialHelpers.R | 2 R/conjugate_gammaHelpers.R | 3 R/conjugate_gaussianHelpers.R | 4 R/conjugate_logNormal2Helpers.R | 4 R/conjugate_logNormalHelpers.R | 7 R/conjugate_multinomialHelpers.R |only R/conjugate_negBinHelpers.R | 15 R/conjugate_paretoHelpers.R | 4 R/conjugate_plot.R | 3 R/conjugate_poissonHelpers.R | 7 R/conjugate_tHelpers.R | 4 R/conjugate_uniformHelpers.R | 4 R/conjugate_vonmises2Helpers.R | 22 R/conjugate_vonmisesHelpers.R | 22 R/frem.R | 41 R/growthSS.R | 8 R/mvSS.R | 12 R/nlmePlot.R | 5 R/pcvr-package.R |only R/pcvrss.R | 2 R/pcvsubread.R | 6 R/stat_brms_model.R |only R/stat_growthSS.R |only R/stat_nlme_model.R |only R/stat_nlrq_model.R |only R/stat_nls_model.R |only inst/doc/longitudinal.html | 1789 +++++++++++-------------------- inst/doc/pcvr.html | 1390 +++++++++--------------- inst/doc/roots.html | 1122 ++++++++----------- man/barg.Rd | 21 man/brmPlot.Rd | 13 man/brmSurvPlot.Rd | 13 man/brmViolin.Rd | 13 man/combineDraws.Rd | 23 man/conjugate.Rd | 63 - man/growthSS.Rd | 8 man/mvSS.Rd | 12 man/pcvr-package.Rd |only man/statBrmsMod.Rd |only man/statNlsMod.Rd |only man/stat_growthss.Rd |only tests/testthat/test-brmsModels.R | 9 tests/testthat/test-growthModels.R | 20 tests/testthat/test-mvSSModels.R | 20 tests/testthat/test-sv-conjugate.R | 48 64 files changed, 2266 insertions(+), 2874 deletions(-)
Title: High Dimensional Time Series Analysis Tools
Description: An implementation for high-dimensional time series analysis methods, including factor model for vector time series
proposed by Lam and Yao (2012) <doi:10.1214/12-AOS970> and Chang, Guo and Yao (2015)
<doi:10.1016/j.jeconom.2015.03.024>, martingale difference test proposed by
Chang, Jiang and Shao (2023) <doi:10.1016/j.jeconom.2022.09.001>, principal
component analysis for vector time series proposed by Chang, Guo and Yao (2018) <doi:10.1214/17-AOS1613>,
cointegration analysis proposed by Zhang, Robinson and Yao (2019)
<doi:10.1080/01621459.2018.1458620>, unit root test proposed by Chang, Cheng and Yao (2022)
<doi:10.1093/biomet/asab034>, white noise tests proposed by Chang, Yao and Zhou (2017)
<doi:10.1093/biomet/asw066> and Chang et al. (2026+), CP-decomposition for matrix time
series proposed by Chang et al. (2023) <doi:10.1093/jrsssb/qkac011> and
Chang et al. (2026+) <doi:10.48550/arXiv.2410.05634>, CP-decomposition for tensor ti [...truncated...]
Author: Jinyuan Chang [aut],
Jing He [aut],
Chen Lin [aut, cre],
Qiwei Yao [aut]
Maintainer: Chen Lin <linchen@smail.swufe.edu.cn>
Diff between HDTSA versions 1.0.6 dated 2026-04-03 and 1.0.6-1 dated 2026-06-23
DESCRIPTION | 13 MD5 | 17 NAMESPACE | 3 R/CP_functions_unified.R | 1901 +++++++++++++++++++++++++++- R/data.R | 43 data/BeijingAir.rda |only data/datalist |only man/CP_Inference.Rd |only man/CP_MTS.Rd | 12 man/CP_TTS.Rd |only man/DGP.CP.Rd | 20 man/Processed-Beijing-air-pollution-data.Rd |only 12 files changed, 1945 insertions(+), 64 deletions(-)
Title: Spatial Data Operations for Database-Backed Geometries
Description: Provides database-backed spatial geometry classes and methods for
working with vector spatial data in 'DuckDB'. The package supports loading,
converting, querying, joining, and measuring spatial geometries through
familiar 'sf'-style interfaces while keeping geometry columns lazy inside
the database. It integrates with 'dbProject' to preserve database paths,
live connections, and spatial table metadata across interactive sessions.
The package follows the Simple Features framework described by Pebesma
(2018) <doi:10.32614/RJ-2018-009> and uses DuckDB's spatial extension
<https://duckdb.org/docs/stable/core_extensions/spatial/overview.html>.
Author: Edward C. Ruiz [aut, cre] ,
Jiaji George Chen [aut],
Ruben Dries [aut, rev]
Maintainer: Edward C. Ruiz <ecr7407@gmail.com>
Diff between dbSpatial versions 0.1.1 dated 2026-05-27 and 0.1.2 dated 2026-06-23
DESCRIPTION | 6 GPL-3 | 1348 ++++++++++++++++---------------- LICENSE | 4 MD5 | 171 ++-- NAMESPACE | 136 +-- NEWS.md | 650 +++++++-------- R/accessors.R | 58 - R/as_dbSpatial.R | 186 ++-- R/classes.R | 18 R/coerce.R | 82 - R/constructors.R | 34 R/dbSpatial.R | 476 +++++------ R/extract.R | 112 +- R/generics.R | 906 ++++++++++----------- R/geometry_ops.R | 140 +-- R/global.R | 28 R/imports.R | 66 - R/input_validation.R | 112 +- R/loadSpatial.R | 65 + R/measurements.R | 46 - R/show.R | 110 +- R/sim_dbSpatial.R | 120 +- R/sql_gen.R | 146 +-- R/st_as_sf.R | 114 +- R/st_bbox.R | 100 +- R/st_geometry_type.R | 24 R/st_geometrytype.R | 92 +- R/st_is_valid.R | 24 R/st_join.R | 188 ++-- R/st_read.R | 166 +-- R/st_spatial_join.R | 186 ++-- R/st_translate.R | 50 - R/st_xmax.R | 46 - R/st_ymax.R | 46 - R/utils.R | 74 - R/vect.R | 86 +- README.md | 150 +-- build/vignette.rds |binary inst/doc/class_structure.R | 42 inst/doc/class_structure.Rmd | 106 +- inst/doc/class_structure.html | 215 ++--- inst/doc/getting_started.R | 87 +- inst/doc/getting_started.Rmd | 157 +-- inst/doc/getting_started.html | 280 ++---- inst/doc/spatial_operations.R | 66 - inst/doc/spatial_operations.Rmd | 152 +-- inst/doc/spatial_operations.html | 278 ++---- man/as_dbSpatial.Rd | 126 +- man/cash-dbSpatial-method.Rd | 38 man/dbSpatial.Rd | 186 ++-- man/dbSpatial_options.Rd | 58 - man/dot-sim_dbSpatial.Rd | 48 - man/dot-st_read.Rd | 98 +- man/dot-st_spatial_join.Rd | 102 +- man/head.Rd | 52 - man/loadSpatial.Rd | 62 - man/show.Rd | 44 - man/st_area.Rd | 88 +- man/st_as_geojson.Rd | 90 +- man/st_as_sf.dbSpatial.Rd | 80 - man/st_as_text.Rd | 68 - man/st_bbox.Rd | 52 - man/st_buffer.Rd | 74 - man/st_centroid.Rd | 84 - man/st_geometrytype.Rd | 60 - man/st_join.dbSpatial.Rd | 116 +- man/st_length.Rd | 84 - man/st_npoints.Rd | 98 +- man/st_perimeter.Rd | 88 +- man/st_simplify.Rd | 88 +- man/st_translate.Rd | 120 +- man/st_x.Rd | 92 +- man/st_xmax.Rd | 122 +- man/st_y.Rd | 92 +- man/st_ymax.Rd | 120 +- man/tail.Rd | 52 - man/vect-dbSpatial-method.Rd | 90 +- tests/testthat.R | 8 tests/testthat/test-extract.R | 34 tests/testthat/test-spatial-functions.R | 271 +++--- vignettes/class_structure.Rmd | 106 +- vignettes/class_structure.md | 30 vignettes/getting_started.Rmd | 157 +-- vignettes/getting_started.md | 236 ++--- vignettes/spatial_operations.Rmd | 152 +-- vignettes/spatial_operations.md | 412 ++++----- vignettes/test_data.csv |only 87 files changed, 5904 insertions(+), 5823 deletions(-)
Title: Functions for Analysis of fMRI Datasets Stored in the ANALYZE or
'NIFTI' Format
Description: Functions for I/O, visualisation and analysis of functional Magnetic Resonance Imaging (fMRI) datasets stored in the ANALYZE or 'NIFTI' format. Note that the latest version of 'XQuartz' seems to be necessary under MacOS.
Author: Pierre Lafaye De Micheaux [aut, cre],
Jonathan L Marchini [aut],
Cleve Moler [cph] ,
Jack Dongarra [cph] ,
Richard Hanson [cph] ,
Sven Hammarling [cph] ,
Jeremy Du Croz [cph]
Maintainer: Pierre Lafaye De Micheaux <lafaye@unsw.edu.au>
Diff between AnalyzeFMRI versions 1.1-25 dated 2025-07-24 and 1.1-26 dated 2026-06-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/HISTORY | 12 ++++++++++++ src/slapack.unused | 46 +++++++++++++++++++++++----------------------- 4 files changed, 42 insertions(+), 30 deletions(-)
More information about BsplineQuantReg at CRAN
Permanent link
Title: Karl Broman's R Code
Description: Miscellaneous R functions, including functions related to
graphics (mostly for base graphics), permutation tests, running
mean/median, and general utilities.
Author: Karl W Broman [aut, cre] ,
Aimee Teo Broman [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between broman versions 0.94 dated 2026-06-08 and 0.96 dated 2026-06-23
broman-0.94/broman/R/align_stuff.R |only broman-0.94/broman/R/holmans_triangle.R |only broman-0.96/broman/DESCRIPTION | 8 +- broman-0.96/broman/MD5 | 82 ++++++++++++++-------------- broman-0.96/broman/NEWS.md | 20 ++++++ broman-0.96/broman/R/align_vectors.R |only broman-0.96/broman/R/arrowlocator.R | 2 broman-0.96/broman/R/broman-package.R | 5 + broman-0.96/broman/R/cf.R | 16 +++-- broman-0.96/broman/R/ciplot.R | 57 ++++++++++++------- broman-0.96/broman/R/histlines.R | 4 - broman-0.96/broman/R/manyboxplot.R | 7 +- broman-0.96/broman/R/mypairs.R | 25 ++++++-- broman-0.96/broman/R/not_in.R | 2 broman-0.96/broman/R/objectsizes.R | 2 broman-0.96/broman/R/rmvn.R | 12 +++- broman-0.96/broman/R/runningmean.R | 10 +-- broman-0.96/broman/R/strwidth2lines.R | 2 broman-0.96/broman/R/strwidth2xlim.R | 5 + broman-0.96/broman/R/triangle_plots.R |only broman-0.96/broman/R/venn_diagram.R | 4 - broman-0.96/broman/R/xlimlabel.R | 8 +- broman-0.96/broman/README.md |only broman-0.96/broman/man/align_vectors.Rd | 9 ++- broman-0.96/broman/man/arrowlocator.Rd | 2 broman-0.96/broman/man/broman-package.Rd | 6 ++ broman-0.96/broman/man/cf.Rd | 4 + broman-0.96/broman/man/ciplot.Rd | 15 +++++ broman-0.96/broman/man/histlines.Rd | 4 - broman-0.96/broman/man/manyboxplot.Rd | 7 +- broman-0.96/broman/man/mypairs.Rd | 22 +++++-- broman-0.96/broman/man/notin.Rd | 2 broman-0.96/broman/man/rmvn.Rd | 4 + broman-0.96/broman/man/runningmean.Rd | 6 +- broman-0.96/broman/man/runningratio.Rd | 4 - broman-0.96/broman/man/strwidth2lines.Rd | 3 + broman-0.96/broman/man/strwidth2xlim.Rd | 5 + broman-0.96/broman/man/triarrow.Rd | 12 ++-- broman-0.96/broman/man/trilines.Rd | 12 ++-- broman-0.96/broman/man/triplot.Rd | 12 ++-- broman-0.96/broman/man/tripoints.Rd | 12 ++-- broman-0.96/broman/man/tritext.Rd | 6 +- broman-0.96/broman/man/venn.Rd | 2 broman-0.96/broman/man/xlimlabel.Rd | 6 +- broman-0.96/broman/tests/testthat/test-cf.R |only 45 files changed, 272 insertions(+), 154 deletions(-)
Title: 'Yandex Clickhouse' Interface for R with Basic 'dplyr' Support
Description: 'Yandex Clickhouse' (<https://clickhouse.com/>) is a high-performance relational column-store database to enable
big data exploration and 'analytics' scaling to petabytes of data. Methods are
provided that enable working with 'Yandex Clickhouse' databases via
'DBI' methods and using 'dplyr'/'dbplyr' idioms.
Author: Christian Hotz-Behofsits [aut, cre],
Daniel Winkler [aut],
Luca Rauchenberger [aut],
Peter Knaus [aut],
Clemens Danninger [aut],
Daria Yudaeva [aut],
Simon Stiebellehner [aut],
Dan Egnor [aut],
Vlad Losev [aut],
Keith Ray [aut],
Zhanyong Wan [aut],
M [...truncated...]
Maintainer: Christian Hotz-Behofsits <christian.hotz-behofsits@wu.ac.at>
Diff between RClickhouse versions 0.6.10 dated 2025-02-26 and 0.6.11 dated 2026-06-23
RClickhouse-0.6.10/RClickhouse/inst/include/RClickhouse_RcppExports.h |only RClickhouse-0.6.11/RClickhouse/DESCRIPTION | 6 +++--- RClickhouse-0.6.11/RClickhouse/MD5 | 7 +++---- RClickhouse-0.6.11/RClickhouse/NAMESPACE | 2 ++ RClickhouse-0.6.11/RClickhouse/R/dplyr.R | 7 +++++++ 5 files changed, 15 insertions(+), 7 deletions(-)
Title: Calculating Optimal and D-Augmented Designs for Single- and
Multi-Factor Models
Description: Calculates D-, Ds-, A-, I- and L-optimal designs, weighted combinations of these via a Compound criterion, and KL-optimal designs for model discrimination, for non-linear single- and multi-factor models, via an implementation of the cocktail algorithm (Yu, 2011, <doi:10.1007/s11222-010-9183-2>). Multi-factor models use design variables x1, x2, … with a named-list design space; single-factor models remain backward compatible. Compares designs via their efficiency, augments any design with a controlled efficiency loss, and provides efficient rounding functions to convert approximate designs to exact ones.
Author: Carlos de la Calle-Arroyo [aut, cre] ,
Jesus Lopez-Fidalgo [aut] ,
Licesio J. Rodriguez-Aragon [aut]
Maintainer: Carlos de la Calle-Arroyo <carlos.calle.arroyo@gmail.com>
Diff between optedr versions 2.2.0 dated 2025-02-11 and 3.0.0 dated 2026-06-23
optedr-2.2.0/optedr/man/figures/README-pressure-1.png |only optedr-2.2.0/optedr/man/figures/README-unnamed-chunk-4-1.png |only optedr-2.2.0/optedr/man/figures/README-unnamed-chunk-4-2.png |only optedr-2.2.0/optedr/man/figures/README-unnamed-chunk-6-1.png |only optedr-2.2.0/optedr/tests/testthat/test-effiency.R |only optedr-3.0.0/optedr/DESCRIPTION | 32 optedr-3.0.0/optedr/MD5 | 125 - optedr-3.0.0/optedr/NAMESPACE | 3 optedr-3.0.0/optedr/NEWS.md | 115 optedr-3.0.0/optedr/R/augment.R | 1360 +++++------ optedr-3.0.0/optedr/R/crit_eff.R | 91 optedr-3.0.0/optedr/R/detect_design.R |only optedr-3.0.0/optedr/R/efficient_round.R | 213 + optedr-3.0.0/optedr/R/glm_families.R |only optedr-3.0.0/optedr/R/inf_mat_sens.R | 86 optedr-3.0.0/optedr/R/input_checks.R | 49 optedr-3.0.0/optedr/R/kl_optim.R |only optedr-3.0.0/optedr/R/shiny_examples.R | 129 - optedr-3.0.0/optedr/R/utils.R | 531 +++- optedr-3.0.0/optedr/R/wf_mult.R | 796 ++++-- optedr-3.0.0/optedr/README.md | 338 ++ optedr-3.0.0/optedr/build |only optedr-3.0.0/optedr/inst/CITATION | 4 optedr-3.0.0/optedr/inst/doc |only optedr-3.0.0/optedr/man/CWFMult.Rd |only optedr-3.0.0/optedr/man/DWFMult.Rd | 43 optedr-3.0.0/optedr/man/DsWFMult.Rd | 46 optedr-3.0.0/optedr/man/IWFMult.Rd | 57 optedr-3.0.0/optedr/man/KLWFMult.Rd |only optedr-3.0.0/optedr/man/WFMult.Rd | 62 optedr-3.0.0/optedr/man/augment_design.Rd | 30 optedr-3.0.0/optedr/man/check_inputs.Rd | 52 optedr-3.0.0/optedr/man/combinatorial_round.Rd | 34 optedr-3.0.0/optedr/man/crosspoints.Rd | 4 optedr-3.0.0/optedr/man/daugment_design.Rd | 26 optedr-3.0.0/optedr/man/detect_design_vars.Rd |only optedr-3.0.0/optedr/man/dsaugment_design.Rd | 15 optedr-3.0.0/optedr/man/efficient_round.Rd | 17 optedr-3.0.0/optedr/man/figures/README-augment-1.png |only optedr-3.0.0/optedr/man/figures/README-augment-add-1.png |only optedr-3.0.0/optedr/man/figures/README-kl-1.png |only optedr-3.0.0/optedr/man/figures/README-opt-plot-1.png |only optedr-3.0.0/optedr/man/findmax.Rd | 17 optedr-3.0.0/optedr/man/findmaxval.Rd | 14 optedr-3.0.0/optedr/man/findminval.Rd | 13 optedr-3.0.0/optedr/man/get_augment_region.Rd | 19 optedr-3.0.0/optedr/man/get_daugment_region.Rd | 15 optedr-3.0.0/optedr/man/get_dsaugment_region.Rd | 15 optedr-3.0.0/optedr/man/get_laugment_region.Rd | 15 optedr-3.0.0/optedr/man/laugment_design.Rd | 15 optedr-3.0.0/optedr/man/make_glm_family.Rd |only optedr-3.0.0/optedr/man/make_kl_fun.Rd |only optedr-3.0.0/optedr/man/opt_des.Rd | 150 - optedr-3.0.0/optedr/man/plot.optdes.Rd | 8 optedr-3.0.0/optedr/man/print.augment_region.Rd |only optedr-3.0.0/optedr/man/shiny_augment.Rd | 4 optedr-3.0.0/optedr/man/shiny_optimal.Rd | 4 optedr-3.0.0/optedr/man/weight_function.Rd | 2 optedr-3.0.0/optedr/tests/testthat/test-augment.R | 377 ++- optedr-3.0.0/optedr/tests/testthat/test-compound.R |only optedr-3.0.0/optedr/tests/testthat/test-crit_eff.R | 137 + optedr-3.0.0/optedr/tests/testthat/test-efficiency.R |only optedr-3.0.0/optedr/tests/testthat/test-inf_mat_sens.R | 137 + optedr-3.0.0/optedr/tests/testthat/test-input_checks.R | 149 + optedr-3.0.0/optedr/tests/testthat/test-kl.R |only optedr-3.0.0/optedr/tests/testthat/test-multifactor.R |only optedr-3.0.0/optedr/tests/testthat/test-opt_des.R | 120 optedr-3.0.0/optedr/tests/testthat/test-rounding.R | 125 - optedr-3.0.0/optedr/tests/testthat/test-utils.R | 177 + optedr-3.0.0/optedr/tests/testthat/test-wf_mult.R | 124 - optedr-3.0.0/optedr/vignettes |only 71 files changed, 4131 insertions(+), 1764 deletions(-)
Title: Dereplicate and Cherry-Pick Mass Spectrometry Spectra
Description: Convenient wrapper functions for the analysis of
matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF)
spectra data in order to select only representative spectra (also
called cherry-pick). The package covers the preprocessing and
dereplication steps (based on Strejcek, Smrhova, Junkova and Uhlik
(2018) <doi:10.3389/fmicb.2018.01294>) needed to cluster MALDI-TOF
spectra before the final cherry-picking step. It enables the easy
exclusion of spectra and/or clusters to accommodate complex
cherry-picking strategies. Alternatively, cherry-picking using
taxonomic identification MALDI-TOF data is made easy with functions to
import inconsistently formatted reports.
Author: Charlie Pauvert [aut, cre, cph] ,
David Wylensek [ctb] ,
Selina Nuechtern [ctb],
Thomas Clavel [ctb, fnd, cph]
Maintainer: Charlie Pauvert <cpauvert@ukaachen.de>
Diff between maldipickr versions 1.3.1 dated 2024-09-12 and 1.3.3 dated 2026-06-23
DESCRIPTION | 15 ++++---- MD5 | 24 +++++++------ NEWS.md | 21 +++++++++++ R/read_biotyper_report.R | 17 +++++++-- README.md | 35 +++++++++++-------- inst/CITATION | 11 +++-- inst/WORDLIST | 8 ++++ inst/biotyper_fixNA_51.csv |only inst/doc/dereplicate-bruker-maldi-biotyper-spectra.R | 18 ++++----- inst/doc/import-data-from-bruker-maldi-biotyper.html | 12 +++--- inst/doc/maldipickr.html | 16 ++++---- man/figures/maldipickr-graphical-abstract.png |only man/read_biotyper_report.Rd | 2 - tests/testthat/test-read_biotyper_report.R | 14 +++++++ 14 files changed, 129 insertions(+), 64 deletions(-)
Title: Forecast Reconciliation with Machine Learning
Description: Nonlinear forecast reconciliation with machine learning in
cross-sectional (Spiliotis et al. 2021 <doi:10.1016/j.asoc.2021.107756>),
temporal, and cross-temporal
(Rombouts et al. 2024 <doi:10.1016/j.ijforecast.2024.05.008>) frameworks.
Author: Daniele Girolimetto [aut, cre] ,
Yangzhuoran Fin Yang [aut] ,
Jeroen Rombouts [aut] ,
Ines Wilms [aut]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoRecoML versions 1.0.0 dated 2026-04-21 and 1.1.0 dated 2026-06-23
DESCRIPTION | 6 +- MD5 | 34 +++++++------- NAMESPACE | 5 ++ NEWS.md | 6 ++ R/FoReco.R | 98 +++++++++++++++++++++++++++++++++++++++++++ R/FoRecoML-package.R | 1 R/csrml.R | 29 ++++++++---- R/ctrml.R | 39 ++++++++++------- R/terml.R | 30 ++++++++----- R/utils.R | 97 +++++++++++++++++++++++++++++++++++++----- README.md | 2 man/csrml.Rd | 16 ++++--- man/ctrml.Rd | 18 +++++-- man/extract_reconciled_ml.Rd | 7 ++- man/terml.Rd | 17 ++++--- tests/testthat/test-csrml.R | 3 + tests/testthat/test-ctrml.R | 3 + tests/testthat/test-terml.R | 3 + 18 files changed, 328 insertions(+), 86 deletions(-)
Title: Bayesian Inference Using 'RTMB'
Description: Provides tools for Markov chain Monte Carlo (MCMC) and Maximum A Posteriori (MAP) estimation utilizing the 'RTMB' package. It supports various statistical models including generalized linear mixed models, factor analysis, item response theory, and multidimensional unfolding. The package allows users to easily transition between frequentist and Bayesian paradigms using a unified interface. Automatic differentiation and Laplace approximation follow Kristensen et al. (2016) <doi:10.18637/jss.v070.i05>, and MCMC sampling uses the No-U-Turn Sampler described by Hoffman and Gelman (2014) <https://jmlr.org/papers/v15/hoffman14a.html>.
Author: Hiroshi Shimizu [aut, cre]
Maintainer: Hiroshi Shimizu <simizu706@gmail.com>
Diff between BayesRTMB versions 0.1.1 dated 2026-06-01 and 0.2.1 dated 2026-06-23
BayesRTMB-0.1.1/BayesRTMB/man/model_code.Rd |only BayesRTMB-0.1.1/BayesRTMB/man/with_rtmb_error_handling.Rd |only BayesRTMB-0.2.1/BayesRTMB/DESCRIPTION | 9 BayesRTMB-0.2.1/BayesRTMB/MD5 | 251 + BayesRTMB-0.2.1/BayesRTMB/NAMESPACE | 10 BayesRTMB-0.2.1/BayesRTMB/NEWS.md | 69 BayesRTMB-0.2.1/BayesRTMB/R/ADVI.R | 25 BayesRTMB-0.2.1/BayesRTMB/R/Base_Fit.R | 59 BayesRTMB-0.2.1/BayesRTMB/R/MCMC_Fit.R | 276 +- BayesRTMB-0.2.1/BayesRTMB/R/NUTS.R | 1080 ++++++++ BayesRTMB-0.2.1/BayesRTMB/R/RTMB_Model.R | 154 - BayesRTMB-0.2.1/BayesRTMB/R/RTMB_Model_impl_ast.R | 6 BayesRTMB-0.2.1/BayesRTMB/R/RTMB_Model_impl_sampling.R | 457 +++ BayesRTMB-0.2.1/BayesRTMB/R/VB_Fit.R | 245 + BayesRTMB-0.2.1/BayesRTMB/R/classic.R | 17 BayesRTMB-0.2.1/BayesRTMB/R/data_utils.R | 167 - BayesRTMB-0.2.1/BayesRTMB/R/derived_tape.R |only BayesRTMB-0.2.1/BayesRTMB/R/diagnose.R | 446 +++ BayesRTMB-0.2.1/BayesRTMB/R/distributions.R | 41 BayesRTMB-0.2.1/BayesRTMB/R/math_functions.R | 189 + BayesRTMB-0.2.1/BayesRTMB/R/methods_post_estimation.R | 552 ++++ BayesRTMB-0.2.1/BayesRTMB/R/model.R | 303 +- BayesRTMB-0.2.1/BayesRTMB/R/plot.R | 86 BayesRTMB-0.2.1/BayesRTMB/R/progress.R |only BayesRTMB-0.2.1/BayesRTMB/R/rhat_summary.R |only BayesRTMB-0.2.1/BayesRTMB/R/upgrade_fit.R |only BayesRTMB-0.2.1/BayesRTMB/R/waic.R | 16 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_corr.R | 40 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_fa.R | 77 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_glmer.R | 118 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_irt.R | 17 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_lm_glm_lmer.R | 14 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_loglinear.R | 20 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_lrt.R | 22 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_mdu.R | 227 + BayesRTMB-0.2.1/BayesRTMB/R/wrapper_mediation.R | 18 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_mixture.R | 62 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_table.R | 16 BayesRTMB-0.2.1/BayesRTMB/R/wrapper_ttest.R | 716 ++--- BayesRTMB-0.2.1/BayesRTMB/R/wrappers_prior.R | 36 BayesRTMB-0.2.1/BayesRTMB/README.md | 6 BayesRTMB-0.2.1/BayesRTMB/build/vignette.rds |binary BayesRTMB-0.2.1/BayesRTMB/inst/doc/analysis_reference.R |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/analysis_reference.Rmd |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/analysis_reference.html |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/introduction.Rmd | 4 BayesRTMB-0.2.1/BayesRTMB/inst/doc/introduction.html | 6 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-analysis_reference.R |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-analysis_reference.Rmd |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-analysis_reference.html |only BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-introduction.Rmd | 101 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-introduction.html | 34 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-quick_start.R | 2 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-quick_start.Rmd | 110 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-quick_start.html | 27 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-rtmb_glmer.Rmd | 2 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-rtmb_glmer.html | 4 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-rtmb_internals.Rmd | 8 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-rtmb_internals.html | 25 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-wrapper_functions.R | 9 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-wrapper_functions.Rmd | 17 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-wrapper_functions.html | 51 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-writing_models.R | 24 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-writing_models.Rmd | 44 BayesRTMB-0.2.1/BayesRTMB/inst/doc/ja-writing_models.html | 54 BayesRTMB-0.2.1/BayesRTMB/inst/doc/quick_start.R | 2 BayesRTMB-0.2.1/BayesRTMB/inst/doc/quick_start.Rmd | 12 BayesRTMB-0.2.1/BayesRTMB/inst/doc/quick_start.html | 19 BayesRTMB-0.2.1/BayesRTMB/inst/doc/rtmb_glmer.Rmd | 1 BayesRTMB-0.2.1/BayesRTMB/inst/doc/rtmb_glmer.html | 3 BayesRTMB-0.2.1/BayesRTMB/inst/doc/rtmb_internals.Rmd | 8 BayesRTMB-0.2.1/BayesRTMB/inst/doc/rtmb_internals.html | 24 BayesRTMB-0.2.1/BayesRTMB/inst/doc/wrapper_functions.R | 2 BayesRTMB-0.2.1/BayesRTMB/inst/doc/wrapper_functions.Rmd | 10 BayesRTMB-0.2.1/BayesRTMB/inst/doc/wrapper_functions.html | 22 BayesRTMB-0.2.1/BayesRTMB/inst/doc/writing_models.R | 29 BayesRTMB-0.2.1/BayesRTMB/inst/doc/writing_models.Rmd | 53 BayesRTMB-0.2.1/BayesRTMB/inst/doc/writing_models.html | 68 BayesRTMB-0.2.1/BayesRTMB/man/ADVI_method.Rd | 4 BayesRTMB-0.2.1/BayesRTMB/man/BayesRTMB-package.Rd | 78 BayesRTMB-0.2.1/BayesRTMB/man/Classic_Fit.Rd | 1266 +++++----- BayesRTMB-0.2.1/BayesRTMB/man/MAP_Fit.Rd | 876 +++--- BayesRTMB-0.2.1/BayesRTMB/man/MCMC_Fit.Rd | 132 + BayesRTMB-0.2.1/BayesRTMB/man/RTMB_Fit_Base.Rd | 499 +-- BayesRTMB-0.2.1/BayesRTMB/man/RTMB_Model-class.Rd | 71 BayesRTMB-0.2.1/BayesRTMB/man/VB_Fit.Rd | 924 ++++--- BayesRTMB-0.2.1/BayesRTMB/man/conditional_effects.Rd | 14 BayesRTMB-0.2.1/BayesRTMB/man/conditional_effects.mcmc_fit.Rd | 6 BayesRTMB-0.2.1/BayesRTMB/man/distributions.Rd | 1 BayesRTMB-0.2.1/BayesRTMB/man/gaussian_process_lpdf.Rd | 8 BayesRTMB-0.2.1/BayesRTMB/man/math_functions.Rd | 2 BayesRTMB-0.2.1/BayesRTMB/man/plot_conditional_effects.Rd | 21 BayesRTMB-0.2.1/BayesRTMB/man/plot_mdu.Rd | 11 BayesRTMB-0.2.1/BayesRTMB/man/rhat_summary.Rd |only BayesRTMB-0.2.1/BayesRTMB/man/rtmb_array.Rd |only BayesRTMB-0.2.1/BayesRTMB/man/rtmb_fa.Rd | 3 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_glm.Rd | 3 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_glmer.Rd | 9 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_lm.Rd | 3 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_lmer.Rd | 5 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_loglinear.Rd | 4 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_mdu.Rd | 12 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_mediation.Rd | 2 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_mixture.Rd | 2 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_model.Rd | 11 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_table.Rd | 6 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_ttest.Rd | 5 BayesRTMB-0.2.1/BayesRTMB/man/rtmb_vector.Rd |only BayesRTMB-0.2.1/BayesRTMB/man/simple_effects.Rd | 16 BayesRTMB-0.2.1/BayesRTMB/man/simple_effects.mcmc_fit.Rd | 12 BayesRTMB-0.2.1/BayesRTMB/man/to_long.Rd | 20 BayesRTMB-0.2.1/BayesRTMB/man/to_wide.Rd | 3 BayesRTMB-0.2.1/BayesRTMB/man/transform_code.Rd | 4 BayesRTMB-0.2.1/BayesRTMB/man/upgrade_fit.Rd |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-classic-display.R | 12 BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-data-utils.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-diagnose.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-gaussian-process.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-optimize-marginal-df.R | 179 - BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-plot.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-progress.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-rhat-summary.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-rtmb-containers.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-upgrade-fit.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-vb-point-estimates.R |only BayesRTMB-0.2.1/BayesRTMB/tests/testthat/test-wrappers.R | 262 ++ BayesRTMB-0.2.1/BayesRTMB/vignettes/analysis_reference.Rmd |only BayesRTMB-0.2.1/BayesRTMB/vignettes/introduction.Rmd | 4 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-analysis_reference.Rmd |only BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-introduction.Rmd | 101 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-quick_start.Rmd | 110 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-rtmb_glmer.Rmd | 2 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-rtmb_internals.Rmd | 8 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-wrapper_functions.Rmd | 17 BayesRTMB-0.2.1/BayesRTMB/vignettes/ja-writing_models.Rmd | 44 BayesRTMB-0.2.1/BayesRTMB/vignettes/quick_start.Rmd | 12 BayesRTMB-0.2.1/BayesRTMB/vignettes/rtmb_glmer.Rmd | 1 BayesRTMB-0.2.1/BayesRTMB/vignettes/rtmb_internals.Rmd | 8 BayesRTMB-0.2.1/BayesRTMB/vignettes/wrapper_functions.Rmd | 10 BayesRTMB-0.2.1/BayesRTMB/vignettes/writing_models.Rmd | 53 140 files changed, 8128 insertions(+), 3350 deletions(-)
Title: Archaeological Time Series
Description: A toolkit for archaeological time series and time intervals.
This package provides a system of classes and methods to represent and
work with archaeological time series and time intervals. Dates are
represented as "rata die" and can be converted to (virtually) any
calendar defined by Reingold and Dershowitz (2018)
<doi:10.1017/9781107415058>. This packages offers a simple API that
can be used by other specialized packages.
Author: Nicolas Frerebeau [aut, cre] ,
Joe Roe [aut] ,
Brice Lebrun [art] ,
Universite Bordeaux Montaigne [fnd] ,
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between aion versions 1.7.0 dated 2026-02-05 and 1.7.1 dated 2026-06-23
DESCRIPTION | 12 ++-- MD5 | 117 ++++++++++++++++++++--------------------- NAMESPACE | 2 NEWS.md | 4 + R/AllGenerics.R | 25 ++++++++ R/aion-package.R | 2 R/coerce.R | 14 ++++ R/show.R | 4 - README.md | 11 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/aion.html | 2 inst/doc/extending.html | 2 inst/doc/stratigraphy.html | 4 - inst/tinytest/test_intervals.R | 3 - inst/tinytest/test_subset.R | 2 man/GregorianCalendar-class.Rd | 4 - man/JulianCalendar-class.Rd | 4 - man/RataDie-class.Rd | 4 - man/TimeIntervals-class.Rd | 8 +- man/TimeScale-class.Rd | 4 - man/TimeSeries-class.Rd | 6 +- man/aion-package.Rd | 5 + man/arithmetic.Rd | 18 +++--- man/as.array.Rd |only man/as.data.frame.Rd | 14 +--- man/as_date.Rd | 18 +++--- man/as_decimal.Rd | 16 ++--- man/as_fixed.Rd | 16 ++--- man/as_year.Rd | 18 +++--- man/calendar.Rd | 12 ++-- man/calendar_get.Rd | 16 ++--- man/convert.Rd | 14 ++-- man/fixed.Rd | 18 +++--- man/fixed_gregorian.Rd | 20 +++---- man/fixed_julian.Rd | 20 +++---- man/flip.Rd | 14 ++-- man/format.Rd | 18 +++--- man/get_calendar.Rd | 12 ++-- man/graph_create.Rd | 6 +- man/graph_prune.Rd | 4 - man/gregorian.Rd | 14 ++-- man/image.Rd | 10 +-- man/intervals.Rd | 10 +-- man/is_calendar.Rd | 10 +-- man/julian.Rd | 12 ++-- man/labels.Rd | 10 +-- man/length.Rd | 10 +-- man/names.Rd | 10 +-- man/overlap.Rd | 6 +- man/plot.Rd | 12 ++-- man/pretty.Rd | 20 +++---- man/relations.Rd | 6 +- man/series.Rd | 8 +- man/span.Rd | 12 ++-- man/start.Rd | 12 ++-- man/subset.Rd | 10 --- man/time.Rd | 12 ++-- man/window.Rd | 12 ++-- man/year_axis.Rd | 10 +-- 60 files changed, 357 insertions(+), 342 deletions(-)
Title: Convert Digital Images to Spatially Referenced 'SpatRaster'
Objects
Description: Convert digital images to spatially referenced 'SpatRaster'
objects, as defined by the 'terra' package, using coordinates from
supported spatial input classes. Supported inputs include numeric
coordinate vectors and objects from the 'sf', 'terra' and 'stars'
packages. The main function is an S3 generic, allowing other packages
to extend support to additional spatial classes.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between rasterpic versions 0.5.0 dated 2026-05-21 and 0.5.1 dated 2026-06-23
rasterpic-0.5.0/rasterpic/R/test_helpers.R |only rasterpic-0.5.1/rasterpic/DESCRIPTION | 25 - rasterpic-0.5.1/rasterpic/MD5 | 69 +-- rasterpic-0.5.1/rasterpic/NAMESPACE | 30 - rasterpic-0.5.1/rasterpic/NEWS.md | 21 - rasterpic-0.5.1/rasterpic/R/asp_ratio.R | 10 rasterpic-0.5.1/rasterpic/R/rasterpic-package.R | 1 rasterpic-0.5.1/rasterpic/R/rasterpic_img.R | 207 +++------- rasterpic-0.5.1/rasterpic/R/utils.R | 135 ++++-- rasterpic-0.5.1/rasterpic/README.md | 57 +- rasterpic-0.5.1/rasterpic/inst/CITATION | 4 rasterpic-0.5.1/rasterpic/inst/WORDLIST | 38 + rasterpic-0.5.1/rasterpic/inst/doc/rasterpic.R | 12 rasterpic-0.5.1/rasterpic/inst/doc/rasterpic.html | 34 - rasterpic-0.5.1/rasterpic/inst/doc/rasterpic.qmd | 42 +- rasterpic-0.5.1/rasterpic/inst/schemaorg.json | 8 rasterpic-0.5.1/rasterpic/man/asp_ratio.Rd | 6 rasterpic-0.5.1/rasterpic/man/rasterpic-package.Rd | 5 rasterpic-0.5.1/rasterpic/man/rasterpic_img.Rd | 98 ++-- rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/crop_mask.md |only rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/errors_messages.md | 34 + rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/nlayers.md | 10 rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/online.md | 5 rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/s3.md | 8 rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/sfg.md |only rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/spatextent.md |only rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/stars.md |only rasterpic-0.5.1/rasterpic/tests/testthat/_snaps/vector.md |only rasterpic-0.5.1/rasterpic/tests/testthat/helpers.R |only rasterpic-0.5.1/rasterpic/tests/testthat/test-bbox.R | 4 rasterpic-0.5.1/rasterpic/tests/testthat/test-crop_mask.R | 9 rasterpic-0.5.1/rasterpic/tests/testthat/test-errors_messages.R | 10 rasterpic-0.5.1/rasterpic/tests/testthat/test-fileformat.R | 12 rasterpic-0.5.1/rasterpic/tests/testthat/test-nlayers.R | 2 rasterpic-0.5.1/rasterpic/tests/testthat/test-sfg.R | 6 rasterpic-0.5.1/rasterpic/tests/testthat/test-spatextent.R | 4 rasterpic-0.5.1/rasterpic/tests/testthat/test-stars.R | 9 rasterpic-0.5.1/rasterpic/tests/testthat/test-vector.R | 6 rasterpic-0.5.1/rasterpic/vignettes/rasterpic.qmd | 42 +- 39 files changed, 505 insertions(+), 458 deletions(-)
Title: The Hyperdirichlet Distribution, Mark 2
Description: A suite of routines for the hyperdirichlet distribution
and reified Bradley-Terry; supersedes the 'hyperdirichlet' package;
uses 'disordR' discipline <doi:10.48550/ARXIV.2210.03856>. To cite
in publications please use Hankin 2017 <doi:10.32614/rj-2017-061>,
and for Generalized Plackett-Luce likelihoods use Hankin 2024
<doi:10.18637/jss.v109.i08>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between hyper2 versions 3.2 dated 2025-11-12 and 3.2-3 dated 2026-06-23
hyper2-3.2-3/hyper2/DESCRIPTION | 14 hyper2-3.2-3/hyper2/MD5 | 249 ++++----- hyper2-3.2-3/hyper2/NAMESPACE | 28 - hyper2-3.2-3/hyper2/NEWS.md | 31 + hyper2-3.2-3/hyper2/R/RcppExports.R | 16 hyper2-3.2-3/hyper2/R/attemptstable.R |only hyper2-3.2-3/hyper2/R/frabstuff.R |only hyper2-3.2-3/hyper2/R/hyper2.R | 290 ++++++---- hyper2-3.2-3/hyper2/R/hyper3.R | 385 +++++++------- hyper2-3.2-3/hyper2/R/keep.R | 6 hyper2-3.2-3/hyper2/R/psubs.R | 10 hyper2-3.2-3/hyper2/R/ranktable.R | 11 hyper2-3.2-3/hyper2/R/summary.R | 10 hyper2-3.2-3/hyper2/build/partial.rdb |binary hyper2-3.2-3/hyper2/build/vignette.rds |binary hyper2-3.2-3/hyper2/data/NBA.rda |binary hyper2-3.2-3/hyper2/data/RCLF.rda |binary hyper2-3.2-3/hyper2/data/T20.rda |binary hyper2-3.2-3/hyper2/data/baseball.rda |binary hyper2-3.2-3/hyper2/data/carcinoma.rda |binary hyper2-3.2-3/hyper2/data/chess.rda |binary hyper2-3.2-3/hyper2/data/constructor.rda |binary hyper2-3.2-3/hyper2/data/counterstrike.rda |binary hyper2-3.2-3/hyper2/data/curling.rda |binary hyper2-3.2-3/hyper2/data/eurodance.rda |binary hyper2-3.2-3/hyper2/data/eurovision.rda |binary hyper2-3.2-3/hyper2/data/formula1.rda |binary hyper2-3.2-3/hyper2/data/handover.rda |binary hyper2-3.2-3/hyper2/data/hepatitis.rda |binary hyper2-3.2-3/hyper2/data/icons.rda |binary hyper2-3.2-3/hyper2/data/interzonal.rda |binary hyper2-3.2-3/hyper2/data/javelin.rda |binary hyper2-3.2-3/hyper2/data/jester.rda |binary hyper2-3.2-3/hyper2/data/karate.rda |binary hyper2-3.2-3/hyper2/data/kka.rda |binary hyper2-3.2-3/hyper2/data/masterchef.rda |binary hyper2-3.2-3/hyper2/data/moto.rda |binary hyper2-3.2-3/hyper2/data/pentathlon.rda |binary hyper2-3.2-3/hyper2/data/powerboat.rda |binary hyper2-3.2-3/hyper2/data/rowing.rda |binary hyper2-3.2-3/hyper2/data/skating.rda |binary hyper2-3.2-3/hyper2/data/soling.rda |binary hyper2-3.2-3/hyper2/data/surfing.rda |binary hyper2-3.2-3/hyper2/data/sushi.rda |binary hyper2-3.2-3/hyper2/data/table_tennis.rda |binary hyper2-3.2-3/hyper2/data/tennis.rda |binary hyper2-3.2-3/hyper2/data/universities.rda |binary hyper2-3.2-3/hyper2/data/volleyball.rda |binary hyper2-3.2-3/hyper2/data/volvo.rda |binary hyper2-3.2-3/hyper2/inst/doc/dirichlet.html | 2 hyper2-3.2-3/hyper2/inst/doc/hyper2.R | 8 hyper2-3.2-3/hyper2/inst/doc/hyper2.Rnw | 2 hyper2-3.2-3/hyper2/inst/doc/hyper2.pdf |binary hyper2-3.2-3/hyper2/inst/doc/hyper3.html | 5 hyper2-3.2-3/hyper2/inst/doc/hyper3_creation.html | 8 hyper2-3.2-3/hyper2/inst/doc/icons.html | 2 hyper2-3.2-3/hyper2/inst/doc/integration.R | 2 hyper2-3.2-3/hyper2/inst/doc/integration.pdf |binary hyper2-3.2-3/hyper2/inst/doc/ordertrans.html | 2 hyper2-3.2-3/hyper2/inst/doc/zeropower.html | 2 hyper2-3.2-3/hyper2/inst/eurovision2022_jury_pre_null.txt |only hyper2-3.2-3/hyper2/inst/eurovision_collusion3.Rmd |only hyper2-3.2-3/hyper2/inst/exp_grid.Rmd |only hyper2-3.2-3/hyper2/man/B.Rd | 12 hyper2-3.2-3/hyper2/man/Extract.Rd | 26 hyper2-3.2-3/hyper2/man/Ops.hyper2.Rd | 52 + hyper2-3.2-3/hyper2/man/Ops.hyper3.Rd | 5 hyper2-3.2-3/hyper2/man/Print.Rd | 4 hyper2-3.2-3/hyper2/man/RCLF.Rd | 11 hyper2-3.2-3/hyper2/man/T20.Rd | 10 hyper2-3.2-3/hyper2/man/attemptstable.Rd |only hyper2-3.2-3/hyper2/man/balance.Rd | 6 hyper2-3.2-3/hyper2/man/carcinoma.Rd | 12 hyper2-3.2-3/hyper2/man/cplusplus.Rd | 10 hyper2-3.2-3/hyper2/man/dirichlet.Rd | 58 +- hyper2-3.2-3/hyper2/man/eurovision.Rd | 16 hyper2-3.2-3/hyper2/man/fillup.Rd | 8 hyper2-3.2-3/hyper2/man/ggrl.Rd | 21 hyper2-3.2-3/hyper2/man/gradient.Rd | 10 hyper2-3.2-3/hyper2/man/handover.Rd | 9 hyper2-3.2-3/hyper2/man/hyper2-package.Rd | 5 hyper2-3.2-3/hyper2/man/hyper3.Rd | 81 +- hyper2-3.2-3/hyper2/man/icons.Rd | 13 hyper2-3.2-3/hyper2/man/increment.Rd | 57 -- hyper2-3.2-3/hyper2/man/javelin.Rd | 44 + hyper2-3.2-3/hyper2/man/karate.Rd | 2 hyper2-3.2-3/hyper2/man/keep.Rd | 6 hyper2-3.2-3/hyper2/man/length.Rd | 8 hyper2-3.2-3/hyper2/man/loglik.Rd | 9 hyper2-3.2-3/hyper2/man/maxp.Rd | 9 hyper2-3.2-3/hyper2/man/ordertable.Rd | 53 + hyper2-3.2-3/hyper2/man/ordertable2supp.Rd | 41 + hyper2-3.2-3/hyper2/man/ordertrans.Rd | 22 hyper2-3.2-3/hyper2/man/ordervec2supp3.Rd | 45 - hyper2-3.2-3/hyper2/man/pairwise.Rd | 87 +-- hyper2-3.2-3/hyper2/man/pentathlon.Rd | 3 hyper2-3.2-3/hyper2/man/pick.Rd |only hyper2-3.2-3/hyper2/man/powerboat.Rd | 4 hyper2-3.2-3/hyper2/man/pwa.Rd | 108 ++- hyper2-3.2-3/hyper2/man/ranktable.Rd | 23 hyper2-3.2-3/hyper2/man/rhyper3.Rd | 31 - hyper2-3.2-3/hyper2/man/rp.Rd | 12 hyper2-3.2-3/hyper2/man/rrace.Rd | 2 hyper2-3.2-3/hyper2/man/rrank.Rd | 30 - hyper2-3.2-3/hyper2/man/skating.Rd | 30 - hyper2-3.2-3/hyper2/man/soling.Rd | 2 hyper2-3.2-3/hyper2/man/suppfun.Rd | 10 hyper2-3.2-3/hyper2/man/surfing.Rd | 9 hyper2-3.2-3/hyper2/man/sushi.Rd | 2 hyper2-3.2-3/hyper2/man/table_tennis.Rd | 23 hyper2-3.2-3/hyper2/man/tests.Rd | 2 hyper2-3.2-3/hyper2/man/tidy.Rd | 5 hyper2-3.2-3/hyper2/man/universities.Rd | 4 hyper2-3.2-3/hyper2/man/volleyball.Rd | 12 hyper2-3.2-3/hyper2/man/volvo.Rd | 3 hyper2-3.2-3/hyper2/man/weights.Rd |only hyper2-3.2-3/hyper2/src/RcppExports.cpp | 36 - hyper2-3.2-3/hyper2/src/hyperdirichlet2.cpp | 38 - hyper2-3.2-3/hyper2/src/hyperdirichlet3.cpp | 16 hyper2-3.2-3/hyper2/tests/testthat/test_aaa.R | 9 hyper2-3.2-3/hyper2/tests/testthat/test_hyper3.R | 7 hyper2-3.2-3/hyper2/tests/testthat/test_integrate.R |only hyper2-3.2-3/hyper2/tests/testthat/test_ranktable.R |only hyper2-3.2-3/hyper2/vignettes/hyper2.Rnw | 2 hyper2-3.2-3/hyper2/vignettes/hyper2.bib | 153 +++++ hyper2-3.2/hyper2/inst/cheering.Rmd |only hyper2-3.2/hyper2/inst/cloud9_boston_2018.txt |only hyper2-3.2/hyper2/inst/exponential_BT.Rmd |only hyper2-3.2/hyper2/inst/hankin-exponential_BT.tex |only hyper2-3.2/hyper2/inst/jss_hyper3_real.R |only hyper2-3.2/hyper2/inst/jss_hyper3_real.Rnw |only hyper2-3.2/hyper2/inst/oecd.txt |only hyper2-3.2/hyper2/inst/sushi.Rmd |only hyper2-3.2/hyper2/inst/sushi.txt |only hyper2-3.2/hyper2/man/as.ordertable.Rd |only hyper2-3.2/hyper2/man/attemptstable2supp3.Rd |only 136 files changed, 1475 insertions(+), 936 deletions(-)
Title: 'grid' Pattern Grobs
Description: Provides 'grid' grobs that fill in a user-defined area with various patterns. Includes enhanced versions of the geometric and image-based patterns originally contained in the 'ggpattern' package as well as original 'pch', 'polygon_tiling', 'regular_polygon', 'rose', 'text', 'wave', and 'weave' patterns plus support for custom user-defined patterns.
Author: Trevor L. Davis [aut, cre] ,
Mike FC [aut] ,
ggplot2 authors [ctb]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between gridpattern versions 1.3.1 dated 2025-01-16 and 1.4.2 dated 2026-06-23
gridpattern-1.3.1/gridpattern/R/mean_col.R |only gridpattern-1.3.1/gridpattern/tests/testthat/_snaps/geometry/wave-sine.svg |only gridpattern-1.3.1/gridpattern/tests/testthat/_snaps/geometry/wave-triangle.svg |only gridpattern-1.4.2/gridpattern/DESCRIPTION | 17 gridpattern-1.4.2/gridpattern/MD5 | 206 gridpattern-1.4.2/gridpattern/NAMESPACE | 5 gridpattern-1.4.2/gridpattern/NEWS.md | 109 gridpattern-1.4.2/gridpattern/R/alphaMaskGrob.R | 255 gridpattern-1.4.2/gridpattern/R/clippingPathGrob.R | 227 gridpattern-1.4.2/gridpattern/R/grid-pattern-fill.R | 51 gridpattern-1.4.2/gridpattern/R/grid-pattern.R | 337 - gridpattern-1.4.2/gridpattern/R/pattern-array-ambient.R | 186 gridpattern-1.4.2/gridpattern/R/pattern-array-image.R | 97 gridpattern-1.4.2/gridpattern/R/pattern-array-magick.R | 214 gridpattern-1.4.2/gridpattern/R/pattern-array-placeholder.R | 182 gridpattern-1.4.2/gridpattern/R/pattern-array-plasma.R | 95 gridpattern-1.4.2/gridpattern/R/pattern-both-gradient.R | 231 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gridpattern-1.4.2/gridpattern/tests/testthat/test_pch.R | 27 gridpattern-1.4.2/gridpattern/tests/testthat/test_square.R | 33 gridpattern-1.4.2/gridpattern/tests/testthat/test_tiling.R | 204 gridpattern-1.4.2/gridpattern/tests/testthat/test_utils.R | 243 gridpattern-1.4.2/gridpattern/tests/testthat/test_weave.R | 57 gridpattern-1.4.2/gridpattern/vignettes/hatching.Rmd |only 126 files changed, 9105 insertions(+), 5341 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil. The package
offers a wide range of spatial data sets available at various
geographic scales and for various years with harmonized attributes,
projection and fixed topology. All functions allow for seamless
integration sf, DuckDB and Arrow.
Author: Rafael H. M. Pereira [aut, cre] ,
Rogerio Jeronimo Barbosa [aut],
Caio Nogueira Goncalves [ctb],
Cecilia do Lago [ctb],
Filipe Cavalcanti [ctb],
Arthur Bazolli [ctb],
Lucas Gelape [ctb],
Rafael Lopes [ctb],
Vinicius Oike [ctb],
Paulo Henrique Fernand [...truncated...]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 2.0.0 dated 2026-05-20 and 2.0.1 dated 2026-06-23
DESCRIPTION | 21 - MD5 | 89 ++--- R/read_immediate_region.R | 10 R/read_neighborhood.R | 6 R/read_polling_places.R | 6 R/utils.R | 67 ++-- inst/doc/intro_to_geobr.R | 280 +++++++++--------- inst/doc/intro_to_geobr.html | 94 ++++-- inst/extdata/br_offcoast.parquet |binary man/download_metadata2.Rd | 6 man/filter_arrw.Rd | 8 man/geobr.Rd | 2 man/lookup_muni.Rd | 3 man/read_amazon.Rd | 3 man/read_biomes.Rd | 3 man/read_census_tract.Rd | 3 man/read_conservation_units.Rd | 3 man/read_country.Rd | 3 man/read_disaster_risk_area.Rd | 3 man/read_favela.Rd | 3 man/read_health_facilities.Rd | 3 man/read_health_region.Rd | 3 man/read_immediate_region.Rd | 11 man/read_indigenous_land.Rd | 3 man/read_intermediate_region.Rd | 3 man/read_meso_region.Rd | 3 man/read_metro_area.Rd | 3 man/read_micro_region.Rd | 3 man/read_municipal_seat.Rd | 3 man/read_municipality.Rd | 3 man/read_neighborhood.Rd | 3 man/read_polling_places.Rd | 9 man/read_pop_arrangements.Rd | 3 man/read_quilombola_land.Rd | 3 man/read_region.Rd | 3 man/read_schools.Rd | 3 man/read_semiarid.Rd | 3 man/read_state.Rd | 3 man/read_statistical_grid.Rd | 3 man/read_urban_area.Rd | 3 man/read_urban_concentrations.Rd | 3 man/read_weighting_area.Rd | 3 man/roxygen/templates/date.R | 3 man/roxygen/templates/year.R | 3 tests/tests_rafa/create_br_buffer_to_remove_islands.R | 46 ++ tests/tests_rafa/pop_near_hospt.R |only 46 files changed, 412 insertions(+), 333 deletions(-)
Title: Empirical Sample Complexity Bounds
Description: Provides tools for estimating empirical sample complexity
bounds for supervised learning tasks. The package supports simulation-based
estimates of generalization curves, parametric extrapolation of empirical
sample complexity bounds, theoretical bounds based on Vapnik-Chervonenkis
dimension, and optional monotone Gaussian process extrapolation for users who
install the external 'cmdstanr' workflow. For more details, see Carter and
Choi (2024) <doi:10.31219/osf.io/evrcj>.
Author: Perry Carter [aut, cre] ,
Dahyun Choi [aut]
Maintainer: Perry Carter <pjc504@nyu.edu>
Diff between scR versions 0.4.0 dated 2024-12-23 and 0.7.0 dated 2026-06-23
scR-0.4.0/scR/R/sysdata.rda |only scR-0.4.0/scR/data |only scR-0.4.0/scR/man/br.Rd |only scR-0.4.0/scR/man/plot_accuracy.Rd |only scR-0.7.0/scR/DESCRIPTION | 47 - scR-0.7.0/scR/LICENSE | 4 scR-0.7.0/scR/MD5 | 63 + scR-0.7.0/scR/NAMESPACE | 99 +- scR-0.7.0/scR/NEWS.md |only scR-0.7.0/scR/R/data.R | 13 scR-0.7.0/scR/R/datagen.R | 72 - scR-0.7.0/scR/R/globals.R | 8 scR-0.7.0/scR/R/gp_scb.R |only scR-0.7.0/scR/R/scR-package.R | 9 scR-0.7.0/scR/R/scR.R | 968 +++++++++++++++++++----- scR-0.7.0/scR/R/simulations.R | 688 ++++++++--------- scR-0.7.0/scR/R/utils.R |only scR-0.7.0/scR/README.md | 98 +- scR-0.7.0/scR/inst |only scR-0.7.0/scR/man/acc_sim.Rd | 122 +-- scR-0.7.0/scR/man/conduct_interpolation.Rd |only scR-0.7.0/scR/man/create_scb_model.Rd |only scR-0.7.0/scR/man/create_scb_prediction.Rd |only scR-0.7.0/scR/man/estimate_accuracy.Rd | 237 ++--- scR-0.7.0/scR/man/fit_and_predict.Rd |only scR-0.7.0/scR/man/fit_gp_scb_curve.Rd |only scR-0.7.0/scR/man/gendata.Rd | 115 +- scR-0.7.0/scR/man/getpac.Rd | 78 - scR-0.7.0/scR/man/interpolate_scb.Rd |only scR-0.7.0/scR/man/interpolate_scb_gp.Rd |only scR-0.7.0/scR/man/loss.Rd | 60 - scR-0.7.0/scR/man/plot.empirical_scb_gp.Rd |only scR-0.7.0/scR/man/plot.empirical_scb_list.Rd |only scR-0.7.0/scR/man/plot.scb_data.Rd |only scR-0.7.0/scR/man/risk_bounds.Rd | 59 - scR-0.7.0/scR/man/scR-package.Rd |only scR-0.7.0/scR/man/scb.Rd | 85 -- scR-0.7.0/scR/man/simvcd.Rd | 154 +-- scR-0.7.0/scR/man/summary.empirical_scb_gp.Rd |only scR-0.7.0/scR/man/summary.empirical_scb_list.Rd |only scR-0.7.0/scR/tests |only 41 files changed, 1833 insertions(+), 1146 deletions(-)
Title: Partial Eta-Squared for Crossed, Nested, and Mixed Linear Mixed
Models
Description: Computes partial eta-squared effect sizes for fixed effects in
linear mixed models fitted with the 'lme4' package. Supports crossed,
nested, and mixed (crossed-and-nested) random effects structures with any
number of grouping factors. Mixed designs handle cases where grouping
factors are simultaneously crossed with some variables and nested within
others (e.g., photos nested within models, but both crossed with
participants). Factor predictors are supported directly, and a single
factor-level (omnibus) effect size can be obtained for a multi-level factor
or multi-df interaction. Random slope variances are translated to the
outcome scale using a variance decomposition approach, correctly accounting
for predictor scaling and interaction terms. Both general and operative
effect sizes are provided, with optional parametric bootstrap confidence
intervals. For correlated predictors, per-predictor effect sizes use unique
(semipartial) variance by default. Methods are based on Correll, Melling [...truncated...]
Author: Brandon Cohen [aut, cre] ,
Joshua Correll [aut, ths]
Maintainer: Brandon Cohen <brandon.cohen-1@colorado.edu>
Diff between pecanr versions 0.2.0 dated 2026-04-11 and 0.3.0 dated 2026-06-23
DESCRIPTION | 22 - MD5 | 21 - NAMESPACE | 2 NEWS.md | 92 ++++++ R/eta2p.R | 660 ++++++++++++++++++++++++++++++++++++++++++++------ README.md | 98 +++++++ build/partial.rdb |binary inst/WORDLIST | 6 man/batch_eta2p.Rd | 22 + man/eta2p.Rd | 188 +++++++++++++- man/eta2p_omnibus.Rd |only man/pecanr-package.Rd | 3 12 files changed, 998 insertions(+), 116 deletions(-)
Title: Visualize Heterogeneity-Robust Event Studies for Non-Absorbing
Treatments
Description: Runs several heterogeneity-robust difference-in-differences (DID) event-study estimators
for non-absorbing (i.e., treatment can switch on and off over time, allowing treatment reversal)
binary treatments through their respective packages,
harmonizes their output onto a common time axis and tidy data structure, and overlays them in a single
'ggplot2' panel for visual comparison.
Supported estimators include those provided by 'DIDmultiplegtDYN', 'PanelMatch', and 'fect', with an
optional naive two-way fixed-effects reference series via 'fixest'. The underlying methods are respectively described in
Clement de Chaisemartin and Xavier D'Haultfoeuille. "Difference-in-Differences Estimators of Intertemporal Treatment Effects."
The Review of Economics and Statistics (2026) <doi:10.1162/rest_a_01414>,
Kosuke Imai, In Song Kim, and Erik H. Wang. "Matching methods for causal inference with time‐series cross‐sectional data."
American Journal of Political Science 67.3 (2023) <doi:10.1111/a [...truncated...]
Author: Takuma Iwasaki [aut, cre]
Maintainer: Takuma Iwasaki <iwasakit@stanford.edu>
Diff between nonabsdid versions 0.3.2 dated 2026-06-18 and 0.4.1 dated 2026-06-23
DESCRIPTION | 17 - MD5 | 78 +++++-- NAMESPACE | 13 + NEWS.md | 12 - R/as_nabs_event_study.R | 3 R/effect_cells.R |only R/effect_cells_dcdh.R |only R/effect_cells_fect.R |only R/nabs_dta.R |only R/nabs_effect_cells.R |only R/nabs_event_study.R | 262 ++++++++++++++++++++++---- R/nabs_event_study_simple.R | 145 +++++++++++--- R/naive_twfe.R | 67 ++++-- R/nonabsdid-package.R | 5 R/plot_effect_matrix.R |only R/preflight.R |only R/stata_aliases.R |only R/tidy_panelmatch.R | 4 README.md | 134 +++++++++++-- build/vignette.rds |binary inst/doc/cohort-matrix.R |only inst/doc/cohort-matrix.Rmd |only inst/doc/cohort-matrix.html |only inst/doc/nonabsdid-for-stata-users.R |only inst/doc/nonabsdid-for-stata-users.Rmd |only inst/doc/nonabsdid-for-stata-users.html |only man/aggregate_effects.Rd |only man/as_nabs_effect_cells.Rd |only man/figures/README_cohort_matrix.png |only man/figures/README_cohort_matrix_combined.png |only man/figures/README_cohort_matrix_dcdh.png |only man/nabs_effect_cells.Rd |only man/nabs_event_study.Rd | 54 +++++ man/nabs_event_study_simple.Rd | 46 +++- man/nabs_read_dta.Rd |only man/nabs_write_dta.Rd |only man/naive_twfe.Rd | 5 man/nonabsdid-package.Rd | 1 man/plot_effect_matrix.Rd |only tests/testthat/test-dcdh.R | 4 tests/testthat/test-dta.R |only tests/testthat/test-effect-cells.R |only tests/testthat/test-fect.R | 20 - tests/testthat/test-fixest-tidy.R |only tests/testthat/test-internals.R |only tests/testthat/test-knobs.R |only tests/testthat/test-nabs-event-plot.R | 13 - tests/testthat/test-naive-twfe.R | 10 tests/testthat/test-panelmatch.R | 10 tests/testthat/test-plot-styles.R |only tests/testthat/test-preflight.R |only tests/testthat/test-print-coerce.R |only tests/testthat/test-schema.R | 4 tests/testthat/test-simple.R | 17 - tests/testthat/test-stata-aliases.R |only vignettes/cohort-matrix.Rmd |only vignettes/nonabsdid-for-stata-users.Rmd |only 57 files changed, 726 insertions(+), 198 deletions(-)
Title: Sourcing Archaeological Materials by Chemical Composition
Description: Exploration and analysis of compositional data in the
framework of Aitchison (1986, ISBN: 978-94-010-8324-9). This package
provides tools for chemical fingerprinting and source tracking of
ancient materials.
Author: Nicolas Frerebeau [aut, cre] ,
Anne Philippe [aut] ,
Brice Lebrun [art] ,
Universite Bordeaux Montaigne [fnd] ,
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between nexus versions 0.6.0 dated 2025-06-02 and 0.6.1 dated 2026-06-23
nexus-0.6.0/nexus/vignettes/uml.R |only nexus-0.6.1/nexus/DESCRIPTION | 10 nexus-0.6.1/nexus/MD5 | 190 ++++++++-------- nexus-0.6.1/nexus/NAMESPACE | 21 - nexus-0.6.1/nexus/NEWS.md | 4 nexus-0.6.1/nexus/R/AllGenerics.R | 225 ++++++++++---------- nexus-0.6.1/nexus/R/bind.R | 2 nexus-0.6.1/nexus/R/coerce.R | 30 ++ nexus-0.6.1/nexus/R/dist.R | 2 nexus-0.6.1/nexus/R/nexus-package.R | 21 - nexus-0.6.1/nexus/R/scale.R | 2 nexus-0.6.1/nexus/R/subset.R | 23 -- nexus-0.6.1/nexus/README.md | 68 +++--- nexus-0.6.1/nexus/build/partial.rdb |binary nexus-0.6.1/nexus/build/vignette.rds |binary nexus-0.6.1/nexus/inst/CITATION | 2 nexus-0.6.1/nexus/inst/doc/groups.html | 8 nexus-0.6.1/nexus/inst/doc/nexus.html | 8 nexus-0.6.1/nexus/inst/examples/ex-coerce.R | 2 nexus-0.6.1/nexus/inst/po/fr/LC_MESSAGES/R-nexus.mo |binary nexus-0.6.1/nexus/inst/tinytest/test_mutators.R | 2 nexus-0.6.1/nexus/inst/tinytest/test_outliers.R | 10 nexus-0.6.1/nexus/inst/tinytest/test_plot.R | 72 +++--- nexus-0.6.1/nexus/man/CompositionMatrix-class.Rd | 4 nexus-0.6.1/nexus/man/GroupedComposition-class.Rd | 6 nexus-0.6.1/nexus/man/GroupedLogRatio-class.Rd | 6 nexus-0.6.1/nexus/man/LogRatio-class.Rd | 2 nexus-0.6.1/nexus/man/NumericMatrix-class.Rd | 2 nexus-0.6.1/nexus/man/OutlierIndex-class.Rd | 2 nexus-0.6.1/nexus/man/ReferenceGroups-class.Rd | 2 nexus-0.6.1/nexus/man/aggregate.Rd | 28 +- nexus-0.6.1/nexus/man/arctic.Rd | 2 nexus-0.6.1/nexus/man/arithmetic.Rd | 16 - nexus-0.6.1/nexus/man/as.data.frame.Rd | 12 - nexus-0.6.1/nexus/man/as.matrix.Rd |only nexus-0.6.1/nexus/man/as_amounts.Rd | 8 nexus-0.6.1/nexus/man/as_composition.Rd | 8 nexus-0.6.1/nexus/man/as_graph.Rd | 14 - nexus-0.6.1/nexus/man/barplot.Rd | 14 - nexus-0.6.1/nexus/man/bind.Rd | 8 nexus-0.6.1/nexus/man/boxite.Rd | 2 nexus-0.6.1/nexus/man/boxplot.Rd | 14 - nexus-0.6.1/nexus/man/chemistry.Rd | 2 nexus-0.6.1/nexus/man/closure.Rd | 8 nexus-0.6.1/nexus/man/condense.Rd | 30 +- nexus-0.6.1/nexus/man/covariance.Rd | 30 +- nexus-0.6.1/nexus/man/coxite.Rd | 2 nexus-0.6.1/nexus/man/describe.Rd | 2 nexus-0.6.1/nexus/man/detect_outlier.Rd | 8 nexus-0.6.1/nexus/man/dist.Rd | 28 +- nexus-0.6.1/nexus/man/figures/README-lra-2.png |binary nexus-0.6.1/nexus/man/group.Rd | 12 - nexus-0.6.1/nexus/man/group_names.Rd | 10 nexus-0.6.1/nexus/man/group_split.Rd | 14 - nexus-0.6.1/nexus/man/group_subset.Rd | 14 - nexus-0.6.1/nexus/man/hist.Rd | 14 - nexus-0.6.1/nexus/man/hongite.Rd | 2 nexus-0.6.1/nexus/man/is_assigned.Rd | 10 nexus-0.6.1/nexus/man/kongite.Rd | 2 nexus-0.6.1/nexus/man/labels.Rd | 7 nexus-0.6.1/nexus/man/lava.Rd | 2 nexus-0.6.1/nexus/man/mahalanobis.Rd | 28 +- nexus-0.6.1/nexus/man/margin.Rd | 30 +- nexus-0.6.1/nexus/man/mean.Rd | 28 +- nexus-0.6.1/nexus/man/missing.Rd | 8 nexus-0.6.1/nexus/man/nexus-package.Rd | 7 nexus-0.6.1/nexus/man/pairs.Rd | 14 - nexus-0.6.1/nexus/man/pca.Rd | 2 nexus-0.6.1/nexus/man/perturbation.Rd | 10 nexus-0.6.1/nexus/man/pip.Rd | 28 +- nexus-0.6.1/nexus/man/plot.Rd | 14 - nexus-0.6.1/nexus/man/plot_outlier.Rd | 6 nexus-0.6.1/nexus/man/powering.Rd | 10 nexus-0.6.1/nexus/man/predator.Rd | 2 nexus-0.6.1/nexus/man/quantile.Rd | 28 +- nexus-0.6.1/nexus/man/reexports.Rd | 4 nexus-0.6.1/nexus/man/replace_NA.Rd | 8 nexus-0.6.1/nexus/man/replace_zero.Rd | 8 nexus-0.6.1/nexus/man/scalar.Rd | 10 nexus-0.6.1/nexus/man/scale.Rd | 30 +- nexus-0.6.1/nexus/man/slides.Rd | 2 nexus-0.6.1/nexus/man/subset.Rd | 2 nexus-0.6.1/nexus/man/t.Rd | 36 +-- nexus-0.6.1/nexus/man/totals.Rd | 11 nexus-0.6.1/nexus/man/transform_alr.Rd | 16 - nexus-0.6.1/nexus/man/transform_clr.Rd | 16 - nexus-0.6.1/nexus/man/transform_ilr.Rd | 16 - nexus-0.6.1/nexus/man/transform_inverse.Rd | 18 - nexus-0.6.1/nexus/man/transform_lr.Rd | 16 - nexus-0.6.1/nexus/man/transform_plr.Rd | 16 - nexus-0.6.1/nexus/man/univariate_ilr.Rd | 2 nexus-0.6.1/nexus/man/variance.Rd | 28 +- nexus-0.6.1/nexus/man/variance_total.Rd | 28 +- nexus-0.6.1/nexus/man/variation.Rd | 28 +- nexus-0.6.1/nexus/man/weights.Rd | 7 nexus-0.6.1/nexus/po/R-fr.po | 4 nexus-0.6.1/nexus/tests/tinytest.R | 6 97 files changed, 782 insertions(+), 794 deletions(-)
Title: Coherent Forecast Combination for Linearly Constrained Multiple
Time Series
Description: Methods and tools designed to improve the forecast accuracy for a linearly
constrained multiple time series, while fulfilling the linear/aggregation relationships
linking the components (Girolimetto and Di Fonzo, 2024 <doi:10.48550/arXiv.2412.03429>).
'FoCo2' offers multi-task forecast combination and reconciliation
approaches leveraging input from multiple forecasting models or experts and ensuring
that the resulting forecasts satisfy specified linear constraints. In addition, linear
inequality constraints (e.g., non-negativity of the forecasts) can be imposed, if needed.
Author: Daniele Girolimetto [aut, cre] ,
Tommaso Di Fonzo [aut]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoCo2 versions 0.1.3 dated 2026-03-13 and 0.1.4 dated 2026-06-23
DESCRIPTION | 6 - MD5 | 12 +-- NEWS.md | 7 + R/cscov.R | 212 ++++++++++++++++++++++++++++++++++-------------------------- R/optimal.R | 37 +++++++--- R/projmat.R | 128 ++++++++++++++++++++++++------------ README.md | 4 - 7 files changed, 254 insertions(+), 152 deletions(-)
Title: Access Data from Brazilian Central Bank: IFdata, Active
Institutions, Balance Sheets and Normative Acts
Description: Provides functions to query, retrieve, and tidy economic and
financial data from Brazilian Central Bank web services for use in R
analyses and workflows. Active institutions information, balance sheets and normative acts.
Author: Ricardo Theodoro [aut, cre]
Maintainer: Ricardo Theodoro <rtheodoro@usp.br>
Diff between bacenR versions 0.3.1 dated 2026-03-08 and 0.4.3 dated 2026-06-23
DESCRIPTION | 10 +- MD5 | 56 +++++++------- NAMESPACE | 4 + NEWS.md | 12 ++- R/get_balance_sheets.R | 8 -- R/get_ifdata_registry.R | 2 R/get_ifdata_reports.R | 46 ++++++----- R/get_institutions.R | 15 ++- R/get_normative_data.R | 175 ++++++++++++++++++++++++++++++--------------- R/get_normative_txt.R | 3 R/tidy_balance_sheets.R | 4 - R/tidy_ifdata_reports.R |only R/tidy_institutions.R | 7 - README.md | 21 ++++- build/vignette.rds |binary inst/CITATION | 3 inst/doc/bacenR.Rmd | 9 ++ inst/doc/bacenR.html | 17 +++- man/bacenR-package.Rd | 7 + man/figures/hexlogo.png |only man/figures/logo.png |only man/get_balance_sheets.Rd | 6 - man/get_ifdata_registry.Rd | 2 man/get_ifdata_reports.Rd | 46 ++++++----- man/get_institutions.Rd | 13 ++- man/get_normative_data.Rd | 7 + man/get_normative_txt.Rd | 3 man/tidy_balance_sheets.Rd | 4 - man/tidy_ifdata_reports.Rd |only man/tidy_institutions.Rd | 6 - vignettes/bacenR.Rmd | 9 ++ 31 files changed, 314 insertions(+), 181 deletions(-)
Title: Many Ways to Measure and Classify Membership for Networks,
Nodes, and Ties
Description: Many tools for calculating network, node, or tie
marks, measures, motifs and memberships of many different types of networks.
Marks identify structural positions, measures quantify network properties,
memberships classify nodes into groups, and motifs tabulate substructure participation.
All functions operate with all classes of network data covered in 'manynet',
and on directed, undirected, multiplex, multimodal, signed, and other networks.
Author: James Hollway [cre, aut, ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between netrics versions 0.2.1 dated 2026-04-06 and 0.3.1 dated 2026-06-23
netrics-0.2.1/netrics/man/reexports.Rd |only netrics-0.3.1/netrics/DESCRIPTION | 11 netrics-0.3.1/netrics/MD5 | 176 +-- netrics-0.3.1/netrics/NAMESPACE | 6 netrics-0.3.1/netrics/NEWS.md | 47 netrics-0.3.1/netrics/R/class_metrics.R | 4 netrics-0.3.1/netrics/R/mark_nodes.R | 55 netrics-0.3.1/netrics/R/mark_ties.R | 16 netrics-0.3.1/netrics/R/measure_centrality_between.R | 2 netrics-0.3.1/netrics/R/measure_centrality_closeness.R | 2 netrics-0.3.1/netrics/R/measure_diffusion.R | 20 netrics-0.3.1/netrics/R/measure_heterogeneity.R | 13 netrics-0.3.1/netrics/R/member_components.R | 2 netrics-0.3.1/netrics/R/member_core.R | 2 netrics-0.3.1/netrics/R/member_equivalence.R | 37 netrics-0.3.1/netrics/R/motif_brokerage.R | 2 netrics-0.3.1/netrics/R/motif_census.R | 2 netrics-0.3.1/netrics/R/zzz.R | 6 netrics-0.3.1/netrics/build/partial.rdb |binary netrics-0.3.1/netrics/inst/netrics.png |only netrics-0.3.1/netrics/inst/tutorials/tutorial3/centrality.Rmd | 82 - netrics-0.3.1/netrics/inst/tutorials/tutorial3/centrality.html | 567 +++++++--- netrics-0.3.1/netrics/inst/tutorials/tutorial4/community.Rmd | 90 - netrics-0.3.1/netrics/inst/tutorials/tutorial4/community.html | 246 ++-- netrics-0.3.1/netrics/inst/tutorials/tutorial5/position.Rmd | 76 - netrics-0.3.1/netrics/inst/tutorials/tutorial5/position.html | 391 +++--- netrics-0.3.1/netrics/inst/tutorials/tutorial6/topology.Rmd | 43 netrics-0.3.1/netrics/inst/tutorials/tutorial6/topology.html | 524 ++++----- netrics-0.3.1/netrics/man/figures/logo.png |binary netrics-0.3.1/netrics/man/mark_core.Rd | 10 netrics-0.3.1/netrics/man/mark_degree.Rd | 8 netrics-0.3.1/netrics/man/mark_diff.Rd | 8 netrics-0.3.1/netrics/man/mark_dyads.Rd | 6 netrics-0.3.1/netrics/man/mark_nodes.Rd | 6 netrics-0.3.1/netrics/man/mark_select_node.Rd | 8 netrics-0.3.1/netrics/man/mark_select_tie.Rd | 8 netrics-0.3.1/netrics/man/mark_ties.Rd | 8 netrics-0.3.1/netrics/man/mark_triangles.Rd | 20 netrics-0.3.1/netrics/man/measure_assort_net.Rd | 10 netrics-0.3.1/netrics/man/measure_assort_node.Rd | 12 netrics-0.3.1/netrics/man/measure_breadth.Rd | 6 netrics-0.3.1/netrics/man/measure_broker_node.Rd | 8 netrics-0.3.1/netrics/man/measure_broker_tie.Rd | 8 netrics-0.3.1/netrics/man/measure_brokerage.Rd | 8 netrics-0.3.1/netrics/man/measure_central_between.Rd | 12 netrics-0.3.1/netrics/man/measure_central_close.Rd | 12 netrics-0.3.1/netrics/man/measure_central_degree.Rd | 12 netrics-0.3.1/netrics/man/measure_central_eigen.Rd | 12 netrics-0.3.1/netrics/man/measure_centralisation_between.Rd | 10 netrics-0.3.1/netrics/man/measure_centralisation_close.Rd | 10 netrics-0.3.1/netrics/man/measure_centralisation_degree.Rd | 10 netrics-0.3.1/netrics/man/measure_centralisation_eigen.Rd | 10 netrics-0.3.1/netrics/man/measure_centralities_between.Rd | 14 netrics-0.3.1/netrics/man/measure_centralities_close.Rd | 14 netrics-0.3.1/netrics/man/measure_centralities_degree.Rd | 12 netrics-0.3.1/netrics/man/measure_centralities_eigen.Rd | 12 netrics-0.3.1/netrics/man/measure_closure.Rd | 4 netrics-0.3.1/netrics/man/measure_closure_node.Rd | 6 netrics-0.3.1/netrics/man/measure_cohesion.Rd | 6 netrics-0.3.1/netrics/man/measure_core.Rd | 8 netrics-0.3.1/netrics/man/measure_diffusion_infection.Rd | 4 netrics-0.3.1/netrics/man/measure_diffusion_net.Rd | 4 netrics-0.3.1/netrics/man/measure_diffusion_node.Rd | 8 netrics-0.3.1/netrics/man/measure_diverse_net.Rd | 6 netrics-0.3.1/netrics/man/measure_diverse_node.Rd | 8 netrics-0.3.1/netrics/man/measure_features.Rd | 4 netrics-0.3.1/netrics/man/measure_fragmentation.Rd | 6 netrics-0.3.1/netrics/man/measure_hierarchy.Rd | 6 netrics-0.3.1/netrics/man/measure_periods.Rd | 6 netrics-0.3.1/netrics/man/member_brokerage.Rd | 8 netrics-0.3.1/netrics/man/member_cliques.Rd | 6 netrics-0.3.1/netrics/man/member_community.Rd | 8 netrics-0.3.1/netrics/man/member_community_hier.Rd | 8 netrics-0.3.1/netrics/man/member_community_non.Rd | 8 netrics-0.3.1/netrics/man/member_components.Rd | 8 netrics-0.3.1/netrics/man/member_core.Rd | 8 netrics-0.3.1/netrics/man/member_diffusion.Rd | 8 netrics-0.3.1/netrics/man/member_equivalence.Rd | 6 netrics-0.3.1/netrics/man/method_cluster.Rd | 2 netrics-0.3.1/netrics/man/method_kselect.Rd | 2 netrics-0.3.1/netrics/man/motif_brokerage_net.Rd | 6 netrics-0.3.1/netrics/man/motif_brokerage_node.Rd | 8 netrics-0.3.1/netrics/man/motif_exposure.Rd | 8 netrics-0.3.1/netrics/man/motif_hazard.Rd | 6 netrics-0.3.1/netrics/man/motif_hierarchy.Rd | 6 netrics-0.3.1/netrics/man/motif_net.Rd | 6 netrics-0.3.1/netrics/man/motif_node.Rd | 8 netrics-0.3.1/netrics/man/motif_path.Rd | 6 netrics-0.3.1/netrics/man/motif_periods.Rd | 6 netrics-0.3.1/netrics/tests/testthat/test-measure_nodes.R | 7 90 files changed, 1593 insertions(+), 1318 deletions(-)
Title: Treatment of Zeros, Left-Censored and Missing Values in
Compositional Data Sets
Description: Principled methods for the imputation of zeros, left-censored and missing data in
compositional data sets (Palarea-Albaladejo and Martin-Fernandez (2015) <doi:10.1016/j.chemolab.2015.02.019>).
Author: Javier Palarea-Albaladejo [cre, aut] ,
Josep Antoni Martin-Fernandez [aut]
Maintainer: Javier Palarea-Albaladejo <javier.palarea@udg.edu>
Diff between zCompositions versions 1.6.1 dated 2026-04-18 and 1.6.2 dated 2026-06-23
DESCRIPTION | 10 - MD5 | 44 ++--- NAMESPACE | 10 - NEWS | 6 R/cmultRepl.R | 38 ++-- R/lrDA.R | 162 +++++++++++++++----- R/lrEM.R | 173 ++++++++++++++++------ R/lrEMplus.R | 111 +++++++++++--- R/lrSVD.R | 262 +++++++++++++++++++++++++++------ R/lrSVDplus.R | 277 ++++++++++++++++++++++++++--------- R/multKM.R | 212 +++++++++++++++++++-------- R/multLN.R | 437 +++++++++++++++++++++++++++----------------------------- R/multRepl.R | 197 ++++++++++++++++++++----- R/multReplus.R | 216 +++++++++++++++++++++++---- R/perLog.R | 137 ++++++++++++++++- R/splineKM.R | 135 ++++++++++++----- R/zPatterns.R | 109 ++++++++++++- man/lrDA.Rd | 2 man/lrEM.Rd | 2 man/lrSVD.Rd | 2 man/multKM.Rd | 2 man/multLN.Rd | 2 man/multRepl.Rd | 2 23 files changed, 1860 insertions(+), 688 deletions(-)
Title: Construct Mixed Type Data Structures with Vectors of Vectors
Description: Mixed type vectors are useful for combining semantically similar
classes. Some examples of semantically related classes include time across
different granularities (e.g. daily, monthly, annual) and probability
distributions (e.g. Normal, Uniform, Poisson). These groups of vector types
typically share common statistical operations which vary in results with the
attributes of each vector. The 'vecvec' data structure facilitates efficient
storage and computation across multiple vectors within the same object.
Author: Mitchell O'Hara-Wild [aut, cre]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between vecvec versions 1.1.0 dated 2026-06-04 and 1.2.0 dated 2026-06-23
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NEWS.md | 14 ++++++++++---- R/hook.R | 22 +++++++++++++++++----- R/vecvec.R | 10 ++++++---- man/vecvec_register.Rd | 19 ++++++++++++++++++- tests/testthat/_snaps |only tests/testthat/test-format.R |only 8 files changed, 62 insertions(+), 23 deletions(-)
Title: Markdown-Based Programmable Surveys Using 'Quarto' and 'shiny'
Description: Generate programmable surveys using markdown and R code chunks. Surveys
are composed of two files: a survey.qmd 'Quarto' file defining the
survey content (pages, questions, etc), and an app.R file defining a
'shiny' app with global settings (libraries, database configuration,
etc.) and server configuration options (e.g., conditional skipping /
display, etc.). Survey data collected from respondents is stored in a
'PostgreSQL' database. Features include controls for conditional skip
logic (skip to a page based on an answer to a question), conditional
display logic (display a question based on an answer to a question), a
customizable progress bar, and a wide variety of question types,
including multiple choice (single choice and multiple choices),
select, text, numeric, multiple choice buttons, text area, and dates.
Because the surveys render into a 'shiny' app, designers can also
leverage the reactive capabilities of 'shiny' to create dynamic and
interactive surveys.
Author: John Paul Helveston [aut, cre, cph] ,
Pingfan Hu [aut, cph] ,
Bogdan Bunea [aut, cph] ,
Stefan Munnes [ctb],
Reed Benkendorf [ctb] ,
Umair Durrani [ctb],
Dylan Pieper [ctb]
Maintainer: John Paul Helveston <john.helveston@gmail.com>
Diff between surveydown versions 1.0.1 dated 2025-12-19 and 1.3.0 dated 2026-06-23
surveydown-1.0.1/surveydown/inst/template |only surveydown-1.3.0/surveydown/DESCRIPTION | 16 surveydown-1.3.0/surveydown/MD5 | 56 surveydown-1.3.0/surveydown/NAMESPACE | 2 surveydown-1.3.0/surveydown/NEWS.md | 68 surveydown-1.3.0/surveydown/R/config.R | 859 ++++-- surveydown-1.3.0/surveydown/R/db.R | 433 +++ surveydown-1.3.0/surveydown/R/messages.R | 72 surveydown-1.3.0/surveydown/R/question_types.R |only surveydown-1.3.0/surveydown/R/server.R | 1713 ++++++------- surveydown-1.3.0/surveydown/R/ui.R | 910 ++---- surveydown-1.3.0/surveydown/R/util.R | 303 +- surveydown-1.3.0/surveydown/README.md | 2 surveydown-1.3.0/surveydown/inst/css/surveydown.css | 284 ++ surveydown-1.3.0/surveydown/inst/js/cookies.js | 37 surveydown-1.3.0/surveydown/inst/js/interaction.js | 110 surveydown-1.3.0/surveydown/inst/js/option_attr.js |only surveydown-1.3.0/surveydown/inst/lua/include-resources.lua | 1 surveydown-1.3.0/surveydown/man/sd_close.Rd | 19 surveydown-1.3.0/surveydown/man/sd_create_messages.Rd | 2 surveydown-1.3.0/surveydown/man/sd_create_survey.Rd | 1 surveydown-1.3.0/surveydown/man/sd_db_config.Rd | 11 surveydown-1.3.0/surveydown/man/sd_db_connect.Rd | 43 surveydown-1.3.0/surveydown/man/sd_question.Rd | 70 surveydown-1.3.0/surveydown/man/sd_server.Rd | 153 - surveydown-1.3.0/surveydown/man/sd_store_value.Rd | 4 surveydown-1.3.0/surveydown/man/sd_value.Rd |only surveydown-1.3.0/surveydown/man/sd_values.Rd |only surveydown-1.3.0/surveydown/tests/testthat |only 29 files changed, 3200 insertions(+), 1969 deletions(-)
Title: S-Type Estimators
Description: Implements the S-type estimators, novel robust estimators for general linear regression models, addressing challenges such as outlier contamination and leverage points. This package introduces robust regression techniques to provide a robust alternative to classical methods and includes diagnostic tools for assessing model fit and performance. The methodology is based on the study, "Comparison of the Robust Methods in the General Linear Regression Model" by Sazak and Mutlu (2023). This package is designed for statisticians and applied researchers seeking advanced tools for robust regression analysis.
Author: Hakan Savas Sazak [aut] ,
Filiz Karadag [cre] ,
Olgun Aydin [aut]
Maintainer: Filiz Karadag <filiz.karadag@ege.edu.tr>
Diff between Stype.est versions 0.1.0 dated 2025-08-29 and 0.2.0 dated 2026-06-23
DESCRIPTION | 7 - MD5 | 9 - NAMESPACE | 2 NEWS.md |only R/regstype.R | 289 +++++++++++++++++++------------------------------------- man/regstype.Rd | 23 +--- 6 files changed, 117 insertions(+), 213 deletions(-)
Title: Translate CSS Selectors to XPath Expressions
Description: Translates a CSS selector into an equivalent XPath
expression. This allows us to use CSS selectors when working with
the XML package as it can only evaluate XPath expressions. Also
provided are convenience functions useful for using CSS selectors on
XML nodes. This package is a port of the Python package 'cssselect'
(<https://cssselect.readthedocs.io/>).
Author: Simon Potter [aut, trl, cre],
Simon Sapin [aut],
Ian Bicking [aut]
Maintainer: Simon Potter <simon@sjp.co.nz>
Diff between selectr versions 0.5-1 dated 2025-12-17 and 0.6-0 dated 2026-06-23
.Rinstignore | 2 DESCRIPTION | 11 LICENCE | 6 MD5 | 74 NAMESPACE | 58 R/main.R | 103 - R/parser.R | 628 ++++-- R/xpath.R | 2536 +++++++++++++++------------- README.md | 152 - inst/CITATION | 18 inst/NEWS.Rd | 994 ++++++---- man/css_to_xpath.Rd | 202 +- man/querySelectorAll.Rd | 311 +-- tests/testthat/test-adjacent-sibling.R | 322 +-- tests/testthat/test-has.R | 665 ++++--- tests/testthat/test-main.R | 188 +- tests/testthat/test-method-registration.R | 31 tests/testthat/test-namespaces.R |only tests/testthat/test-nth-child-of.R | 240 +- tests/testthat/test-nth-child.R | 1442 +++++++-------- tests/testthat/test-parse-errors.R | 244 +- tests/testthat/test-parser.R | 404 ++-- tests/testthat/test-pseudo.R | 304 ++- tests/testthat/test-querySelector-XML.R | 251 +- tests/testthat/test-querySelector-default.R | 16 tests/testthat/test-querySelector-xml2.R | 233 +- tests/testthat/test-quoting.R | 55 tests/testthat/test-scope.R |only tests/testthat/test-select-XML.R | 347 +-- tests/testthat/test-select-xml2.R | 474 +++-- tests/testthat/test-series.R | 110 - tests/testthat/test-shakespeare-XML.R | 532 ++--- tests/testthat/test-shakespeare-xml2.R | 534 ++--- tests/testthat/test-specificity.R | 191 +- tests/testthat/test-tokenizer.R | 112 - tests/testthat/test-translation.R | 402 ++-- tests/testthat/test-where.R | 588 +++--- tests/testthat/test-xmllang-XML.R | 92 - tests/testthat/test-xmllang-xml2.R | 92 - tests/testthat/test-xpath.R | 427 +++- 40 files changed, 7703 insertions(+), 5688 deletions(-)
Title: Radiocarbon Calibration Curves
Description: The IntCal20 radiocarbon calibration curves (Reimer et al. 2020 <doi:10.1017/RDC.2020.68>) are provided as a data package, together with previous IntCal curves (IntCal13, IntCal09, IntCal04, IntCal98), other curves (e.g., NOTCal04 [van der Plicht et al. 2004], Arnold & Libby 1951, Stuiver & Suess 1966, Pearson & Stuiver 1986) and postbomb curves. Also provided are functions to copy the curves into memory, and to read, query and plot the data underlying the IntCal20 curves.
Author: Maarten Blaauw [aut, cre] ,
Christopher Bronk Ramsey [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rintcal versions 1.4.0 dated 2026-03-13 and 1.4.1 dated 2026-06-23
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/data.R | 32 ++++++++++++++++++++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/rintcal.html | 23 +++++++++++------------ man/rintcal-package.Rd | 5 +++++ 8 files changed, 55 insertions(+), 31 deletions(-)
Title: Miscellaneous Functions for Processing and Sample Selection of
Spectroscopic Data
Description: Functions to preprocess spectroscopic data
and conduct (representative) sample selection/calibration sampling.
Author: Antoine Stevens [aut] ,
Leonardo Ramirez-Lopez [aut, cre]
Maintainer: Leonardo Ramirez-Lopez <ramirez.lopez.leo@gmail.com>
Diff between prospectr versions 0.2.9 dated 2026-05-31 and 0.2.10 dated 2026-06-23
DESCRIPTION | 10 MD5 | 34 NEWS.md | 11 R/detrend.R | 26 R/new |only README.md | 6 build/stage23.rdb |binary inst/doc/aa-intro.html | 11 inst/doc/aa-intro.qmd | 2 inst/doc/bb-pre-processing-spectral-data.R | 1 inst/doc/bb-pre-processing-spectral-data.html | 475 ++++------ inst/doc/bb-pre-processing-spectral-data.qmd | 2 inst/doc/cc-selecting-representative-calibration-samples.html | 4 man/detrend.Rd | 12 man/prospectr-package.Rd | 2 vignettes/aa-intro.qmd | 2 vignettes/bb-pre-processing-spectral-data.qmd | 2 17 files changed, 323 insertions(+), 277 deletions(-)
Title: Perform HTTP Requests and Process the Responses
Description: Tools for creating and modifying HTTP requests, then
performing them and processing the results. 'httr2' is a modern
re-imagining of 'httr' that uses a pipe-based interface and solves
more of the problems that API wrapping packages face.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd],
Maximilian Girlich [ctb]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between httr2 versions 1.2.2 dated 2025-12-08 and 1.2.3 dated 2026-06-23
DESCRIPTION | 17 MD5 | 173 ++++--- NAMESPACE | 3 NEWS.md | 23 + R/curl.R | 3 R/httr2-translate.R |only R/jwt.R | 27 + R/last.R | 9 R/oauth-client.R | 68 ++- R/oauth-flow-auth-code.R | 13 R/oauth-flow-device.R | 11 R/oauth-flow-jwt.R | 22 - R/oauth-server-metadata.R |only R/oauth.R | 6 R/parse.R | 1 R/pooled-request.R | 1 R/req-auth-aws.R | 35 + R/req-body.R | 2 R/req-cache.R | 6 R/req-perform-connection.R | 14 R/req-perform.R | 11 R/req-progress.R | 2 R/req-throttle.R | 110 ++++- R/req-verbose.R | 3 R/resp-stream-aws.R | 92 ++-- R/resp-stream-lines.R |only R/resp-stream-sse.R |only R/resp-stream.R | 550 ++++++++----------------- R/test.R | 3 R/url.R | 4 README.md | 13 build/vignette.rds |binary inst/doc/httr2.html | 38 - man/StreamingBody.Rd | 189 ++++---- man/curl_translate.Rd | 5 man/httr2-package.Rd | 5 man/httr2_translate.Rd |only man/is_online.Rd | 2 man/jwt_claim.Rd | 4 man/oauth_client.Rd | 24 - man/oauth_client_req_auth.Rd | 8 man/oauth_server_metadata.Rd |only man/req_body.Rd | 4 man/req_oauth_auth_code.Rd | 20 man/req_oauth_bearer_jwt.Rd | 20 man/req_oauth_client_credentials.Rd | 13 man/req_oauth_device.Rd | 16 man/req_oauth_password.Rd | 13 man/req_oauth_refresh.Rd | 13 man/req_oauth_token_exchange.Rd | 13 man/req_perform_promise.Rd | 6 man/req_throttle.Rd | 18 man/resp_stream_raw.Rd | 18 man/throttle_status.Rd | 3 man/url_build.Rd | 6 man/url_modify.Rd | 6 man/url_parse.Rd | 6 tests/testthat/_snaps/httr2-translate.md |only tests/testthat/_snaps/last.md | 3 tests/testthat/_snaps/oauth-client.md | 31 + tests/testthat/_snaps/oauth-flow-auth-code.md | 9 tests/testthat/_snaps/oauth-server-metadata.md |only tests/testthat/_snaps/req-throttle.md | 23 + tests/testthat/_snaps/resp-stream-aws.md | 23 + tests/testthat/_snaps/resp-stream-lines.md |only tests/testthat/_snaps/resp-stream-sse.md |only tests/testthat/_snaps/resp-stream.md | 116 ++--- tests/testthat/helper-aws.R |only tests/testthat/helper-resp-stream.R |only tests/testthat/helper-sync.R | 80 ++- tests/testthat/helper-webfakes.R | 5 tests/testthat/helper.R | 12 tests/testthat/test-httr2-translate.R |only tests/testthat/test-oauth-client.R | 68 +++ tests/testthat/test-oauth-flow-auth-code.R | 35 + tests/testthat/test-oauth-flow-device.R |only tests/testthat/test-oauth-flow-jwt.R | 26 + tests/testthat/test-oauth-server-metadata.R |only tests/testthat/test-oauth.R | 23 + tests/testthat/test-parse.R | 9 tests/testthat/test-req-auth-aws.R | 70 +++ tests/testthat/test-req-body.R | 7 tests/testthat/test-req-cache.R | 28 + tests/testthat/test-req-mock.R | 17 tests/testthat/test-req-perform-connection.R | 12 tests/testthat/test-req-perform-iterative.R | 2 tests/testthat/test-req-perform-parallel.R | 7 tests/testthat/test-req-perform-sequential.R | 2 tests/testthat/test-req-perform.R | 2 tests/testthat/test-req-promise.R | 5 tests/testthat/test-req-throttle.R | 67 +++ tests/testthat/test-resp-stream-aws.R | 219 +++++++-- tests/testthat/test-resp-stream-lines.R |only tests/testthat/test-resp-stream-sse.R |only tests/testthat/test-resp-stream.R | 412 +++++------------- tests/testthat/test-url.R | 5 96 files changed, 1796 insertions(+), 1194 deletions(-)
Title: Automated Analysis of Multiplex Digital PCR Data
Description: The automated clustering and quantification of the digital PCR
data is based on the combination of 'DBSCAN' (Hahsler et al. (2019)
<doi:10.18637/jss.v091.i01>) and 'c-means' (Bezdek et al. (1981)
<doi:10.1007/978-1-4757-0450-1>) algorithms.
The analysis is independent of multiplexing geometry, dPCR system,
and input amount.
The details about input data and parameters are available in the
vignette.
Author: Alfonso De Falco [aut, cre] ,
Michel Mittelbronn [ctb],
Christophe Olinger [ctb],
Daniel Stieber [ctb],
Laboratoire national de sante [cph]
Maintainer: Alfonso De Falco <alfonsodefalco90@gmail.com>
Diff between dPCP versions 2.0.1 dated 2023-08-12 and 2.0.3 dated 2026-06-23
DESCRIPTION | 11 ++- MD5 | 38 ++++++------ R/1.input_data.R | 2 R/2.clustering_part1.R | 4 - R/3.clustering_part2.R | 10 ++- R/4.quantification_and_export.R | 8 +- R/dPCPclustering.R | 2 build/vignette.rds |binary inst/doc/dPCP_vignette.R | 120 ++++++++++++++++++++-------------------- man/dbscan_combination.Rd | 2 man/export_csv.Rd | 2 man/manual_correction.Rd | 2 man/plot.centers_data.Rd | 2 man/plot.cmeans_clus.Rd | 2 man/plot.dPCP.Rd | 4 - man/plot.rain_reclus.Rd | 2 man/plot.reference_dbscan.Rd | 2 man/replicates_quant.Rd | 2 man/report_dPCP.Rd | 2 man/target_quant.Rd | 2 20 files changed, 111 insertions(+), 108 deletions(-)
Title: Decorate a 'ggplot' with Associated Information
Description: For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. Inspired by the 'Method 2' in 'ggtree' (G Yu (2018) <doi:10.1093/molbev/msy194>), 'aplot' provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched.
Author: Guangchuang Yu [aut, cre] ,
Shuangbin Xu [ctb] ,
Thomas Hackl [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between aplot versions 0.2.9 dated 2025-09-12 and 0.3.0 dated 2026-06-23
DESCRIPTION | 11 +++++----- MD5 | 21 ++++++++++++------- NAMESPACE | 1 NEWS.md | 5 ++++ R/aplot.R | 50 +++++++++++++++++++---------------------------- R/axis.R | 37 +++++++++++++++++++++++++++++++--- R/spacing.R |only build/partial.rdb |binary man/aplot-package.Rd | 5 ++++ man/reexports.Rd | 6 ++--- man/set_panel_spacing.Rd |only tests |only 12 files changed, 87 insertions(+), 49 deletions(-)
Title: Regional Spatial Modeling with Continuous Borders
Description: Automatically creates separate regression models for different spatial
regions. The prediction surface is smoothed using a regional border smoothing
method. If regional models are continuous, the resulting prediction surface is
continuous across the spatial dimensions, even at region borders. Methodology
is described in Wagstaff and Bean (2023) <doi:10.32614/RJ-2023-004>.
Author: Jadon Wagstaff [aut, cre],
Brennan Bean [aut]
Maintainer: Jadon Wagstaff <jadonw@gmail.com>
Diff between remap versions 0.3.2 dated 2025-01-09 and 0.3.3 dated 2026-06-23
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 9 +++++++++ R/data.R | 2 +- R/remap.R | 11 ++++++++--- R/utils.R | 3 +++ build/vignette.rds |binary inst/doc/Introduction_to_remap.html | 27 ++++++++++++++------------- man/utsnow.Rd | 2 +- 9 files changed, 48 insertions(+), 30 deletions(-)
Title: 'ggplot2'-Based Tools for Visualising DNA Sequences and
Modifications
Description: Uses 'ggplot2' to visualise either (a) a single DNA/RNA sequence split across multiple lines, (b) multiple DNA/RNA sequences, each occupying a whole line, or (c) base modifications such as DNA methylation called by modified bases models in Dorado or Guppy. Functions starting with visualise_<>() are the main plotting functions, and functions starting with extract_and_sort_<>() are key helper functions for reading files and reformatting data. Source code is available at <https://github.com/ejade42/ggDNAvis>, a full non-expert user guide is available at <https://ejade42.github.io/ggDNAvis/>, and an interactive web-app version of the software is available at <https://ejade42.github.io/ggDNAvis/articles/interactive_app.html>.
Author: Evelyn Jade [aut, cre, cph]
Maintainer: Evelyn Jade <evelynjade42@gmail.com>
Diff between ggDNAvis versions 1.0.0 dated 2026-03-05 and 1.0.1 dated 2026-06-22
DESCRIPTION | 16 ++++++------- MD5 | 28 ++++++++++++------------ NAMESPACE | 2 - NEWS.md | 6 +++++ R/ggDNAvis-package.R | 3 -- build/partial.rdb |binary build/vignette.rds |binary man/ggDNAvis-package.Rd | 5 ++++ man/rasterise_matrix.Rd | 2 - man/visualise_many_sequences.Rd | 2 - man/visualise_methylation.Rd | 2 - man/visualise_single_sequence.Rd | 2 - tests/testthat/test-visualise_many_sequences.R | 3 ++ tests/testthat/test-visualise_methylation.R | 3 ++ tests/testthat/test-visualise_single_sequence.R | 3 ++ 15 files changed, 47 insertions(+), 30 deletions(-)
Title: A Software Development Kit for 'Nixtla''s 'TimeGPT'
Description: A Software Development Kit for working with 'Nixtla''s 'TimeGPT', a foundation
model for time series forecasting. 'API' is an acronym for 'application
programming interface'; this package allows users to interact with
'TimeGPT' via the 'API'. You can set and validate 'API' keys and generate forecasts
via 'API' calls. It is compatible with 'tsibble' and base R. For more details
visit <https://www.nixtla.io/docs>.
Author: Mariana Menchero [aut, cre] ,
Nixtla [cph]
Maintainer: Mariana Menchero <mariana@nixtla.io>
Diff between nixtlar versions 0.6.2 dated 2024-10-28 and 1.0.0 dated 2026-06-22
nixtlar-0.6.2/nixtlar/R/make_request.R |only nixtlar-0.6.2/nixtlar/man/dot-make_request.Rd |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/model_params-3f263f-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/model_params-9255c1-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/cross_validation-18fddc-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-05886b-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-4132b0-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-58ddba-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-673f5c-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-b3fed9-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/forecast-db5b04-POST.json |only nixtlar-0.6.2/nixtlar/tests/mocks/api.nixtla.io/v2/historic_forecast-9a0dea-POST.json |only 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nixtlar-1.0.0/nixtlar/vignettes/data-requirements.Rmd | 2 nixtlar-1.0.0/nixtlar/vignettes/exogenous-variables.Rmd | 73 nixtlar-1.0.0/nixtlar/vignettes/fine-tuning.Rmd |only nixtlar-1.0.0/nixtlar/vignettes/get-started.Rmd | 4 nixtlar-1.0.0/nixtlar/vignettes/setting-up-your-api-key.Rmd | 2 nixtlar-1.0.0/nixtlar/vignettes/vn1-forecasting-competition.Rmd |only 131 files changed, 88994 insertions(+), 88604 deletions(-)
Title: Hierarchical Bayesian Aldrich-McKelvey Scaling via 'Stan'
Description: Perform hierarchical Bayesian Aldrich-McKelvey scaling using Hamiltonian Monte
Carlo via 'Stan'. Aldrich-McKelvey ('AM') scaling is a method for estimating the latent
positions of survey respondents and external objects on a common scale using positional survey
data. The hierarchical versions of the Bayesian 'AM' model included in this package outperform
other versions both in terms of yielding meaningful posterior distributions for respondent
positions and in terms of recovering true respondent positions in simulations. The package
contains functions for preparing data, fitting models, extracting estimates, plotting key
results, and comparing models using cross-validation. The original version of the default
model is described in Bølstad (2024) <doi:10.1017/pan.2023.18>.
Author: Joergen Boelstad [aut, cre]
Maintainer: Joergen Boelstad <jorgen.bolstad@stv.uio.no>
Diff between hbamr versions 2.4.6 dated 2026-04-28 and 2.4.7 dated 2026-06-22
DESCRIPTION | 10 +- MD5 | 46 ++++++------ NEWS.md | 14 ++- R/fbam.R | 2 R/get_est.R | 4 - R/hbam.R | 4 - R/hbam_cv.R | 2 R/hbamr-package.R | 2 R/prep_data.R | 7 - R/prep_data_cv.R | 4 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/hbamr.R | 4 - inst/doc/hbamr.Rmd | 28 +++---- inst/doc/hbamr.html | 70 +++++++++--------- man/fbam.Rd | 2 man/get_est.Rd | 2 man/hbam.Rd | 4 - man/hbam_cv.Rd | 2 man/hbamr-package.Rd | 2 man/prep_data.Rd | 4 - man/prep_data_cv.Rd | 4 - src/stanExports_omni.h | 185 +++++++++++++++++++++---------------------------- vignettes/hbamr.Rmd | 28 +++---- 24 files changed, 207 insertions(+), 223 deletions(-)
Title: Statistical Power, Sample Size, and Detectable Effect
Calculations
Description: Flexible and comprehensive functions for statistical power, minimum required
sample size, and minimum detectable effect calculations across a wide range of
commonly used hypothesis tests in psychological, biomedical, and social sciences.
Author: Metin Bulus [aut, cre, cph],
Sebastian Jentschke [aut, cph]
Maintainer: Metin Bulus <bulusmetin@gmail.com>
Diff between pwrss versions 1.0.0 dated 2025-09-16 and 1.2.0 dated 2026-06-22
pwrss-1.0.0/pwrss/R/printing.pretty.R |only pwrss-1.0.0/pwrss/build/partial.rdb |only pwrss-1.0.0/pwrss/man/ancova.Rd |only pwrss-1.0.0/pwrss/man/ancova.contrasts.Rd |only pwrss-1.0.0/pwrss/man/ancova.factorial.contrasts.Rd |only pwrss-1.0.0/pwrss/man/ancova.keppel.Rd |only pwrss-1.0.0/pwrss/man/ancova.shieh.Rd |only pwrss-1.0.0/pwrss/man/anova.mixed.Rd |only pwrss-1.0.0/pwrss/man/conversion.cors.to.q.Rd |only pwrss-1.0.0/pwrss/man/conversion.d.to.cles.Rd |only pwrss-1.0.0/pwrss/man/conversion.f.to.etasq.Rd |only pwrss-1.0.0/pwrss/man/conversion.mcnemar.probs.Rd |only pwrss-1.0.0/pwrss/man/conversion.means.to.d.Rd |only pwrss-1.0.0/pwrss/man/conversion.probs.to.h.Rd |only pwrss-1.0.0/pwrss/man/conversion.probs.to.w.Rd |only pwrss-1.0.0/pwrss/man/conversion.rsq.to.f.Rd |only pwrss-1.0.0/pwrss/man/correlations.one.Rd |only pwrss-1.0.0/pwrss/man/correlations.steiger.Rd |only pwrss-1.0.0/pwrss/man/correlations.two.Rd |only pwrss-1.0.0/pwrss/man/figures/README-unnamed-chunk-4-1.png |only pwrss-1.0.0/pwrss/man/figures/README-unnamed-chunk-6-1.png |only pwrss-1.0.0/pwrss/man/generic.binom.test.Rd |only pwrss-1.0.0/pwrss/man/generic.chisq.test.Rd |only pwrss-1.0.0/pwrss/man/generic.f.test.Rd |only pwrss-1.0.0/pwrss/man/generic.t.test.Rd |only pwrss-1.0.0/pwrss/man/generic.z.test.Rd |only pwrss-1.0.0/pwrss/man/means.student.welch.Rd |only pwrss-1.0.0/pwrss/man/means.wilcoxon.Rd |only pwrss-1.0.0/pwrss/man/proportions.fisher.Rd |only pwrss-1.0.0/pwrss/man/proportions.gof.Rd |only pwrss-1.0.0/pwrss/man/proportions.mcnemar.Rd |only pwrss-1.0.0/pwrss/man/proportions.oneprop.Rd |only pwrss-1.0.0/pwrss/man/proportions.twoprops.Rd |only pwrss-1.0.0/pwrss/man/regression.linear.f.Rd |only pwrss-1.0.0/pwrss/man/regression.linear.t.Rd |only pwrss-1.0.0/pwrss/man/regression.logistic.Rd |only pwrss-1.0.0/pwrss/man/regression.mediation.Rd |only pwrss-1.0.0/pwrss/man/regression.poisson.Rd |only pwrss-1.0.0/pwrss/man/utils.attrition.Rd |only pwrss-1.0.0/pwrss/vignettes/app.png |only pwrss-1.0.0/pwrss/vignettes/hex.png |only pwrss-1.0.0/pwrss/vignettes/license.png |only pwrss-1.0.0/pwrss/vignettes/med.png |only pwrss-1.2.0/pwrss/DESCRIPTION | 42 pwrss-1.2.0/pwrss/MD5 | 276 pwrss-1.2.0/pwrss/NAMESPACE | 159 pwrss-1.2.0/pwrss/NEWS.md | 11 pwrss-1.2.0/pwrss/R/ancova.R | 3143 ++-- pwrss-1.2.0/pwrss/R/anova.mixed.R | 573 pwrss-1.2.0/pwrss/R/checks.R | 507 pwrss-1.2.0/pwrss/R/correlations.R | 1906 +- pwrss-1.2.0/pwrss/R/generic.binom.test.R | 422 pwrss-1.2.0/pwrss/R/generic.chisq.test.R | 186 pwrss-1.2.0/pwrss/R/generic.f.test.R | 191 pwrss-1.2.0/pwrss/R/generic.lp.test.R |only pwrss-1.2.0/pwrss/R/generic.t.test.R | 384 pwrss-1.2.0/pwrss/R/generic.z.test.R | 397 pwrss-1.2.0/pwrss/R/helper.R |only pwrss-1.2.0/pwrss/R/means.student.R | 1461 +- pwrss-1.2.0/pwrss/R/means.wilcoxon.R | 868 - pwrss-1.2.0/pwrss/R/plot.binom.R | 680 - pwrss-1.2.0/pwrss/R/plot.chisq.R | 337 pwrss-1.2.0/pwrss/R/plot.f.R | 348 pwrss-1.2.0/pwrss/R/plot.lp.R |only pwrss-1.2.0/pwrss/R/plot.t.R | 649 - pwrss-1.2.0/pwrss/R/plots.R | 141 pwrss-1.2.0/pwrss/R/printing.R | 3142 ++-- pwrss-1.2.0/pwrss/R/proportions.fisher.R | 821 - pwrss-1.2.0/pwrss/R/proportions.gof.R | 427 pwrss-1.2.0/pwrss/R/proportions.mcnemar.R | 760 - pwrss-1.2.0/pwrss/R/proportions.onetwo.R | 2277 +-- pwrss-1.2.0/pwrss/R/regression.linear.R | 1060 - pwrss-1.2.0/pwrss/R/regression.logistic.R | 1197 - pwrss-1.2.0/pwrss/R/regression.mediation.R | 1063 - pwrss-1.2.0/pwrss/R/regression.poisson.R | 927 - pwrss-1.2.0/pwrss/R/utils.R | 1462 +- pwrss-1.2.0/pwrss/build/vignette.rds |binary pwrss-1.2.0/pwrss/inst/CITATION | 12 pwrss-1.2.0/pwrss/inst/WORDLIST | 315 pwrss-1.2.0/pwrss/inst/doc/examples.R | 352 pwrss-1.2.0/pwrss/inst/doc/examples.Rmd | 384 pwrss-1.2.0/pwrss/inst/doc/examples.html | 7629 +++++------- pwrss-1.2.0/pwrss/man/cor.to.z.Rd |only pwrss-1.2.0/pwrss/man/cors.to.q.Rd |only pwrss-1.2.0/pwrss/man/d.to.cles.Rd |only pwrss-1.2.0/pwrss/man/etasq.to.f.Rd |only pwrss-1.2.0/pwrss/man/f.to.etasq.Rd |only pwrss-1.2.0/pwrss/man/f.to.rsq.Rd |only pwrss-1.2.0/pwrss/man/factorial.contrasts.Rd |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-10-1.png |binary pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-11-1.png |binary pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-13-1.png |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-14-1.png |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-15-1.png |binary pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-18-1.png |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-19-1.png |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-7-1.png |binary pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-8-1.png |only pwrss-1.2.0/pwrss/man/figures/README-unnamed-chunk-9-1.png |only pwrss-1.2.0/pwrss/man/figures/hex.png |only pwrss-1.2.0/pwrss/man/figures/med.png |only pwrss-1.2.0/pwrss/man/inflate.sample.Rd |only pwrss-1.2.0/pwrss/man/joint.probs.2x2.Rd |only pwrss-1.2.0/pwrss/man/marginal.probs.2x2.Rd |only pwrss-1.2.0/pwrss/man/means.to.d.Rd |only pwrss-1.2.0/pwrss/man/means.to.etasq.Rd |only pwrss-1.2.0/pwrss/man/power.binom.test.Rd |only pwrss-1.2.0/pwrss/man/power.chisq.gof.Rd |only pwrss-1.2.0/pwrss/man/power.chisq.test.Rd |only pwrss-1.2.0/pwrss/man/power.exact.fisher.Rd |only pwrss-1.2.0/pwrss/man/power.exact.mcnemar.Rd |only pwrss-1.2.0/pwrss/man/power.exact.onecor.Rd |only pwrss-1.2.0/pwrss/man/power.exact.oneprop.Rd |only pwrss-1.2.0/pwrss/man/power.exact.twoprops.Rd |only pwrss-1.2.0/pwrss/man/power.f.ancova.Rd |only pwrss-1.2.0/pwrss/man/power.f.ancova.keppel.Rd |only pwrss-1.2.0/pwrss/man/power.f.ancova.shieh.Rd |only pwrss-1.2.0/pwrss/man/power.f.mixed.anova.Rd |only pwrss-1.2.0/pwrss/man/power.f.regression.Rd |only pwrss-1.2.0/pwrss/man/power.f.test.Rd |only pwrss-1.2.0/pwrss/man/power.lp.test.Rd |only pwrss-1.2.0/pwrss/man/power.np.wilcoxon.Rd |only pwrss-1.2.0/pwrss/man/power.t.contrast.Rd |only pwrss-1.2.0/pwrss/man/power.t.contrasts.Rd |only pwrss-1.2.0/pwrss/man/power.t.regression.Rd |only pwrss-1.2.0/pwrss/man/power.t.student.Rd |only pwrss-1.2.0/pwrss/man/power.t.test.Rd |only pwrss-1.2.0/pwrss/man/power.t.welch.Rd |only pwrss-1.2.0/pwrss/man/power.z.logistic.Rd |only pwrss-1.2.0/pwrss/man/power.z.mediation.Rd |only pwrss-1.2.0/pwrss/man/power.z.onecor.Rd |only pwrss-1.2.0/pwrss/man/power.z.oneprop.Rd |only pwrss-1.2.0/pwrss/man/power.z.poisson.Rd |only pwrss-1.2.0/pwrss/man/power.z.test.Rd |only pwrss-1.2.0/pwrss/man/power.z.twocors.Rd |only pwrss-1.2.0/pwrss/man/power.z.twocors.steiger.Rd |only pwrss-1.2.0/pwrss/man/power.z.twoprops.Rd |only pwrss-1.2.0/pwrss/man/probs.to.h.Rd |only pwrss-1.2.0/pwrss/man/probs.to.w.Rd |only pwrss-1.2.0/pwrss/man/q.to.cors.Rd |only pwrss-1.2.0/pwrss/man/rsq.to.f.Rd |only pwrss-1.2.0/pwrss/man/z.to.cor.Rd |only pwrss-1.2.0/pwrss/tests |only pwrss-1.2.0/pwrss/vignettes/examples.Rmd | 384 pwrss-1.2.0/pwrss/vignettes/examples.css |only pwrss-1.2.0/pwrss/vignettes/figures |only pwrss-1.2.0/pwrss/vignettes/rsconnect |only 147 files changed, 18676 insertions(+), 16217 deletions(-)
Title: BDEW Standard Load Profiles for Electricity and Gas
Description: Provides standard load profiles (SLPs) for electricity and gas
published by the German Association of Energy and Water Industries (BDEW
Bundesverband der Energie- und Wasserwirtschaft e.V.) in a tidy format. The
electricity profiles cover the 1999 profiles — households (H0), commercial
(G0–G6), and agriculture (L0–L2) — and the updated 2025 profiles (H25, G25,
L25, P25, S25), which additionally represent households with photovoltaic
systems and battery storage. An interface generates an electricity load
profile over a user-defined date range. A second interface generates daily
standard load profiles for gas using the synthetic 'SigLinDe' method. More
information on the data and methodology for electricity is described in
"Standardlastprofile Strom",
<https://www.bdew.de/energie/standardlastprofile-strom/>, and for gas in
"Standardlastprofile Gas",
<https://www.bdew.de/energie/standardlastprofile-gas/>.
Author: Markus Doering [aut, cre, cph]
Maintainer: Markus Doering <m4rkus.doering@gmail.com>
Diff between standardlastprofile versions 2.0.0 dated 2026-06-11 and 2.0.1 dated 2026-06-22
DESCRIPTION | 41 +++---- MD5 | 50 ++++----- NEWS.md | 18 +++ R/data.R | 4 R/plots.R | 5 R/siglinde.R | 37 +++++- R/slp_electricity.R | 6 - R/slp_gas.R | 32 +++-- R/slp_gas_kundenwert.R | 37 ++++-- R/slp_gas_reference.R | 15 +- R/utils.R | 14 +- README.md | 150 ++++++++++++--------------- man/figures/README-slp_gas_cities-1.png |binary man/figures/README-slp_gas_readme_plot-1.png |binary man/slp_electricity.Rd | 4 man/slp_electricity_profiles.Rd | 4 man/slp_gas.Rd | 19 +-- man/slp_gas_coefficients.Rd | 6 - man/slp_gas_kundenwert.Rd | 24 ++-- man/slp_gas_siglinde.Rd | 10 - man/slp_gas_weekday_factors.Rd | 6 - man/standardlastprofile-package.Rd | 2 tests/testthat/test-slp_gas.R | 14 ++ tests/testthat/test-slp_gas_kundenwert.R | 18 +++ tests/testthat/test-slp_gas_reference.R | 24 ++++ tests/testthat/test-slp_gas_siglinde.R | 94 ++++++++++++++++ 26 files changed, 414 insertions(+), 220 deletions(-)
More information about standardlastprofile at CRAN
Permanent link
Title: Multi-Stock Assessment
Description: Implementation of a next-generation, multi-stock age-structured fisheries assessment model.
'multiSA' is intended for use in mixed fisheries where stock composition can not be readily identified in
fishery data alone, e.g., from catch and age/length composition. Models can be fitted to genetic data,
e.g., stock composition of catches and close-kin pairs, with seasonal stock availability and movement.
Author: Quang Huynh [aut, cre]
Maintainer: Quang Huynh <quang@bluematterscience.com>
Diff between multiSA versions 0.2.0 dated 2026-05-22 and 0.3.0 dated 2026-06-22
DESCRIPTION | 14 MD5 | 62 - NAMESPACE | 12 NEWS.md | 14 R/calc_population.R | 872 ++++++++++++------------- R/check-data.R | 184 ++++- R/define-s4-class.R | 35 - R/jitter.R |only R/like.R | 76 +- R/make-parameters.R | 30 R/misc.R | 876 ++++++++++++------------- R/model.R | 258 ++++--- R/model_int.R | 1394 ++++++++++++++++++++--------------------- R/prior.R | 4 R/profile.R | 560 ++++++++-------- R/report-int-data.R | 1186 +++++++++++++++++----------------- R/report-int-state.R | 46 - R/report-rmd.R | 4 R/resid.R | 6 R/retrospective.R | 40 - R/rtmb-methods.R | 1 inst/include/MSAreport.Rmd | 4 inst/include/retrospective.Rmd | 4 man/Dfishery-class.Rd | 4 man/Dsurvey-class.Rd | 3 man/Dtag-class.Rd | 1 man/MSAdata-class.Rd | 8 man/do_jitter.Rd |only man/fit_MSA.Rd | 5 man/get_sdreport.Rd | 37 - man/optimize_RTMB.Rd | 16 man/profile.Rd | 37 - man/retrospective.Rd | 2 33 files changed, 3031 insertions(+), 2764 deletions(-)
Title: Convenience Functions for Education Data
Description: Collection of convenience functions to make working with
administrative records easier and more consistent. Includes functions to
clean strings, and identify cut points. Also includes three example data
sets of administrative education records for learning how to process records
with errors.
Author: Jason P. Becker [ctb],
Jared E. Knowles [aut, cre]
Maintainer: Jared E. Knowles <jared@civilytics.com>
Diff between eeptools versions 1.2.7 dated 2025-09-05 and 1.3.0 dated 2026-06-22
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Title: Enrichment Analysis Utilizing Active Subnetworks
Description: Enrichment analysis enables researchers to uncover mechanisms
underlying a phenotype. However, conventional methods for enrichment
analysis do not take into account protein-protein interaction information,
resulting in incomplete conclusions. 'pathfindR' is a tool for enrichment
analysis utilizing active subnetworks. The main function identifies active
subnetworks in a protein-protein interaction network using a user-provided
list of genes and associated p values. It then performs enrichment analyses
on the identified subnetworks, identifying enriched terms (i.e. pathways or,
more broadly, gene sets) that possibly underlie the phenotype of interest.
'pathfindR' also offers functionalities to cluster the enriched terms and
identify representative terms in each cluster, to score the enriched terms
per sample and to visualize analysis results. The enrichment, clustering and
other methods implemented in 'pathfindR' are described in detail in
Ulgen E, Ozisik O, Sezerman OU. 2019. 'pathfindR [...truncated...]
Author: Ege Ulgen [cre, cph] ,
Ozan Ozisik [aut]
Maintainer: Ege Ulgen <egeulgen@gmail.com>
Diff between pathfindR versions 2.7.0 dated 2025-12-22 and 3.0.0 dated 2026-06-22
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