Title: Tidy Dataframes and Expressions with Statistical Details
Description: Utilities for producing dataframes with rich details for the
most common types of statistical approaches and tests: parametric,
nonparametric, robust, and Bayesian t-test, one-way ANOVA, correlation
analyses, contingency table analyses, and meta-analyses. The functions
are pipe-friendly and provide a consistent syntax to work with tidy
data. These dataframes additionally contain expressions with
statistical details, and can be used in graphing packages. This
package also forms the statistical processing backend for
'ggstatsplot'. References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between statsExpressions versions 2.1.2 dated 2026-10-09 and 2.2.0 dated 2026-10-17
DESCRIPTION | 11 MD5 | 178 ++++----- NAMESPACE | 1 NEWS.md | 46 ++ R/add-expression-col.R | 81 ++-- R/centrality-description.R | 17 R/complete-subjects.R |only R/contingency-table.R | 80 +--- R/corr-test.R | 6 R/data.R | 22 - R/globals.R | 3 R/helpers-easystats.R | 32 - R/long-to-wide-converter.R | 50 +- R/meta-analysis.R | 17 R/one-sample-test.R | 2 R/oneway-anova.R | 179 ++------- R/pairwise-comparisons.R | 213 ++--------- R/pairwise-contingency-table.R | 22 - R/statsExpressions-package.R | 5 R/switch-functions.R | 3 R/tidy-model-expressions.R | 67 ++- R/two-sample-test.R | 68 +-- README.md | 315 +--------------- inst/doc/statsExpressions.R | 29 - inst/doc/statsExpressions.Rmd | 91 +--- inst/doc/statsExpressions.html | 398 ++++++++++----------- inst/doc/stats_details.R | 2 inst/doc/stats_details.Rmd | 22 - inst/doc/stats_details.html | 265 +++++-------- man/add_expression_col.Rd | 3 man/centrality_description.Rd | 3 man/complete_subjects.Rd |only man/contingency_table.Rd | 15 man/corr_test.Rd | 13 man/examples/examples-oneway-anova.R |only man/examples/examples-pairwise-comparisons.R |only man/iris_long.Rd | 8 man/long_to_wide_converter.Rd | 20 - man/meta_analysis.Rd | 13 man/movies_long.Rd | 14 man/one_sample_test.Rd | 15 man/oneway_anova.Rd | 97 ++--- man/pairwise_comparisons.Rd | 126 +++--- man/pairwise_contingency_table.Rd | 11 man/rmd-fragments/contingency_table.Rmd | 4 man/rmd-fragments/corr_test.Rmd | 2 man/rmd-fragments/functionality.Rmd | 50 -- man/rmd-fragments/meta_analysis.Rmd | 2 man/rmd-fragments/one_sample_test.Rmd | 2 man/rmd-fragments/oneway_anova.Rmd | 10 man/rmd-fragments/pairwise_comparisons.Rmd | 9 man/rmd-fragments/return.Rmd | 12 man/rmd-fragments/return_centrality.Rmd | 3 man/rmd-fragments/two_sample_test.Rmd | 13 man/statsExpressions-package.Rd | 5 man/two_sample_test.Rd | 31 - tests/testthat/_snaps/add-expression-col.md |only tests/testthat/_snaps/complete-subjects.md |only tests/testthat/_snaps/contingency-table.md | 8 tests/testthat/_snaps/long-to-wide-converter.md | 18 tests/testthat/_snaps/one-two-sample-dataframes.md | 2 tests/testthat/_snaps/oneway-anova-robust.md | 14 tests/testthat/_snaps/pairwise-comparisons.md | 150 +++---- tests/testthat/_snaps/tidy-model-expressions.md | 163 +++++++- tests/testthat/_snaps/two-sample-parametric.md | 12 tests/testthat/helper-long-to-wide.R |only tests/testthat/helper-one-sample.R | 8 tests/testthat/helper-subject-id.R |only tests/testthat/helper.R | 9 tests/testthat/test-add-expression-col.R |only tests/testthat/test-centrality-description.R | 32 - tests/testthat/test-complete-subjects.R |only tests/testthat/test-contingency-table.R | 99 +---- tests/testthat/test-corr-test.R | 12 tests/testthat/test-long-to-wide-converter.R | 236 ++++-------- tests/testthat/test-meta-random-bayes.R | 2 tests/testthat/test-meta-random-parametric.R | 2 tests/testthat/test-meta-random-robust.R | 2 tests/testthat/test-one-two-sample-dataframes.R | 65 +-- tests/testthat/test-oneway-anova-bayes.R | 50 -- tests/testthat/test-oneway-anova-nonparametric.R | 27 - tests/testthat/test-oneway-anova-parametric.R | 26 - tests/testthat/test-oneway-anova-robust.R | 8 tests/testthat/test-pairwise-comparisons.R | 269 ++++---------- tests/testthat/test-pairwise-contingency-table.R | 15 tests/testthat/test-print.R | 16 tests/testthat/test-tidy-model-expressions.R | 131 ++++-- tests/testthat/test-two-sample-bayes.R | 38 -- tests/testthat/test-two-sample-nonparametric.R | 33 - tests/testthat/test-two-sample-parametric.R | 71 +-- tests/testthat/test-two-sample-robust.R | 32 - vignettes/statsExpressions.Rmd | 91 +--- vignettes/stats_details.Rmd | 22 - vignettes/web_only/dataframe_outputs.Rmd | 236 ------------ vignettes/web_only/return_value_schema.Rmd | 136 +------ 95 files changed, 1799 insertions(+), 2942 deletions(-)
More information about statsExpressions at CRAN
Permanent link
Title: Randomized Singular Value Decomposition
Description: Low-rank matrix decompositions are fundamental tools and widely used for data
analysis, dimension reduction, and data compression. Classically, highly accurate
deterministic matrix algorithms are used for this task. However, the emergence of
large-scale data has severely challenged our computational ability to analyze big data.
The concept of randomness has been demonstrated as an effective strategy to quickly produce
approximate answers to familiar problems such as the singular value decomposition (SVD).
The rsvd package provides several randomized matrix algorithms such as the randomized
singular value decomposition (rsvd), randomized principal component analysis (rpca),
randomized robust principal component analysis (rrpca), randomized interpolative
decomposition (rid), and the randomized CUR decomposition (rcur). In addition several plot
functions are provided.
Author: N. Benjamin Erichson [aut, cre]
Maintainer: N. Benjamin Erichson <erichson@icsi.berkeley.edu>
Diff between rsvd versions 1.0.5 dated 2021-04-16 and 1.0.6 dated 2026-10-17
DESCRIPTION | 12 ++++++------ MD5 | 5 +++-- README.md |only build/partial.rdb |binary 4 files changed, 9 insertions(+), 8 deletions(-)
Title: Read Excel Files
Description: Import excel files into R. Supports '.xls' via the embedded
'libxls' C library <https://github.com/libxls/libxls> and '.xlsx' via
the embedded 'RapidXML' C++ library
<https://rapidxml.sourceforge.net/>. Works on Windows, Mac and Linux
without external dependencies. Reading of password-encrypted '.xlsx'
files is supported via the embedded 'tiny-AES-c' C library
<https://github.com/kokke/tiny-AES-c>.
Author: Hadley Wickham [aut] ,
Jennifer Bryan [aut, cre] ,
Posit, PBC [cph, fnd] ,
Marcin Kalicinski [ctb, cph] ,
Komarov Valery [ctb, cph] ,
Christophe Leitienne [ctb, cph] ,
Bob Colbert [ctb, cph] ,
David Hoerl [ctb, cph] ,
Evan Miller [ctb, cph] ,
kokke [ [...truncated...]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between readxl versions 1.5.0.1 dated 2026-09-16 and 1.6.0 dated 2026-10-17
DESCRIPTION | 27 - LICENSE.note | 30 + MD5 | 98 +++-- NAMESPACE | 10 NEWS.md | 9 R/cpp11.R | 8 R/decrypt.R |only R/excel-sheets.R | 8 R/read_excel.R | 75 +++- build/vignette.rds |binary man/excel_sheets.Rd | 16 man/read_excel.Rd | 27 + man/readxl-package.Rd | 3 src/CellLimits.h | 13 src/Decrypt.cpp |only src/Makevars | 4 src/Makevars.win | 6 src/aes-variant.h |only src/aes128.c |only src/aes192.c |only src/aes256.c |only src/cpp11.cpp | 16 src/cran.c | 4 src/cran.h | 7 src/libxls/brdb.h | 6 src/libxls/endian.c | 2 src/libxls/endian.h | 6 src/libxls/locale.c | 33 - src/libxls/locale.h | 20 - src/libxls/ole.c | 147 +++++++- src/libxls/ole.h | 2 src/libxls/xls.c | 221 +++++++++---- src/libxls/xls.h | 13 src/libxls/xlsstruct.h | 51 --- src/libxls/xlstool.c | 57 ++- src/libxls/xlstool.h | 6 src/libxls/xlstypes.h | 13 src/sha.h |only src/tinyaes |only src/unix/config-macos.h | 8 src/unix/config-unix.h | 8 src/windows/config.h | 8 tests/testthat/_snaps/decrypt.md |only tests/testthat/_snaps/read-excel.md | 30 + tests/testthat/_snaps/sheets.md | 32 + tests/testthat/fixtures |only tests/testthat/sheets/encryptAES.xlsx |only tests/testthat/sheets/encryptSHA1.xlsx |only tests/testthat/sheets/encryptSHA512.xlsx |only tests/testthat/sheets/mtcars-xlsx-encrypted-with-cars.xlsx |only tests/testthat/sheets/mtcars-xlsx.xlsx |only tests/testthat/test-decrypt.R |only tests/testthat/test-empty.R | 100 +++++ tests/testthat/test-missing-values.R | 12 tests/testthat/test-read-excel.R | 25 + tests/testthat/test-sheets.R | 16 tests/testthat/test-skipping.R | 18 - 57 files changed, 912 insertions(+), 283 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library aiming towards
a good balance between speed and ease of use. It provides high-level syntax and
functionality deliberately similar to Matlab. It is useful for algorithm development
directly in C++, or quick conversion of research code into production environments.
It provides efficient classes for vectors, matrices and cubes where dense and sparse
matrices are supported. Integer, floating point and complex numbers are supported.
A sophisticated expression evaluator (based on template meta-programming) automatically
combines several operations to increase speed and efficiency. Dynamic evaluation
automatically chooses optimal code paths based on detected matrix structures.
Matrix decompositions are provided through integration with LAPACK, or one of its
high performance drop-in replacements (such as 'MKL' or 'OpenBLAS'). It can
automatically use 'OpenMP' multi-threading (parallelisation) to speed up
computationally expensive operations [...truncated...]
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 15.6.0-1 dated 2026-09-08 and 15.6.2-1 dated 2026-10-17
ChangeLog | 17 ++++ DESCRIPTION | 8 +- MD5 | 28 +++---- README.md | 2 configure | 18 ++-- configure.ac | 2 inst/NEWS.Rd | 19 ++++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo_bits/Mat_meat.hpp | 48 ++++++++++++ inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/glue_cubemul_bones.hpp | 3 inst/include/armadillo_bits/glue_cubemul_meat.hpp | 81 +++++++++++++++++++++ inst/include/armadillo_bits/op_pinv_meat.hpp | 2 inst/include/armadillo_bits/traits.hpp | 13 +++ 15 files changed, 212 insertions(+), 31 deletions(-)
Title: Robust Image Rendering Support for 'ggplot2'
Description: A 'ggplot2' extension that enables robust image grobs in
panels and theme elements.
Author: Sebastian Carl [aut, cre, cph]
Maintainer: Sebastian Carl <mrcaseb@gmail.com>
Diff between ggpath versions 1.1.1 dated 2025-10-16 and 1.1.2 dated 2026-10-17
DESCRIPTION | 10 +-- MD5 | 19 +++--- NAMESPACE | 8 +- NEWS.md | 4 + R/theme_element.R | 72 +++++++++---------------- R/zzz.R | 16 +++++ man/element_path.Rd | 22 ++++--- man/geom_from_path.Rd | 2 man/geom_lines.Rd | 2 man/ggpath-package.Rd | 14 ++-- tests/testthat/test-theme-element-properties.R |only 11 files changed, 88 insertions(+), 81 deletions(-)
Title: Branch-Level Inference Framework for Recognizing Optimal Shifts
in Traits
Description: Methods for detecting, visualizing, and evaluating cladogenic shifts in multivariate trait data on phylogenies. Implements penalized-likelihood multivariate generalized least squares models and a greedy step-wise shift search for high-dimensional trait datasets and large trees via searchOptimalConfiguration(). Provides tools for inspecting search trajectories, summarizing branch and lineage rates, analyzing shift timing and magnitudes, estimating post-hoc regime covariance and integration, and running simulation-based calibration and tuning. The search follows approaches developed in Smith et al. (2023) <doi:10.1111/nph.19099> and Berv et al. (2024) <doi:10.1126/sciadv.adp0114>. Methods build on multivariate generalized least squares approaches described in Clavel et al. (2019) <doi:10.1093/sysbio/syy045> and implemented in the mvgls() function from the 'mvMORPH' package. Documentation and worked examples are available at <https://jakeberv.com/bifrost/>.
Author: Jacob S. Berv [aut, cre, cph, fnd] ,
Nathan Fox [aut] ,
Matt J. Thorstensen [aut] ,
Henry Lloyd-Laney [aut] ,
Emily M. Troyer [aut] ,
Rafael A. Rivero-Vega [aut] ,
Stephen A. Smith [aut, fnd] ,
Matt Friedman [aut, fnd] ,
David F. Fouhey [aut, fnd] ,
[...truncated...]
Maintainer: Jacob S. Berv <jacob.berv@gmail.com>
Diff between bifrost versions 0.2.0 dated 2026-09-27 and 0.2.2 dated 2026-10-17
DESCRIPTION | 17 - MD5 | 35 +- NEWS.md | 48 ++ R/bifrost_search-methods.R | 4 R/mvgls-starts.R |only R/searchOptimalConfiguration-helpers.R | 334 ++++++++++++-------- R/searchOptimalConfiguration.R | 64 +++ R/utils.R | 12 README.md | 47 +- inst/CITATION | 69 +--- inst/WORDLIST | 20 - man/searchOptimalConfiguration.Rd | 55 ++- tests/testthat/fixtures/mvgls-starts-historical.rds |only tests/testthat/helper-search-characterization.R | 4 tests/testthat/test-mvgls-starts.R |only tests/testthat/test-print-bifrost_search.R | 37 ++ tests/testthat/test-search-background-history.R |only tests/testthat/test-search-progress-atomic.R |only tests/testthat/test-search-progress-equivalence.R |only tests/testthat/test-search-progress-rng.R |only tests/testthat/test-search-progress.R | 50 ++ tests/testthat/test-search-spinner.R |only tests/testthat/test-search-threading.R |only 23 files changed, 535 insertions(+), 261 deletions(-)
Title: Process Command Line Arguments
Description: Process command line arguments. Processing
includes checking, naming, and coercing to numeric,
date, or logical. By capturing assumptions about
inputs and outputs, the 'command' package can
provide scripts with well defined interfaces,
leading to safer, more modular data analysis pipelines.
Author: John Bryant [aut, cre],
Bayesian Demography Limited [cph]
Maintainer: John Bryant <john@bayesiandemography.com>
Diff between command versions 0.2.0 dated 2026-07-22 and 0.3.0 dated 2026-10-17
DESCRIPTION | 18 MD5 | 53 +- NAMESPACE | 2 NEWS.md | 51 ++ R/check-functions.R | 122 +++++ R/cmd_assign.R | 294 +++++++++++-- R/command-package.R | 6 R/extract_make.R | 28 - R/extract_shell.R | 25 - R/helper-functions.R | 743 ++++++++++++++++++++++++++++----- R/makefile.R | 9 R/shell_script.R | 20 R/use_renv.R | 2 README.md | 2 man/cmd_assign.Rd | 145 ++++-- man/cmd_assign_collect.Rd |only man/command-package.Rd | 6 man/extract_make.Rd | 27 - man/extract_shell.Rd | 25 - man/makefile.Rd | 9 man/shell_script.Rd | 18 man/use_renv.Rd | 2 tests/testthat/test-check-functions.R | 75 +++ tests/testthat/test-cmd_assign.R | 90 +++ tests/testthat/test-extract_make.R | 20 tests/testthat/test-helper-functions.R | 480 +++++++++++++++++++++ tests/testthat/test-shell_script.R | 13 tests/testthat/test-use_renv.R | 104 ++++ 28 files changed, 2103 insertions(+), 286 deletions(-)
Title: Multi-Layer Decomposition of Functional Community Restructuring
Description: Implements the 'ASC-CFD' (Assemblage Shift Characterization -
Community Functional Dynamics) framework for decomposing functional community
restructuring into positional (centroid displacement), dispersive
(functional dispersion), and boundary (convex hull volume) components.
Tests each component against two null models: a sampling null model
(individuals or replicates reassigned between communities) and a
stratified trait-permutation null model, with a single global test when
many communities are compared. Functional entities (species with similar
traits) help detect replacement among similar species, and species-level
leverage identifies the taxa driving functional shifts. Supports both
temporal (paired) and spatial (pairwise) comparisons.
Author: Rogelio R. Munoz-Li [aut, cre],
Flavia Alvarez-Denis [aut]
Maintainer: Rogelio R. Munoz-Li <munozrogelio16@gmail.com>
Diff between ascent versions 0.1.1 dated 2026-07-30 and 0.5.0 dated 2026-10-17
DESCRIPTION | 21 MD5 | 64 +-- NAMESPACE | 55 +- NEWS.md | 80 +++ R/asc_baseline.R | 162 +++---- R/asc_entities.R | 220 +++++++--- R/asc_null.R | 518 +++++++++++++++--------- R/asc_paired.R | 290 +++++++------ R/asc_pairwise.R | 220 +++++----- R/asc_transitions.R | 242 ++++++----- R/ascent-package.R |only R/assess_functional_space.R | 295 +++++++------ R/data.R |only R/print.R | 109 ++--- R/summary.R | 491 ++++++++++++----------- R/utils_topology.R | 319 +++++++++----- README.md | 358 ++++++++-------- build/vignette.rds |binary data |only inst/CITATION | 23 - inst/doc/ascent_tutorial.R | 105 ++-- inst/doc/ascent_tutorial.Rmd | 411 +++++++++---------- inst/doc/ascent_tutorial.html | 810 ++++++++++++++++++++------------------ man/asc_baseline.Rd | 110 ++--- man/asc_entities.Rd | 157 +++++-- man/asc_null.Rd | 193 +++++---- man/asc_paired.Rd | 48 +- man/asc_pairwise.Rd | 38 + man/asc_transitions.Rd | 125 +++-- man/ascent-package.Rd |only man/assess_functional_space.Rd | 151 +++---- man/birds_sim.Rd |only man/summary.ascfcd_transitions.Rd | 45 +- tests/testthat/test-core.R | 31 - tests/testthat/test-v020.R |only vignettes/ascent_tutorial.Rmd | 411 +++++++++---------- 36 files changed, 3457 insertions(+), 2645 deletions(-)