Title: Evaluate Periodicity in Large Scale Data
Description: There are two functions-meta2d and meta3d for
detecting rhythmic signals from time-series datasets. For analyzing
time-series datasets without individual information, 'meta2d' is
suggested, which could incorporates multiple methods from ARSER,
JTK_CYCLE and Lomb-Scargle in the detection of interested rhythms. For
analyzing time-series datasets with individual information, 'meta3d' is
suggested, which takes use of any one of these three methods to analyze
time-series data individual by individual and gives out integrated values
based on analysis result of each individual.
Author: Gang Wu [aut, cre],
Ron Anafi [aut, ctb],
John Hogenesch [aut, ctb],
Michael Hughes [aut, ctb],
Karl Kornacker [aut, ctb],
Xavier Li [aut, ctb],
Matthew Carlucci [aut, ctb]
Maintainer: Gang Wu <wggucas@gmail.com>
Diff between MetaCycle versions 1.2.0 dated 2019-04-18 and 1.2.1 dated 2026-02-01
DESCRIPTION | 11 MD5 | 40 +- NAMESPACE | 17 + R/meta2dMainF.R | 47 +-- R/meta3dMainF.R | 23 + R/package.R | 3 build/vignette.rds |binary inst/doc/implementation.R | 20 - inst/doc/implementation.Rmd | 8 inst/doc/implementation.html | 634 +++++++++++++++++++++++++++++++++++-------- man/MetaCycle.Rd | 4 man/cycHumanBloodData.Rd | 6 man/cycHumanBloodDesign.Rd | 6 man/cycMouseLiverProtein.Rd | 6 man/cycMouseLiverRNA.Rd | 6 man/cycSimu4h2d.Rd | 6 man/cycVignettesAMP.Rd | 6 man/cycYeastCycle.Rd | 6 man/meta2d.Rd | 83 +++-- man/meta3d.Rd | 62 +++- vignettes/implementation.Rmd | 8 21 files changed, 756 insertions(+), 246 deletions(-)
Title: Inset Plots for Spatial Data Visualization
Description: Tools for easily and flexibly creating 'ggplot2' maps with inset maps. One crucial feature of maps is that they have fixed coordinate ratios, i.e., they cannot be distorted, which makes it difficult to manually place inset maps. This package provides functions to automatically position inset maps based on user-defined parameters, making it extremely easy to create maps with inset maps with minimal code.
Author: Chao Kong [aut, cre, cph]
Maintainer: Chao Kong <kongchao1998@gmail.com>
Diff between insetplot versions 1.3.0 dated 2025-12-18 and 1.4.0 dated 2026-02-01
insetplot-1.3.0/insetplot/tests/testthat/README.md |only insetplot-1.4.0/insetplot/DESCRIPTION | 6 - insetplot-1.4.0/insetplot/MD5 | 37 +++--- insetplot-1.4.0/insetplot/NEWS.md | 7 + insetplot-1.4.0/insetplot/R/inset_config.R | 36 +++--- insetplot-1.4.0/insetplot/R/insetplot-package.R | 4 insetplot-1.4.0/insetplot/R/map_utils.R | 57 ++++++++++ insetplot-1.4.0/insetplot/R/with_inset.R | 7 - insetplot-1.4.0/insetplot/README.md | 30 +++-- insetplot-1.4.0/insetplot/inst/doc/insetplot.R | 10 - insetplot-1.4.0/insetplot/inst/doc/insetplot.Rmd | 15 +- insetplot-1.4.0/insetplot/inst/doc/insetplot.html | 24 ++-- insetplot-1.4.0/insetplot/man/config_insetmap.Rd | 21 ++- insetplot-1.4.0/insetplot/man/ggsave_inset.Rd | 2 insetplot-1.4.0/insetplot/man/insetplot-package.Rd | 4 insetplot-1.4.0/insetplot/man/last_insetcfg.Rd | 2 insetplot-1.4.0/insetplot/man/with_inset.Rd | 4 insetplot-1.4.0/insetplot/tests/testthat/helpers.R | 6 - insetplot-1.4.0/insetplot/tests/testthat/test-config_insetmap.R | 16 -- insetplot-1.4.0/insetplot/vignettes/insetplot.Rmd | 15 +- 20 files changed, 190 insertions(+), 113 deletions(-)
Title: 'C++' Implementations of Functional Enrichment Analysis
Description: Fast implementations of functional enrichment analysis methods using 'C++' via 'Rcpp'.
Currently provides Over-Representation Analysis (ORA) and Gene Set Enrichment Analysis (GSEA).
The multilevel GSEA algorithm is derived from the 'fgsea' package.
Methods are described in Subramanian et al. (2005) <doi:10.1073/pnas.0506580102> and Korotkevich et al. (2021) <doi:10.1101/060012>.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between enrichit versions 0.1.0 dated 2026-01-18 and 0.1.1 dated 2026-02-01
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ R/00-AllClasses.R | 4 +++- R/setReadable.R | 20 +++++++++++--------- inst/doc/enrichit.html | 14 +++++++------- man/EXTID2NAME.Rd | 4 +++- man/compareClusterResult-class.Rd | 2 ++ man/setReadable.Rd | 4 +++- 9 files changed, 45 insertions(+), 30 deletions(-)
Title: Basic S4 Classes and Methods for Mapping Between Numeric Values
and Colors
Description: A simple set of classes and methods for mapping between scalar intensity values and colors. There is also support for layering maps on top of one another using alpha composition.
Author: Bradley R Buchsbaum [aut, cre]
Maintainer: Bradley R Buchsbaum <brad.buchsbaum@gmail.com>
Diff between colorplane versions 0.5.0 dated 2023-03-03 and 0.6.0 dated 2026-02-01
colorplane-0.5.0/colorplane/man/ColorScale-class.Rd |only colorplane-0.5.0/colorplane/man/get_color-methods.Rd |only colorplane-0.6.0/colorplane/DESCRIPTION | 12 ++-- colorplane-0.6.0/colorplane/MD5 | 47 +++++++++++++---- colorplane-0.6.0/colorplane/NAMESPACE | 2 colorplane-0.6.0/colorplane/R/all_class.R | 13 ---- colorplane-0.6.0/colorplane/R/all_generic.R | 11 --- colorplane-0.6.0/colorplane/R/color_plane.R | 13 ++-- colorplane-0.6.0/colorplane/R/color_scale.R | 41 -------------- colorplane-0.6.0/colorplane/man/HexColorPlane-class.Rd | 6 ++ colorplane-0.6.0/colorplane/man/RGBColorPlane-class.Rd | 6 ++ colorplane-0.6.0/colorplane/man/map_colors-methods.Rd | 4 - colorplane-0.6.0/colorplane/tests |only 13 files changed, 69 insertions(+), 86 deletions(-)
Title: Educational Assessment Tools for Replication Methods
Description: Replication methods to compute some basic statistic operations (means, standard deviations,
frequency tables, percentiles, mean comparisons using weighted effect coding, generalized linear models,
and linear multilevel models) in complex survey designs comprising multiple imputed or nested imputed
variables and/or a clustered sampling structure which both deserve special procedures at least in
estimating standard errors. See the package documentation for a more detailed description along with references.
Author: Sebastian Weirich [aut, cre],
Martin Hecht [aut],
Karoline Sachse [aut],
Benjamin Becker [aut],
Edna Grewers [ctb]
Maintainer: Sebastian Weirich <sebastian.weirich@iqb.hu-berlin.de>
Diff between eatRep versions 0.15.2 dated 2025-04-30 and 0.15.3 dated 2026-02-01
eatRep-0.15.2/eatRep/R/tools.R |only eatRep-0.15.3/eatRep/DESCRIPTION | 11 eatRep-0.15.3/eatRep/MD5 | 37 eatRep-0.15.3/eatRep/NEWS.md | 6 eatRep-0.15.3/eatRep/R/bifie.r | 24 eatRep-0.15.3/eatRep/R/globalVariables.r | 20 eatRep-0.15.3/eatRep/R/jk2.R | 366 eatRep-0.15.3/eatRep/R/report.r | 190 eatRep-0.15.3/eatRep/README.md | 5 eatRep-0.15.3/eatRep/build/vignette.rds |binary eatRep-0.15.3/eatRep/inst/WORDLIST | 210 eatRep-0.15.3/eatRep/inst/doc/eatRep.html | 3605 ++-- eatRep-0.15.3/eatRep/inst/doc/eatRep.rmd | 7 eatRep-0.15.3/eatRep/man/eatRep-package.rd | 4 eatRep-0.15.3/eatRep/man/pool.R2.Rd | 100 eatRep-0.15.3/eatRep/man/repMean.Rd | 5 eatRep-0.15.3/eatRep/tests/testthat/test_jk2_mean.R | 12 eatRep-0.15.3/eatRep/tests/testthat/test_jk2_table.R | 2 eatRep-0.15.3/eatRep/vignettes/eatRep.rmd | 7 eatRep-0.15.3/eatRep/vignettes/endnote_bibtex_export.bib |12962 +++++++-------- 20 files changed, 8839 insertions(+), 8734 deletions(-)
Title: Quickly Explore Your Data Using 'ggplot2' and 'table1' Summary
Tables
Description: Quickly and easily perform exploratory data analysis by uploading your
data as a 'csv' file. Start generating insights using 'ggplot2' plots and
'table1' tables with descriptive stats, all using an easy-to-use point and click
'Shiny' interface.
Author: Samer Mouksassi [aut, cre] ,
Dean Attali [aut],
James Craig [aut] ,
Benjamin Rich [aut] ,
Michael Sachs [aut]
Maintainer: Samer Mouksassi <samermouksassi@gmail.com>
Diff between ggquickeda versions 0.3.2 dated 2025-09-15 and 0.3.3 dated 2026-02-01
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 8 ++++++++ R/ggcontinuousexpdist.R | 4 ++-- R/ggkmrisktable.R | 25 ++++++++++++++++--------- R/gglogisticexpdist.R | 7 +++---- R/ggresponseexpdist.R | 6 +++--- build/vignette.rds |binary inst/doc/AdditionalPlotsStats.html | 4 ++-- inst/doc/Visualizing_Summary_Data.html | 4 ++-- inst/doc/app.html | 2 +- inst/doc/ggquickeda.html | 4 ++-- inst/shinyapp/server.R | 12 ++++++++---- man/ggcontinuousexpdist.Rd | 4 ++-- man/ggkmrisktable.Rd | 5 ++++- man/gglogisticexpdist.Rd | 7 +++---- man/ggresponseexpdist.Rd | 6 +++--- 17 files changed, 78 insertions(+), 58 deletions(-)
Title: Nested Dichotomy Logistic Regression Models
Description: Provides functions for specifying and fitting nested
dichotomy logistic regression models for a multi-category response and
methods for summarising and plotting those models. Nested dichotomies are
statistically independent, and hence provide an additive decomposition
of tests for the overall 'polytomous' response. When the dichotomies
make sense substantively, this method can be a simpler alternative to
the standard 'multinomial' logistic model which compares response
categories to a reference level. See: J. Fox (2016), "Applied
Regression Analysis and Generalized Linear Models", 3rd Ed., ISBN
1452205663.
Author: John Fox [aut] ,
Michael Friendly [aut, cre] ,
Achim Zeileis [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between nestedLogit versions 0.3.2 dated 2023-06-22 and 0.3.4 dated 2026-02-01
DESCRIPTION | 22 ++- MD5 | 46 +++---- NEWS.md | 28 +++- R/GSS.R | 2 R/models.R | 19 ++- R/nested.R | 3 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/nestedLogit.R | 6 - inst/doc/nestedLogit.Rmd | 6 - inst/doc/nestedLogit.html | 195 ++++++++++++++++----------------- inst/doc/plotting-ggplot.R | 4 inst/doc/plotting-ggplot.Rmd | 2 inst/doc/plotting-ggplot.html | 32 ++--- inst/doc/standard-errors.html | 9 - man/GSS.Rd | 2 vignettes/fig/wlf-ggplot-alt1-1.png |binary vignettes/fig/wlf-ggplot-dichot1-1.png |binary vignettes/fig/wlf-ggplot-dichot2-1.png |binary vignettes/fig/wlf-ggplot-logit-1.png |binary vignettes/fig/wlf-ggplot-p1-1.png |binary vignettes/fig/wlf-ggplot-p2-1.png |binary vignettes/nestedLogit.Rmd | 6 - vignettes/plotting-ggplot.Rmd | 2 24 files changed, 209 insertions(+), 176 deletions(-)
Title: Confidence Intervals for a Binomial Proportion
Description: Twelve confidence intervals for one binomial proportion or a vector of binomial proportions are computed. The confidence intervals are: Jeffreys, Wald, Wald corrected, Wald, Blyth and Still, Agresti and Coull, Wilson, Score, Score corrected, Wald logit, Wald logit corrected, Arcsine and Exact binomial. References include, among others: Vollset, S. E. (1993). "Confidence intervals for a binomial proportion". Statistics in Medicine, 12(9): 809-824. <doi:10.1002/sim.4780120902>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between binomCI versions 1.2 dated 2024-11-25 and 1.3 dated 2026-02-01
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/binomCI.R | 2 +- R/binomCIs.R | 2 +- man/binomCI-package.Rd | 6 ++++-- man/binomCI.Rd | 4 +++- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Artless Automatic or Artful Multivariate Matching for
Observational Studies
Description: Implements a simple version of multivariate matching using a propensity score, near-exact matching, near-fine balance, and robust Mahalanobis distance matching (Rosenbaum 2020 <doi:10.1146/annurev-statistics-031219-041058>). You specify the variables, and the program does everything else.
Author: Paul Rosenbaum [aut, cre]
Maintainer: Paul Rosenbaum <rosenbaum@wharton.upenn.edu>
Diff between aamatch versions 0.3.7 dated 2025-06-24 and 0.4.5 dated 2026-02-01
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++++-------- R/alittleArt.R |only R/artless.R | 1 - R/artlessV2.R |only build/partial.rdb |binary data/PeriMatched.rda |binary man/PeriMatched.Rd | 3 +-- man/PeriUnmatched.Rd | 2 +- man/aamatch-package.Rd | 6 +++--- man/alittleArt.Rd |only man/artless.Rd | 21 ++++++++++++--------- man/artlessV2.Rd |only 13 files changed, 34 insertions(+), 29 deletions(-)
Title: Robust Pipeline for 'VALD' 'ForceDecks' Data Extraction and
Analysis
Description: Provides a robust and reproducible pipeline for extracting,
cleaning, and analyzing athlete performance data generated by 'VALD'
'ForceDecks' systems. The package supports batch-oriented data processing
for large datasets, standardized data transformation workflows, and
visualization utilities for sports science research and performance
monitoring. It is designed to facilitate reproducible analysis across
multiple sports with comprehensive documentation and error handling.
Author: Praveen D Chougale [aut, cre],
Usha Ananthakumar [aut]
Maintainer: Praveen D Chougale <praveenmaths89@gmail.com>
Diff between vald.extractor versions 0.1.0 dated 2026-01-22 and 0.1.1 dated 2026-02-01
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 6 ++++++ README.md | 2 +- inst/doc/end-to-end-pipeline.html | 4 ++-- man/vald.extractor-package.Rd | 2 +- 6 files changed, 20 insertions(+), 14 deletions(-)
More information about vald.extractor at CRAN
Permanent link
Title: Fast Implementations of Kernel K-Means
Description: Implementations several algorithms for kernel k-means. The default
'OTQT' algorithm is a fast alternative to standard implementations of kernel
k-means, particularly in cases with many clusters. For a small number of
clusters, the implemented 'MacQueen' method typically performs the fastest. For
more details and performance evaluations, see Berlinski and Maitra (2025) <doi:10.1002/sam.70032>.
Author: Josh Berlinski [aut, cre]
Maintainer: Josh Berlinski <jdberlinski@gmail.com>
Diff between kkmeans versions 0.1.2 dated 2026-01-31 and 0.1.3 dated 2026-02-01
kkmeans-0.1.2/kkmeans/src/estimate.c |only kkmeans-0.1.3/kkmeans/DESCRIPTION | 6 +++--- kkmeans-0.1.3/kkmeans/MD5 | 5 ++--- kkmeans-0.1.3/kkmeans/R/kkmeans.R | 12 ------------ 4 files changed, 5 insertions(+), 18 deletions(-)
Title: Standard Schedules Information Parser
Description: Parse Standard Schedules Information file (types 2 and 3) into a Data Frame.
Can also expand schedules into flights.
Author: Sebastien Thonnard [aut, cre]
Maintainer: Sebastien Thonnard <sebastien.thonnard@icloud.com>
Diff between ssimparser versions 0.1.1 dated 2022-01-11 and 0.1.2 dated 2026-02-01
ssimparser-0.1.1/ssimparser/R/utils-pipe.R |only ssimparser-0.1.1/ssimparser/man/pipe.Rd |only ssimparser-0.1.2/ssimparser/DESCRIPTION | 19 +- ssimparser-0.1.2/ssimparser/LICENSE | 2 ssimparser-0.1.2/ssimparser/MD5 | 21 +- ssimparser-0.1.2/ssimparser/NAMESPACE | 2 ssimparser-0.1.2/ssimparser/R/ssimparser-package.R |only ssimparser-0.1.2/ssimparser/R/ssimparser.R | 146 +++++++------------ ssimparser-0.1.2/ssimparser/README.md | 34 ++-- ssimparser-0.1.2/ssimparser/man/load_ssim.Rd | 6 ssimparser-0.1.2/ssimparser/man/load_ssim_flights.Rd | 10 - ssimparser-0.1.2/ssimparser/man/ssimparser.Rd | 12 + ssimparser-0.1.2/ssimparser/tests/testthat/test.R | 29 ++- 13 files changed, 138 insertions(+), 143 deletions(-)
Title: Creating and Working with Pedigrees and Marker Data
Description: A comprehensive collection of tools for creating,
manipulating and visualising pedigrees and genetic marker data.
Pedigrees can be read from text files or created on the fly with
built-in functions. A range of utilities enable modifications like
adding or removing individuals, breaking loops, and merging pedigrees.
An online tool for creating pedigrees interactively, based on
'pedtools', is available at <https://magnusdv.shinyapps.io/quickped>.
'pedtools' is the hub of the 'pedsuite', a collection of packages for
pedigree analysis. A detailed presentation of the 'pedsuite' is given
in the book 'Pedigree Analysis in R' (Vigeland, 2021,
ISBN:9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedtools versions 2.9.0 dated 2025-10-28 and 2.10.0 dated 2026-02-01
DESCRIPTION | 6 - MD5 | 42 +++++++------ NAMESPACE | 5 + NEWS.md | 22 ++++++- R/marker_getattr.R | 28 ++++++--- R/marker_sort.R | 14 +++- R/marker_stats.R |only R/ped_modify.R | 111 +++++++++++++++++++++++++++++++----- R/ped_plot.R | 14 ++-- R/ped_subgroups.R | 31 ++++++---- R/plot_dag.R | 8 +- R/plot_methods.R | 2 build/vignette.rds |binary inst/WORDLIST | 4 + inst/doc/pedtools.html | 20 +++--- man/expectedHomozygosity.Rd |only man/isHomozygous.Rd |only man/marker_getattr.Rd | 7 +- man/ped_modify.Rd | 49 ++++++++++++--- man/plot.ped.Rd | 9 ++ man/sameGenotype.Rd |only man/sortGenotypes.Rd | 2 tests/testthat/test-ped-relatives.R | 12 +-- tests/testthat/test-singleton.R | 12 +++ 24 files changed, 292 insertions(+), 106 deletions(-)
Title: Spatial Empirical Dynamic Modeling
Description: Inferring causation from spatial cross-sectional data through empirical dynamic modeling (EDM), with methodological extensions including geographical convergent cross mapping from Gao et al. (2023) <doi:10.1038/s41467-023-41619-6>, as well as the spatial causality test following the approach of Herrera et al. (2016) <doi:10.1111/pirs.12144>, together with geographical pattern causality proposed in Zhang et al. (2025) <doi:10.1080/13658816.2025.2581207>.
Author: Wenbo Lv [aut, cre, cph]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between spEDM versions 1.9 dated 2025-11-30 and 1.10 dated 2026-02-01
spEDM-1.10/spEDM/DESCRIPTION | 6 spEDM-1.10/spEDM/MD5 | 209 +++++++++-------- spEDM-1.10/spEDM/NAMESPACE | 1 spEDM-1.10/spEDM/NEWS.md | 16 + spEDM-1.10/spEDM/R/RcppExports.R | 28 +- spEDM-1.10/spEDM/R/formatoutput.R | 9 spEDM-1.10/spEDM/R/gcmc.R | 2 spEDM-1.10/spEDM/R/gpc.R | 4 spEDM-1.10/spEDM/R/ic.R | 2 spEDM-1.10/spEDM/R/scpcm.R |only spEDM-1.10/spEDM/R/sctest.R | 4 spEDM-1.10/spEDM/R/simplex.R | 2 spEDM-1.10/spEDM/R/slm.R | 12 - spEDM-1.10/spEDM/R/smap.R | 2 spEDM-1.10/spEDM/build/vignette.rds |binary spEDM-1.10/spEDM/inst/CITATION | 4 spEDM-1.10/spEDM/inst/doc/main1_pkgintro.Rmd |only spEDM-1.10/spEDM/inst/doc/main1_pkgintro.html |only spEDM-1.10/spEDM/inst/doc/main2_ssr.Rmd |only spEDM-1.10/spEDM/inst/doc/main2_ssr.html |only spEDM-1.10/spEDM/inst/doc/main3_gccm.Rmd |only spEDM-1.10/spEDM/inst/doc/main3_gccm.html |only spEDM-1.10/spEDM/inst/doc/main4_gpc.Rmd |only spEDM-1.10/spEDM/inst/doc/main4_gpc.html |only spEDM-1.10/spEDM/inst/doc/main5_gcmc.Rmd |only spEDM-1.10/spEDM/inst/doc/main5_gcmc.html |only spEDM-1.10/spEDM/inst/doc/main6_scpcm.Rmd |only spEDM-1.10/spEDM/inst/doc/main6_scpcm.html |only spEDM-1.10/spEDM/inst/doc/si1_slm.Rmd |only spEDM-1.10/spEDM/inst/doc/si1_slm.html |only spEDM-1.10/spEDM/inst/doc/si2_sct.Rmd |only spEDM-1.10/spEDM/inst/doc/si2_sct.html |only spEDM-1.10/spEDM/inst/include |only spEDM-1.10/spEDM/man/figures/gccm/fig1-1.png |binary spEDM-1.10/spEDM/man/figures/gccm/fig2-1.png |binary spEDM-1.10/spEDM/man/figures/gcmc/fig1-1.png |binary spEDM-1.10/spEDM/man/figures/gcmc/fig2-1.png |binary spEDM-1.10/spEDM/man/figures/scpcm |only spEDM-1.10/spEDM/man/gcmc.Rd | 2 spEDM-1.10/spEDM/man/gpc.Rd | 4 spEDM-1.10/spEDM/man/ic.Rd | 4 spEDM-1.10/spEDM/man/sc.test.Rd | 4 spEDM-1.10/spEDM/man/scpcm.Rd |only spEDM-1.10/spEDM/man/simplex.Rd | 4 spEDM-1.10/spEDM/man/slm.Rd | 12 - spEDM-1.10/spEDM/man/smap.Rd | 4 spEDM-1.10/spEDM/src/CppDistances.cpp | 6 spEDM-1.10/spEDM/src/CppDistances.h | 9 spEDM-1.10/spEDM/src/CppLatticeUtils.cpp | 2 spEDM-1.10/spEDM/src/CppLatticeUtils.h | 2 spEDM-1.10/spEDM/src/CppStats.cpp | 1 spEDM-1.10/spEDM/src/CppStats.h | 6 spEDM-1.10/spEDM/src/CrossMappingCardinality.cpp | 250 --------------------- spEDM-1.10/spEDM/src/CrossMappingCardinality.h | 36 --- spEDM-1.10/spEDM/src/EntropyExp.cpp | 1 spEDM-1.10/spEDM/src/FalseNearestNeighbors.cpp | 12 - spEDM-1.10/spEDM/src/FalseNearestNeighbors.h | 5 spEDM-1.10/spEDM/src/Forecast4Grid.cpp | 20 - spEDM-1.10/spEDM/src/Forecast4Grid.h | 17 - spEDM-1.10/spEDM/src/Forecast4Lattice.cpp | 18 - spEDM-1.10/spEDM/src/Forecast4Lattice.h | 15 - spEDM-1.10/spEDM/src/ForecastExp.cpp | 15 - spEDM-1.10/spEDM/src/GCCM4Grid.cpp | 2 spEDM-1.10/spEDM/src/GCCM4Grid.h | 5 spEDM-1.10/spEDM/src/GCCM4Lattice.cpp | 2 spEDM-1.10/spEDM/src/GCCM4Lattice.h | 5 spEDM-1.10/spEDM/src/GridExp.cpp | 39 ++- spEDM-1.10/spEDM/src/IntersectionalCardinality.cpp |only spEDM-1.10/spEDM/src/IntersectionalCardinality.h |only spEDM-1.10/spEDM/src/LatticeExp.cpp | 50 ++-- spEDM-1.10/spEDM/src/MultiViewEmbedding.cpp | 2 spEDM-1.10/spEDM/src/MultiViewEmbedding.h | 5 spEDM-1.10/spEDM/src/PatternCausality.cpp | 229 ++----------------- spEDM-1.10/spEDM/src/PatternCausality.h | 78 +----- spEDM-1.10/spEDM/src/RcppExports.cpp | 87 ++++--- spEDM-1.10/spEDM/src/SCPCM4Grid.cpp | 2 spEDM-1.10/spEDM/src/SCPCM4Grid.h | 5 spEDM-1.10/spEDM/src/SCPCM4Lattice.cpp | 2 spEDM-1.10/spEDM/src/SCPCM4Lattice.h | 5 spEDM-1.10/spEDM/src/SGC4Grid.cpp | 4 spEDM-1.10/spEDM/src/SGC4Grid.h | 7 spEDM-1.10/spEDM/src/SGC4Lattice.cpp | 4 spEDM-1.10/spEDM/src/SGC4Lattice.h | 7 spEDM-1.10/spEDM/src/SLM4Grid.cpp | 70 +++++ spEDM-1.10/spEDM/src/SLM4Grid.h | 28 +- spEDM-1.10/spEDM/src/SLM4Lattice.cpp | 89 ++++++- spEDM-1.10/spEDM/src/SLM4Lattice.h | 43 ++- spEDM-1.10/spEDM/src/SignatureProjection.cpp | 2 spEDM-1.10/spEDM/src/SignatureProjection.h | 6 spEDM-1.10/spEDM/src/StatsExp.cpp | 39 ++- spEDM-1.10/spEDM/src/SymbolicDynamics.cpp |only spEDM-1.10/spEDM/src/SymbolicDynamics.h |only spEDM-1.10/spEDM/src/UtilityExp.cpp | 7 spEDM-1.10/spEDM/vignettes/main1_pkgintro.Rmd |only spEDM-1.10/spEDM/vignettes/main1_pkgintro.Rmd.orig |only spEDM-1.10/spEDM/vignettes/main2_ssr.Rmd |only spEDM-1.10/spEDM/vignettes/main2_ssr.Rmd.orig |only spEDM-1.10/spEDM/vignettes/main3_gccm.Rmd |only spEDM-1.10/spEDM/vignettes/main3_gccm.Rmd.orig |only spEDM-1.10/spEDM/vignettes/main4_gpc.Rmd |only spEDM-1.10/spEDM/vignettes/main4_gpc.Rmd.orig |only spEDM-1.10/spEDM/vignettes/main5_gcmc.Rmd |only spEDM-1.10/spEDM/vignettes/main5_gcmc.Rmd.orig |only spEDM-1.10/spEDM/vignettes/main6_scpcm.Rmd |only spEDM-1.10/spEDM/vignettes/main6_scpcm.Rmd.orig |only spEDM-1.10/spEDM/vignettes/si1_slm.Rmd |only spEDM-1.10/spEDM/vignettes/si1_slm.Rmd.orig |only spEDM-1.10/spEDM/vignettes/si2_sct.Rmd |only spEDM-1.10/spEDM/vignettes/si2_sct.Rmd.orig |only spEDM-1.9/spEDM/inst/doc/GCCM.Rmd |only spEDM-1.9/spEDM/inst/doc/GCCM.html |only spEDM-1.9/spEDM/inst/doc/GCMC.Rmd |only spEDM-1.9/spEDM/inst/doc/GCMC.html |only spEDM-1.9/spEDM/inst/doc/GPC.Rmd |only spEDM-1.9/spEDM/inst/doc/GPC.html |only spEDM-1.9/spEDM/inst/doc/PkgIntro.Rmd |only spEDM-1.9/spEDM/inst/doc/PkgIntro.html |only spEDM-1.9/spEDM/inst/doc/SCT.Rmd |only spEDM-1.9/spEDM/inst/doc/SCT.html |only spEDM-1.9/spEDM/inst/doc/SLM.Rmd |only spEDM-1.9/spEDM/inst/doc/SLM.html |only spEDM-1.9/spEDM/inst/doc/SSR.Rmd |only spEDM-1.9/spEDM/inst/doc/SSR.html |only spEDM-1.9/spEDM/src/IntersectionCardinality.cpp |only spEDM-1.9/spEDM/src/IntersectionCardinality.h |only spEDM-1.9/spEDM/vignettes/GCCM.Rmd |only spEDM-1.9/spEDM/vignettes/GCCM.Rmd.orig |only spEDM-1.9/spEDM/vignettes/GCMC.Rmd |only spEDM-1.9/spEDM/vignettes/GCMC.Rmd.orig |only spEDM-1.9/spEDM/vignettes/GPC.Rmd |only spEDM-1.9/spEDM/vignettes/GPC.Rmd.orig |only spEDM-1.9/spEDM/vignettes/PkgIntro.Rmd |only spEDM-1.9/spEDM/vignettes/PkgIntro.Rmd.orig |only spEDM-1.9/spEDM/vignettes/SCPCM.Rmd.orig |only spEDM-1.9/spEDM/vignettes/SCT.Rmd |only spEDM-1.9/spEDM/vignettes/SCT.Rmd.orig |only spEDM-1.9/spEDM/vignettes/SLM.Rmd |only spEDM-1.9/spEDM/vignettes/SLM.Rmd.orig |only spEDM-1.9/spEDM/vignettes/SSR.Rmd |only spEDM-1.9/spEDM/vignettes/SSR.Rmd.orig |only 140 files changed, 664 insertions(+), 910 deletions(-)
Title: Fast and Efficient Processing of PAM Data
Description: Processing Chlorophyll Fluorescence & P700 Absorbance data. Four models are provided for the regression of Pi curves, which can be compared with each other in order to select the most suitable model for the data set. Control plots ensure the successful verification of each regression. Bundled output of alpha, ETRmax, Ik etc. enables fast and reliable further processing of the data.
Author: Julien Boehm [cre, aut] ,
Philipp Schrag [aut]
Maintainer: Julien Boehm <julien.boehm@uni-rostock.de>
Diff between pam versions 1.0.6 dated 2025-08-27 and 2.0.0 dated 2026-02-01
pam-1.0.6/pam/tests/testthat/data_junior_pam |only pam-1.0.6/pam/tests/testthat/results |only pam-2.0.0/pam/DESCRIPTION | 12 pam-2.0.0/pam/MD5 | 124 +- pam-2.0.0/pam/NAMESPACE | 1 pam-2.0.0/pam/R/combo_plot_control.R | 40 pam-2.0.0/pam/R/compare_regression_models.R | 46 pam-2.0.0/pam/R/constants.R | 10 pam-2.0.0/pam/R/eilers_peeters.R | 59 - pam-2.0.0/pam/R/platt.R | 61 - pam-2.0.0/pam/R/read_pam_data.R | 584 ++++++---- pam-2.0.0/pam/R/util.R | 115 + pam-2.0.0/pam/R/validation.R | 108 + pam-2.0.0/pam/R/vollenweider.R | 65 - pam-2.0.0/pam/R/walsby.R | 61 - pam-2.0.0/pam/build/partial.rdb |binary pam-2.0.0/pam/inst/CITATION | 16 pam-2.0.0/pam/inst/extdata/universal_data |only pam-2.0.0/pam/man/combo_plot_control.Rd | 27 pam-2.0.0/pam/man/compare_regression_models_ETR_I.Rd | 6 pam-2.0.0/pam/man/compare_regression_models_ETR_II.Rd | 6 pam-2.0.0/pam/man/eilers_peeters_generate_regression_ETR_I.Rd | 6 pam-2.0.0/pam/man/eilers_peeters_generate_regression_ETR_II.Rd | 6 pam-2.0.0/pam/man/eilers_peeters_modified.Rd | 6 pam-2.0.0/pam/man/platt_generate_regression_ETR_I.Rd | 6 pam-2.0.0/pam/man/platt_generate_regression_ETR_II.Rd | 6 pam-2.0.0/pam/man/platt_modified.Rd | 6 pam-2.0.0/pam/man/plot_control.Rd | 4 pam-2.0.0/pam/man/read_dual_pam_data.Rd | 11 pam-2.0.0/pam/man/read_junior_pam_data.Rd | 103 - pam-2.0.0/pam/man/read_universal_data.Rd |only pam-2.0.0/pam/man/vollenweider_generate_regression_ETR_I.Rd | 6 pam-2.0.0/pam/man/vollenweider_generate_regression_ETR_II.Rd | 6 pam-2.0.0/pam/man/vollenweider_modified.Rd | 6 pam-2.0.0/pam/man/walsby_generate_regression_ETR_I.Rd | 6 pam-2.0.0/pam/man/walsby_generate_regression_ETR_II.Rd | 6 pam-2.0.0/pam/man/walsby_modified.Rd | 6 pam-2.0.0/pam/man/write_model_result_csv.Rd | 4 pam-2.0.0/pam/tests/testthat/Rplots.pdf |binary pam-2.0.0/pam/tests/testthat/data/20260130_01_efeutute_dual_pam_only_ps_1.csv |only pam-2.0.0/pam/tests/testthat/data/20260130_efeutute_dual_pam_only_ps_2.csv |only pam-2.0.0/pam/tests/testthat/data/bulk/20231123_07.csv | 6 pam-2.0.0/pam/tests/testthat/data/bulk/20231214_09.csv | 6 pam-2.0.0/pam/tests/testthat/data/bulk/20231214_10.csv | 6 pam-2.0.0/pam/tests/testthat/data/bulk/20231214_13.csv | 6 pam-2.0.0/pam/tests/testthat/data/junior_pam_20250613.csv |only pam-2.0.0/pam/tests/testthat/data/universal_data.csv |only pam-2.0.0/pam/tests/testthat/test-combo_plot_control_etr_I.R | 4 pam-2.0.0/pam/tests/testthat/test-combo_plot_control_etr_II.R | 2 pam-2.0.0/pam/tests/testthat/test-compare_regression_models_etr_I.R | 16 pam-2.0.0/pam/tests/testthat/test-compare_regression_models_etr_II.R | 20 pam-2.0.0/pam/tests/testthat/test-compare_regression_models_total.R | 24 pam-2.0.0/pam/tests/testthat/test-eilers_peeters_etr_I.R | 76 - pam-2.0.0/pam/tests/testthat/test-eilers_peeters_etr_II.R | 73 - pam-2.0.0/pam/tests/testthat/test-eilers_peeters_etr_II_junior_pam.R | 39 pam-2.0.0/pam/tests/testthat/test-get_etr_data_for_par_values.R |only pam-2.0.0/pam/tests/testthat/test-platt_etr_I.R | 105 - pam-2.0.0/pam/tests/testthat/test-platt_etr_II.R | 122 +- pam-2.0.0/pam/tests/testthat/test-read_dual_pam_data.R |only pam-2.0.0/pam/tests/testthat/test-read_junior_pam_data.R |only pam-2.0.0/pam/tests/testthat/test-read_universal_data.R |only pam-2.0.0/pam/tests/testthat/test-relative_root_mean_squared_error.R |only pam-2.0.0/pam/tests/testthat/test-root_mean_squared_error.R |only pam-2.0.0/pam/tests/testthat/test-universal_data_etr_I.R |only pam-2.0.0/pam/tests/testthat/test-vollenweider_etr_I.R | 98 - pam-2.0.0/pam/tests/testthat/test-vollenweider_etr_II.R | 102 - pam-2.0.0/pam/tests/testthat/test-walsby_etr_I.R | 83 - pam-2.0.0/pam/tests/testthat/test-walsby_etr_II.R | 94 - pam-2.0.0/pam/tests/testthat/test-write_model_result_csv.R | 98 + 69 files changed, 1449 insertions(+), 1066 deletions(-)
Title: Calculating Ontological Similarities
Description: Calculate similarity between ontological terms and sets of ontological terms based on term information content and assess statistical significance of similarity in the context of a collection of terms sets - Greene et al. 2017 <doi:10.1093/bioinformatics/btw763>.
Author: Daniel Greene [aut, cre]
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Diff between ontologySimilarity versions 2.7 dated 2024-03-29 and 2.9 dated 2026-02-01
DESCRIPTION | 13 MD5 | 26 - R/group-sim.R | 6 build/vignette.rds |binary data/GO_IC.RData |binary data/gene_GO_terms.RData |binary inst/doc/ontologySimilarity-GO-example.html | 233 ++++++++------- inst/doc/ontologySimilarity-examples.html | 390 +++++++++++++++----------- inst/doc/ontologySimilarity-introduction.html | 230 ++++++++------- man/group_term_enrichment.Rd | 5 src/Interface.cpp | 6 src/Sampling.cpp | 2 src/TermSetSimData.cpp | 2 src/TermSetSimData.h | 2 14 files changed, 526 insertions(+), 389 deletions(-)
More information about ontologySimilarity at CRAN
Permanent link
Title: Bayesian Vector Heterogeneous Autoregressive Modeling
Description: Tools to model and forecast multivariate time series
including Bayesian Vector heterogeneous autoregressive (VHAR) model
by Kim & Baek (2023) (<doi:10.1080/00949655.2023.2281644>).
'bvhar' can model Vector Autoregressive (VAR), VHAR, Bayesian VAR (BVAR), and Bayesian VHAR (BVHAR) models.
Author: Young Geun Kim [aut, cre, cph] ,
Changryong Baek [ctb]
Maintainer: Young Geun Kim <ygeunkimstat@gmail.com>
Diff between bvhar versions 2.3.0 dated 2025-06-25 and 2.4.0 dated 2026-02-01
bvhar-2.3.0/bvhar/inst/doc/forecasting.R |only bvhar-2.3.0/bvhar/inst/doc/forecasting.Rmd |only bvhar-2.3.0/bvhar/inst/doc/forecasting.html |only bvhar-2.3.0/bvhar/inst/include/bvhar/deprecated_triangular |only bvhar-2.3.0/bvhar/inst/include/bvhar/src/bayes/misc/deprecated |only bvhar-2.3.0/bvhar/inst/include/bvhar/src/bayes/triangular/deprecated |only bvhar-2.3.0/bvhar/vignettes/forecasting.Rmd |only bvhar-2.4.0/bvhar/DESCRIPTION | 15 bvhar-2.4.0/bvhar/LICENSE |only bvhar-2.4.0/bvhar/MD5 | 210 +- bvhar-2.4.0/bvhar/NAMESPACE | 1 bvhar-2.4.0/bvhar/NEWS.md | 51 bvhar-2.4.0/bvhar/R/RcppExports.R | 233 -- bvhar-2.4.0/bvhar/R/bvar-minnesota.R | 121 - bvhar-2.4.0/bvhar/R/bvhar-minnesota.R | 192 + bvhar-2.4.0/bvhar/R/forecast.R | 117 + bvhar-2.4.0/bvhar/R/generate-process.R | 28 bvhar-2.4.0/bvhar/R/hyperparam.R | 20 bvhar-2.4.0/bvhar/R/misc-r.R | 116 - bvhar-2.4.0/bvhar/R/summary-forecast.R | 256 ++ bvhar-2.4.0/bvhar/R/tuning.R | 21 bvhar-2.4.0/bvhar/R/var-bayes.R | 198 +- bvhar-2.4.0/bvhar/R/vhar-bayes.R | 196 + bvhar-2.4.0/bvhar/R/zzz.R | 2 bvhar-2.4.0/bvhar/README.md | 173 - bvhar-2.4.0/bvhar/build/partial.rdb |binary bvhar-2.4.0/bvhar/build/vignette.rds |binary bvhar-2.4.0/bvhar/inst/doc/bvhar.html | 136 - bvhar-2.4.0/bvhar/inst/doc/minnesota.html | 142 - bvhar-2.4.0/bvhar/inst/doc/shrinkage.html | 148 - bvhar-2.4.0/bvhar/inst/doc/stochastic-volatility.html | 129 - bvhar-2.4.0/bvhar/inst/include/bvhar/forecast | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/ols | 1 bvhar-2.4.0/bvhar/inst/include/bvhar/spillover | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/bayes.h | 71 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/dfm |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/forecaster.h | 171 + bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/coef_helper.h | 6 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/dl_helper.h | 18 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/draw.h | 3 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/factor_helper.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/gdp_helper.h | 12 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/helper.h | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/hs_helper.h | 14 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/minn_helper.h | 8 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/ng_helper.h | 16 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/ssvs_helper.h | 12 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/misc/sv_helper.h | 8 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/mniw/config.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/mniw/forecaster.h | 12 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/mniw/minnesota.h | 358 +-- bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/mniw/spillover.h | 6 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/mniw/tuning.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/shrinkage/config.h | 138 - bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/shrinkage/shrinkage.h | 56 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/config.h | 296 +-- bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/forecaster.h | 986 ++++++---- bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/regforecaster.h | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/regspillover.h | 4 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/spillover.h | 112 - bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/svforecaster.h | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/svspillover.h | 4 bvhar-2.4.0/bvhar/inst/include/bvhar/src/bayes/triangular/triangular.h | 243 +- bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/common.h | 52 bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/commondefs.h | 100 - bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/eigen.h | 4 bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/forecaster.h | 51 bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/interrupt.h | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/lbfgspp.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/progress.h | 228 +- bvhar-2.4.0/bvhar/inst/include/bvhar/src/core/spdlog.h | 31 bvhar-2.4.0/bvhar/inst/include/bvhar/src/math/design.h | 2 bvhar-2.4.0/bvhar/inst/include/bvhar/src/math/optim.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/math/random.h | 255 +- bvhar-2.4.0/bvhar/inst/include/bvhar/src/math/structural.h | 14 bvhar-2.4.0/bvhar/inst/include/bvhar/src/ols/forecaster.h | 154 + bvhar-2.4.0/bvhar/inst/include/bvhar/src/ols/ols.h | 34 bvhar-2.4.0/bvhar/inst/include/bvhar/src/ols/simulator.h |only bvhar-2.4.0/bvhar/inst/include/bvhar/src/ols/spillover.h | 42 bvhar-2.4.0/bvhar/inst/include/bvhar/utils | 1 bvhar-2.4.0/bvhar/man/bound_bvhar.Rd | 2 bvhar-2.4.0/bvhar/man/bvar_minnesota.Rd | 9 bvhar-2.4.0/bvhar/man/bvhar-package.Rd | 2 bvhar-2.4.0/bvhar/man/bvhar_minnesota.Rd | 9 bvhar-2.4.0/bvhar/man/choose_bayes.Rd | 2 bvhar-2.4.0/bvhar/man/choose_bvar.Rd | 2 bvhar-2.4.0/bvhar/man/figures/logo.png |binary bvhar-2.4.0/bvhar/man/forecast_expand.Rd | 5 bvhar-2.4.0/bvhar/man/forecast_roll.Rd | 5 bvhar-2.4.0/bvhar/man/set_factor.Rd |only bvhar-2.4.0/bvhar/man/var_bayes.Rd | 8 bvhar-2.4.0/bvhar/man/vhar_bayes.Rd | 6 bvhar-2.4.0/bvhar/src/Makevars | 4 bvhar-2.4.0/bvhar/src/Makevars.ucrt | 2 bvhar-2.4.0/bvhar/src/Makevars.win | 4 bvhar-2.4.0/bvhar/src/RcppExports.cpp | 477 ++-- bvhar-2.4.0/bvhar/src/mniw.cpp | 287 +- bvhar-2.4.0/bvhar/src/ols.cpp | 116 - bvhar-2.4.0/bvhar/src/triangular.cpp | 982 +++++++-- bvhar-2.4.0/bvhar/src/utils.cpp | 356 --- bvhar-2.4.0/bvhar/tests/testthat/test-bvar-minnesota.R | 10 bvhar-2.4.0/bvhar/tests/testthat/test-bvhar-minnesota.R | 20 bvhar-2.4.0/bvhar/tests/testthat/test-criteria.R | 18 bvhar-2.4.0/bvhar/tests/testthat/test-forecast.R | 94 bvhar-2.4.0/bvhar/tests/testthat/test-generate-process.R | 108 + bvhar-2.4.0/bvhar/tests/testthat/test-summary-forecast.R | 32 bvhar-2.4.0/bvhar/tests/testthat/test-var-bayes.R | 40 bvhar-2.4.0/bvhar/tests/testthat/test-vhar-bayes.R | 30 bvhar-2.4.0/bvhar/vignettes/forecasting.R |only bvhar-2.4.0/bvhar/vignettes/forecasting.html |only 110 files changed, 5414 insertions(+), 3256 deletions(-)
Title: Better Statistics for OLS and Binomial Logistic Regression
Description: Provides squared semi partial correlations, tolerance, Mahalanobis, Likelihood Ratio Chi Square, and Pseudo R Square. Aberson, C. L. (2022) <doi:10.31234/osf.io/s2yqn>.
Author: Chris Aberson [aut, cre]
Maintainer: Chris Aberson <chris.aberson@gmail.com>
Diff between BetterReg versions 0.2.0 dated 2022-03-30 and 0.3.0 dated 2026-02-01
DESCRIPTION | 16 - MD5 | 18 - R/data.R | 38 +++ R/depbcomp.R | 61 ++-- R/indbcomp.R | 655 ++++++++++++++++++++++++++--------------------------- README.md | 82 ++++++ data/sample1.RData |only data/sample2.RData |only man/depbcomp.Rd | 2 man/indbcomp.Rd | 9 man/sample1.Rd |only man/sample2.Rd |only 12 files changed, 494 insertions(+), 387 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-22 1.0
Title: Additional Predictor with Maximum Effect Size
Description: Methods of selecting one from many numeric predictors
for a regression model, to ensure that the additional
predictor has the maximum effect size.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between maxEff versions 0.2.1 dated 2026-01-24 and 0.2.2 dated 2026-02-01
DESCRIPTION | 17 +++++++---------- MD5 | 6 +++--- inst/doc/intro.html | 12 ++++++------ man/maxEff-package.Rd | 6 +----- 4 files changed, 17 insertions(+), 24 deletions(-)
Title: Simulated Grouped Hyper Data Frame
Description: An intuitive interface to simulate (1) superimposed (marked) point patterns with vectorized parameterization of random point pattern and distribution of marks; and (2) grouped hyper data frame based on population parameters and subject-specific random effects.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between groupedHyperframe.random versions 0.2.1 dated 2026-01-24 and 0.2.2 dated 2026-02-01
DESCRIPTION | 17 +++++++---------- MD5 | 6 +++--- inst/doc/intro.html | 12 ++++++------ man/groupedHyperframe.random-package.Rd | 6 +----- 4 files changed, 17 insertions(+), 24 deletions(-)
More information about groupedHyperframe.random at CRAN
Permanent link
Title: Grouped Hyper Data Frame
Description: An S3 class 'groupedHyperframe' that inherits from hyper data frame. Batch processes and aggregation of hyper column(s) over a nested grouping structure.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between groupedHyperframe versions 0.3.3 dated 2026-01-21 and 0.3.4 dated 2026-02-01
DESCRIPTION | 17 +--- MD5 | 26 ++++--- NAMESPACE | 14 +++ R/interpolation.fv.R | 54 ++++++++++++++- R/kerndens.R | 5 + R/ksmooth.fv.R |only R/quantile.R | 5 + R/smooth.spline.fv.R |only R/vectorlist.R | 4 + R/vtrapz.R | 139 ++++++++++++++++++++++++++++++++++++--- inst/doc/intro.html | 12 +-- man/groupedHyperframe-package.Rd | 5 - man/interpolation_fv.Rd | 14 +++ man/ksmooth.fv.Rd |only man/smooth.spline.fv.Rd |only man/visualize_vtrapz.Rd | 14 +++ 16 files changed, 258 insertions(+), 51 deletions(-)
More information about groupedHyperframe at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-30 1.3.5
2020-04-01 1.3.4.1
2019-10-28 1.3.4
2019-09-09 1.3.3
2019-04-08 1.3.2
2019-03-11 1.3.1
2019-02-22 1.3.0
2015-09-16 1.2.7
2014-02-28 1.2.6
2013-12-07 1.2.5
2012-08-16 1.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-09 0.2.0
2023-07-05 0.1.2
2019-04-26 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-12 1.1.0
2023-10-19 1.0.0
2023-10-19 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-05-30 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-03 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-11 1.0.1
2021-02-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-07 0.1.2.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-21 1.0.4
2024-03-12 1.0.3
2024-01-12 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-10 1.14.4
2024-03-19 1.14.3
2023-08-07 1.14.2
2022-08-25 1.14.1
2022-08-17 1.14
2020-11-17 1.13
2020-10-21 1.12
2019-10-15 1.11
2019-04-12 1.10
2019-03-26 1.9
2019-02-16 1.8.1
2018-08-13 1.7.0
2018-05-16 1.5.0
2018-04-06 0.1.4.2
2018-03-13 0.1.3.2
2018-02-07 0.1.3.0
2018-02-07 0.1.3.1
2018-01-12 0.1.2.0
2017-12-01 0.0.1-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-05-18 1.1
2025-04-07 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-21 0.4.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-01-09 4.1
2021-01-13 4.0
2020-05-24 3.0
2016-11-06 2.5
2015-07-16 2.2
2014-08-21 2.1.1
2014-01-31 2.0
2013-05-24 1.0
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 3000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlatio [...truncated...]
Author: Adrian Baddeley [aut, cre] ,
Rolf Turner [aut] ,
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 3.5-0 dated 2025-12-01 and 3.5-1 dated 2026-02-01
DESCRIPTION | 16 +- MD5 | 42 +++---- NEWS | 9 + demo/spatstat.R | 8 - inst/doc/NAobjects.pdf |binary inst/doc/bugfixes.pdf |binary inst/doc/datasets.R | 152 +++++++++++++------------- inst/doc/datasets.Rnw | 42 ++++--- inst/doc/datasets.pdf |binary inst/doc/fv.pdf |binary inst/doc/getstart.pdf |binary inst/doc/packagesizes.txt | 1 inst/doc/replicated.pdf |binary inst/doc/shapefiles.pdf |binary inst/doc/updates.R | 25 +++- inst/doc/updates.Rnw | 254 +++++++++++++++++++++++++++++++++++++++++---- inst/doc/updates.pdf |binary inst/info/packagesizes.txt | 1 man/macros/defns.Rd | 2 man/spatstat-package.Rd | 240 ++++++++++++++++++++++++++++++++++++------ vignettes/datasets.Rnw | 42 ++++--- vignettes/updates.Rnw | 254 +++++++++++++++++++++++++++++++++++++++++---- 22 files changed, 856 insertions(+), 232 deletions(-)
Title: De-Identified Data from CTN-0094
Description: These are harmonized datasets produced as part of the Clinical
Trials Network (CTN) protocol number 0094. This is a US National Institute
of Drug Abuse (NIDA) funded project; to learn more go to
<https://ctnlibrary.org/protocol/ctn0094/>. These are datasets which have
the data harmonized from CTN-0027 (<https://ctnlibrary.org/protocol/ctn0027/>),
CTN-0030 (<https://ctnlibrary.org/protocol/ctn0030/>), and CTN-0051
(<https://ctnlibrary.org/protocol/ctn0051/>).
Author: Raymond Balise [aut, cre] ,
Gabriel Odom [aut] ,
Anna Calderon [aut] ,
Kyle Grealis [aut] ,
Michael Ackerman [aut]
Maintainer: Raymond Balise <balise@miami.edu>
Diff between public.ctn0094data versions 1.0.6 dated 2023-10-01 and 1.1.0 dated 2026-02-01
DESCRIPTION | 33 +++-- MD5 | 74 +++++------ NEWS.md | 18 ++ R/psychiatric.R | 4 build/partial.rdb |only build/vignette.rds |binary data/all_drugs.rda |binary data/asi.rda |binary data/demographics.rda |binary data/detox.rda |binary data/everybody.rda |binary data/fagerstrom.rda |binary data/first_survey.rda |binary data/meta_study_length.rda |binary data/meta_substance_groups_uds.rda |binary data/pain.rda |binary data/psychiatric.rda |binary data/qol.rda |binary data/randomization.rda |binary data/rbs.rda |binary data/rbs_iv.rda |binary data/screening_date.rda |binary data/sex.rda |binary data/site_masked.rda |binary data/tlfb.rda |binary data/treatment.rda |binary data/uds.rda |binary data/uds_temp.rda |binary data/visit.rda |binary data/withdrawal.rda |binary data/withdrawal_pre_post.rda |binary inst/add_ctn_labels.R |only inst/doc/final.html | 235 +++++++++++-------------------------- inst/doc/harmonization.R | 2 inst/doc/harmonization.Rmd | 40 +++--- inst/doc/harmonization.html | 175 ++++++++++++++------------- man/psychiatric.Rd | 4 man/site_masked.Rd | 4 vignettes/harmonization.Rmd | 40 +++--- 39 files changed, 282 insertions(+), 347 deletions(-)
More information about public.ctn0094data at CRAN
Permanent link
Title: Interface to the 'nanoarrow' 'C' Library
Description: Provides an 'R' interface to the 'nanoarrow' 'C' library and the
'Apache Arrow' application binary interface. Functions to import and
export 'ArrowArray', 'ArrowSchema', and 'ArrowArrayStream' 'C' structures
to and from 'R' objects are provided alongside helpers to facilitate zero-copy
data transfer among 'R' bindings to libraries implementing the 'Arrow' 'C'
data interface.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between nanoarrow versions 0.7.0-2 dated 2025-12-04 and 0.7.0-3 dated 2026-02-01
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- man/convert_array.Rd | 2 +- man/infer_nanoarrow_ptype.Rd | 2 +- man/na_vctrs.Rd | 2 +- src/altrep.h | 4 ++++ src/buffer.c | 2 +- src/flatcc/portable/flatcc_portable.h |only src/materialize.c | 5 +++++ 9 files changed, 25 insertions(+), 15 deletions(-)
Title: Conformal Time Series Forecasting Using State of Art Machine
Learning Algorithms
Description: Conformal time series forecasting using the caret infrastructure.
It provides access to state-of-the-art machine learning models for forecasting
applications. The hyperparameter of each model is selected based on time
series cross-validation, and forecasting is done recursively.
Author: Resul Akay [aut, cre]
Maintainer: Resul Akay <resul.akay@taf-society.org>
Diff between caretForecast versions 0.1.2 dated 2026-01-30 and 0.1.3 dated 2026-02-01
DESCRIPTION | 16 - MD5 | 29 +- NEWS.md | 22 + R/arml.R | 17 - R/utils.R | 10 README.md | 18 + man/figures/README-example6-2.png |binary man/figures/logo.png |only man/get_var_imp.Rd | 2 tests/testthat/test-ARml.R | 395 +++++++++++++++++++++++++++++++++++ tests/testthat/test-calibration.R |only tests/testthat/test-conformal_pred.R | 271 ++++++++++++++++++++++++ tests/testthat/test-forecast.ARml.R | 117 ++++++++++ tests/testthat/test-get_var_imp.R | 42 +++ tests/testthat/test-short_series.R | 47 ++++ tests/testthat/test-split_ts.R | 81 +++++++ tests/testthat/test-utils.R |only 17 files changed, 1018 insertions(+), 49 deletions(-)