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(-)