Title: R Commander Plug-in for the EZR (Easy R) Package
Description: EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN: 978-4-498-10918-6, Nankodo, ISBN: 978-4-524-21861-5, Ohmsha, ISBN: 978-4-274-22632-8), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below. This report has been cited in more than 14,000 scientific articles.
Author: Yoshinobu Kanda [aut, cre]
Maintainer: Yoshinobu Kanda <ycanda-tky@umin.ac.jp>
Diff between RcmdrPlugin.EZR versions 1.68 dated 2024-06-25 and 1.70 dated 2025-12-07
RcmdrPlugin.EZR-1.68/RcmdrPlugin.EZR/inst/etc/menus.txt.262 |only RcmdrPlugin.EZR-1.68/RcmdrPlugin.EZR/inst/etc/menus_old.txt |only RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/DESCRIPTION | 15 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/MD5 | 25 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/NEWS | 6 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/R/EZR.R | 171 ++++- RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/inst/CHANGES | 6 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/inst/doc/EZR.htm | 315 ++++------ RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/inst/doc/EZR.pdf |binary RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/inst/etc/menus.txt | 1 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/inst/po/ja/LC_MESSAGES/R-RcmdrPlugin.EZR.mo |binary RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/man/EZR.Rd | 9 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/man/EZR.dialogs.Rd | 1 RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/po/R-RcmdrPlugin.EZR.mo |only RcmdrPlugin.EZR-1.70/RcmdrPlugin.EZR/po/R-RcmdrPlugin.EZR.po | 11 15 files changed, 358 insertions(+), 202 deletions(-)
More information about RcmdrPlugin.EZR at CRAN
Permanent link
Title: Retrieve and Analyze Clinical Trials Data from Public Registers
Description: A system for querying, retrieving and analyzing
protocol- and results-related information on clinical trials from
four public registers, the 'European Union Clinical Trials Register'
('EUCTR', <https://www.clinicaltrialsregister.eu/>),
'ClinicalTrials.gov' (<https://clinicaltrials.gov/> and also
translating queries the retired classic interface), the
'ISRCTN' (<http://www.isrctn.com/>) and the
'European Union Clinical Trials Information System'
('CTIS', <https://euclinicaltrials.eu/>).
Trial information is downloaded, converted and stored in a database
('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi').
Protocols, statistical analysis plans, informed consent sheets and other
documents in registers associated with trials can also be downloaded.
Other functions implement trial concepts canonically across registers,
identify deduplicated records, easily find and extract variables
(fields) of interest even from complex nested data as used by the
re [...truncated...]
Author: Ralf Herold [aut, cre] ,
Marek Kubica [cph] ,
Ivan Bozhanov [cph]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.25.0 dated 2025-08-26 and 1.25.1 dated 2025-12-07
DESCRIPTION | 16 ++- MD5 | 55 ++++++------- NAMESPACE | 4 NEWS.md | 12 ++ R/ctrLoadQueryIntoDbCtgov2.R | 26 ++++-- R/ctrLoadQueryIntoDbCtis.R | 40 ++++++++- R/ctrLoadQueryIntoDbIsrctn.R | 8 - R/ctrdata-registers.R | 38 ++++----- R/ctrdata-trial-concepts.R | 2 R/dbFindIdsUniqueTrials.R | 3 R/dfTrials2Long.R | 4 R/f_isUniqueTrial.R | 1 R/util_functions.R | 4 README.md | 76 ++++++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION |only inst/WORDLIST | 4 inst/doc/ctrdata_install.R | 3 inst/doc/ctrdata_install.Rmd | 16 +++ inst/doc/ctrdata_install.html | 32 +++++-- inst/js/euctr2ndjson.js | 5 - inst/tinytest/ctrdata_ctgov2.R | 10 ++ inst/tinytest/test_ctrdata_function_activesubstance.R | 2 man/ctrdata-package.Rd | 2 man/ctrdata-registers.Rd | 35 ++++---- man/ctrdata-trial-concepts.Rd | 2 man/f.isUniqueTrial.Rd | 1 vignettes/ctrdata_install.Rmd | 16 +++ 29 files changed, 270 insertions(+), 147 deletions(-)
Title: Bayesian Penalized Quantile Regression
Description: Bayesian regularized quantile regression utilizing two major classes of shrinkage priors
(the spike-and-slab priors and the horseshoe family of priors) leads to efficient Bayesian
shrinkage estimation, variable selection and valid statistical inference. In this package,
we have implemented robust Bayesian variable selection with spike-and-slab priors under
high-dimensional linear regression models (Fan et al. (2024) <doi:10.3390/e26090794> and
Ren et al. (2023) <doi:10.1111/biom.13670>), and regularized quantile varying
coefficient models (Zhou et al.(2023) <doi:10.1016/j.csda.2023.107808>). In particular,
valid robust Bayesian inferences under both models in the presence of heavy-tailed errors
can be validated on finite samples. Additional models with spike-and-slab priors include
robust Bayesian group LASSO and robust binary Bayesian LASSO (Fan and Wu (2025)
<doi:10.1002/sta4.70078>). Besides, robust sparse Bayesian regression with the horseshoe
family of (hor [...truncated...]
Author: Kun Fan [aut],
Cen Wu [aut, cre],
Jie Ren [aut],
Xiaoxi Li [aut],
Fei Zhou [aut]
Maintainer: Cen Wu <wucen@ksu.edu>
Diff between pqrBayes versions 1.1.4 dated 2025-07-25 and 1.2.0 dated 2025-12-07
pqrBayes-1.1.4/pqrBayes/R/NonRobust.R |only pqrBayes-1.2.0/pqrBayes/DESCRIPTION | 27 - pqrBayes-1.2.0/pqrBayes/MD5 | 77 +-- pqrBayes-1.2.0/pqrBayes/NEWS.md | 8 pqrBayes-1.2.0/pqrBayes/R/NonRobust_vc.R | 11 pqrBayes-1.2.0/pqrBayes/R/RcppExports.R | 24 + pqrBayes-1.2.0/pqrBayes/R/Robust_vc.R | 11 pqrBayes-1.2.0/pqrBayes/R/coverage.R | 10 pqrBayes-1.2.0/pqrBayes/R/estimation.R | 10 pqrBayes-1.2.0/pqrBayes/R/nonrobust_bin.R | 10 pqrBayes-1.2.0/pqrBayes/R/nonrobust_g.R | 11 pqrBayes-1.2.0/pqrBayes/R/nonrobust_lin.R | 29 + pqrBayes-1.2.0/pqrBayes/R/pqrBayes-package.R | 21 - pqrBayes-1.2.0/pqrBayes/R/pqrBayes.R | 90 +--- pqrBayes-1.2.0/pqrBayes/R/pqrBayes_bin.R | 6 pqrBayes-1.2.0/pqrBayes/R/pqrBayes_g.R | 6 pqrBayes-1.2.0/pqrBayes/R/pqrBayes_lin.R | 6 pqrBayes-1.2.0/pqrBayes/R/pqrBayes_vc.R | 10 pqrBayes-1.2.0/pqrBayes/R/predict.pqrBayes.R | 14 pqrBayes-1.2.0/pqrBayes/R/robust_bin.R | 11 pqrBayes-1.2.0/pqrBayes/R/robust_g.R | 11 pqrBayes-1.2.0/pqrBayes/R/robust_lin.R | 30 + pqrBayes-1.2.0/pqrBayes/R/select.pqrBayes.R | 40 - pqrBayes-1.2.0/pqrBayes/R/select_lin.R | 10 pqrBayes-1.2.0/pqrBayes/R/select_vc.R | 12 pqrBayes-1.2.0/pqrBayes/README.md | 297 +++++++++++--- pqrBayes-1.2.0/pqrBayes/man/coverage.Rd | 74 +-- pqrBayes-1.2.0/pqrBayes/man/data.Rd | 154 +++---- pqrBayes-1.2.0/pqrBayes/man/estimation.pqrBayes.Rd | 80 +-- pqrBayes-1.2.0/pqrBayes/man/pqrBayes-package.Rd | 133 +++--- pqrBayes-1.2.0/pqrBayes/man/pqrBayes.Rd | 394 +++++++++---------- pqrBayes-1.2.0/pqrBayes/man/predict_pqrBayes.Rd | 100 ++-- pqrBayes-1.2.0/pqrBayes/man/print.pqrBayes.Rd | 48 +- pqrBayes-1.2.0/pqrBayes/man/print.pqrBayes.pred.Rd | 48 +- pqrBayes-1.2.0/pqrBayes/man/print.pqrBayes.select.Rd | 48 +- pqrBayes-1.2.0/pqrBayes/man/select.pqrBayes.Rd | 148 +++---- pqrBayes-1.2.0/pqrBayes/src/RcppExports.cpp | 175 ++++++++ pqrBayes-1.2.0/pqrBayes/src/Rhorseshoe+.cpp |only pqrBayes-1.2.0/pqrBayes/src/Rhorseshoe.cpp |only pqrBayes-1.2.0/pqrBayes/src/Rhorseshoe_reg.cpp |only pqrBayes-1.2.0/pqrBayes/src/horseshoe+.cpp |only pqrBayes-1.2.0/pqrBayes/src/horseshoe.cpp |only pqrBayes-1.2.0/pqrBayes/src/horseshoe_reg.cpp |only 43 files changed, 1320 insertions(+), 874 deletions(-)
Title: Simultaneous Confidence Intervals for Ranks
Description: Algorithms to construct simultaneous confidence intervals for
the ranks of means mu_1,...,mu_n based on an independent Gaussian sample
using multiple testing techniques.
Author: Diaa Al Mohamad [aut, cre],
Erik W. van Zwet [aut],
Jelle J. Goeman [aut]
Maintainer: Diaa Al Mohamad <diaa.almohamad@gmail.com>
Diff between ICRanks versions 3.1 dated 2019-06-21 and 3.2 dated 2025-12-07
DESCRIPTION | 34 +++++++++++++++++++++++++--------- MD5 | 6 +++--- R/ic.ranks.R | 16 ++++++++-------- man/ic.ranks.Rd | 36 ++++++++++++++++++++---------------- 4 files changed, 56 insertions(+), 36 deletions(-)
Title: Kumaraswamy Complementary Weibull Geometric (Kw-CWG) Probability
Distribution
Description: Density, distribution function, quantile function
and random generation for the Kumaraswamy Complementary Weibull
Geometric (Kw-CWG) lifetime probability distribution proposed
in Afify, A.Z. et al (2017) <doi:10.1214/16-BJPS322>.
Author: Matheus H. J. Saldanha [aut, cre],
Adriano K. Suzuki [aut]
Maintainer: Matheus H. J. Saldanha <mhjsaldanha@gmail.com>
Diff between elfDistr versions 1.0.0 dated 2019-10-07 and 1.0.1 dated 2025-12-07
elfDistr-1.0.0/elfDistr/man/elfDistr.Rd |only elfDistr-1.0.1/elfDistr/DESCRIPTION | 10 -- elfDistr-1.0.1/elfDistr/MD5 | 17 ++-- elfDistr-1.0.1/elfDistr/NEWS.md |only elfDistr-1.0.1/elfDistr/R/elfDistr-package.R | 5 - elfDistr-1.0.1/elfDistr/man/Kw-CWG.Rd | 1 elfDistr-1.0.1/elfDistr/man/elfDistr-package.Rd |only elfDistr-1.0.1/elfDistr/src/Makevars | 5 - elfDistr-1.0.1/elfDistr/src/RcppExports.cpp | 5 + elfDistr-1.0.1/elfDistr/src/kwcwg-distribution.cpp | 82 ++++++++++++-------- elfDistr-1.0.1/elfDistr/tests/testthat/test_kwcwg.R | 53 +++++------- 11 files changed, 97 insertions(+), 81 deletions(-)
Title: Export Data from 'R' to 'DataGraph'
Description: Functions to pipe data from 'R' to 'DataGraph', a graphing and analysis application for mac OS. Create a live connection using either '.dtable' or '.dtbin' files that can be read by 'DataGraph'. Can save a data frame, collection of data frames and sequences of data frames and individual vectors. For more information see <https://community.visualdatatools.com/datagraph/knowledge-base/r-package/>.
Author: David Adalsteinsson [aut, cre]
Maintainer: David Adalsteinsson <david@visualdatatools.com>
Diff between DataGraph versions 1.2.14 dated 2023-03-02 and 1.2.15 dated 2025-12-07
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/Driver.cpp | 5 +++-- 3 files changed, 9 insertions(+), 8 deletions(-)
Title: Multivariate Conditional Volatility Modelling and Forecasting
Description: Methods and tools for estimating, simulating and forecasting of so-called BEKK-models (named after Baba, Engle, Kraft and Kroner) based on the fast Berndt–Hall–Hall–Hausman (BHHH) algorithm described in Hafner and Herwartz (2008) <doi:10.1007/s00184-007-0130-y>. For an overview, we refer the reader to Fülle et al. (2024) <doi:10.18637/jss.v111.i04>.
Author: Markus J. Fuelle [aut, cre],
Alexander Lange [aut],
Christian M. Hafner [aut],
Helmut Herwartz [aut]
Maintainer: Markus J. Fuelle <markus.fuelle@gmail.com>
Diff between BEKKs versions 1.4.5 dated 2024-11-25 and 1.4.6 dated 2025-12-07
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NAMESPACE | 4 +++- R/BEKKs.R | 2 -- R/backtest.R | 9 ++++----- R/bekk_functions.R | 4 ++-- R/bekk_mc_eval.R | 3 ++- R/summary.backtest.R | 20 ++++++++++---------- build/stage23.rdb |binary man/BEKKs.Rd | 3 --- 10 files changed, 35 insertions(+), 38 deletions(-)
Title: Multiple Imputation Through 'XGBoost'
Description: Multiple imputation using 'XGBoost', subsampling, and predictive mean
matching as described in Deng and Lumley (2023)
<doi:10.1080/10618600.2023.2252501>. The package supports various types of
variables, offers flexible settings, and enables saving an imputation model to impute
new data. Data processing and memory usage have been optimised to speed up
the imputation process.
Author: Yongshi Deng [aut, cre] ,
Thomas Lumley [ths]
Maintainer: Yongshi Deng <agnes.yongshideng@gmail.com>
Diff between mixgb versions 1.5.3 dated 2025-04-06 and 2.0.3 dated 2025-12-07
mixgb-1.5.3/mixgb/R/mixgb_boot.R |only mixgb-1.5.3/mixgb/R/mixgb_boot_xgb_save.R |only mixgb-1.5.3/mixgb/R/mixgb_bootsave.R |only mixgb-2.0.3/mixgb/DESCRIPTION | 17 - mixgb-2.0.3/mixgb/MD5 | 44 +-- mixgb-2.0.3/mixgb/NEWS.md | 37 +++ mixgb-2.0.3/mixgb/R/impute_each.R |only mixgb-2.0.3/mixgb/R/mixgb.R | 2 mixgb-2.0.3/mixgb/R/mixgb_cv.R | 30 +- mixgb-2.0.3/mixgb/R/mixgb_load_use.R | 2 mixgb-2.0.3/mixgb/R/mixgb_null.R | 278 ++--------------------- mixgb-2.0.3/mixgb/R/mixgb_save.R | 122 ++++++---- mixgb-2.0.3/mixgb/R/mixgb_use.R | 2 mixgb-2.0.3/mixgb/R/mixgb_xgb_save.R | 119 +++++---- mixgb-2.0.3/mixgb/R/save_yhatobs.R | 121 ++++++---- mixgb-2.0.3/mixgb/build/partial.rdb |binary mixgb-2.0.3/mixgb/build/vignette.rds |binary mixgb-2.0.3/mixgb/inst/doc/Imputing-newdata.R | 24 - mixgb-2.0.3/mixgb/inst/doc/Imputing-newdata.html | 9 mixgb-2.0.3/mixgb/inst/doc/Using-mixgb.R | 38 +-- mixgb-2.0.3/mixgb/inst/doc/Using-mixgb.Rmd | 5 mixgb-2.0.3/mixgb/inst/doc/Using-mixgb.html | 91 ++++--- mixgb-2.0.3/mixgb/man/default_params.Rd | 2 mixgb-2.0.3/mixgb/src/Makevars | 2 mixgb-2.0.3/mixgb/vignettes/Using-mixgb.Rmd | 5 25 files changed, 435 insertions(+), 515 deletions(-)
Title: Seamless R and C++ Integration
Description: The 'Rcpp' package provides R functions as well as C++ classes which
offer a seamless integration of R and C++. Many R data types and objects can be
mapped back and forth to C++ equivalents which facilitates both writing of new
code as well as easier integration of third-party libraries. Documentation
about 'Rcpp' is provided by several vignettes included in this package, via the
'Rcpp Gallery' site at <https://gallery.rcpp.org>, the paper by Eddelbuettel and
Francois (2011, <doi:10.18637/jss.v040.i08>), the book by Eddelbuettel (2013,
<doi:10.1007/978-1-4614-6868-4>) and the paper by Eddelbuettel and Balamuta (2018,
<doi:10.1080/00031305.2017.1375990>); see 'citation("Rcpp")' for details.
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
JJ Allaire [aut] ,
Kevin Ushey [aut] ,
Qiang Kou [aut] ,
Nathan Russell [aut],
Inaki Ucar [aut] ,
Doug Bates [aut] ,
John Chambers [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rcpp versions 1.1.0 dated 2025-07-02 and 1.1.0.8 dated 2025-12-07
Rcpp-1.1.0.8/Rcpp/ChangeLog | 116 +++++++++++++++ Rcpp-1.1.0.8/Rcpp/DESCRIPTION | 9 - Rcpp-1.1.0.8/Rcpp/MD5 | 123 +++++++--------- Rcpp-1.1.0.8/Rcpp/NAMESPACE | 4 Rcpp-1.1.0.8/Rcpp/R/Attributes.R | 70 ++++++++- Rcpp-1.1.0.8/Rcpp/R/RcppLdpath.R | 6 Rcpp-1.1.0.8/Rcpp/R/asis.R |only Rcpp-1.1.0.8/Rcpp/R/zzz.R | 9 - Rcpp-1.1.0.8/Rcpp/build/partial.rdb |binary Rcpp-1.1.0.8/Rcpp/build/vignette.rds |binary Rcpp-1.1.0.8/Rcpp/inst/NEWS.Rd | 38 ++++ Rcpp-1.1.0.8/Rcpp/inst/bib/Rcpp.bib | 15 + Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-FAQ.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-FAQ.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-attributes.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-attributes.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-extending.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-extending.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-introduction.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-introduction.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-jss-2011.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-jss-2011.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-libraries.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-libraries.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-modules.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-modules.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-package.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-package.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-quickref.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-quickref.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-sugar.pdf |binary Rcpp-1.1.0.8/Rcpp/inst/doc/Rcpp-sugar.pdf.asis |only Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/config.h | 4 Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/exceptions_impl.h | 29 +-- Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/hash/IndexHash.h | 22 +- Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/hash/SelfHash.h | 28 ++- Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/internal/wrap.h | 2 Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/r/check_r_headers.h |only Rcpp-1.1.0.8/Rcpp/inst/include/Rcpp/r/headers.h | 2 Rcpp-1.1.0.8/Rcpp/inst/include/RcppCommon.h | 5 Rcpp-1.1.0.8/Rcpp/inst/skeleton/zzz.R | 13 - Rcpp-1.1.0.8/Rcpp/inst/tinytest/testRcppModule/R/zzz.R | 9 - Rcpp-1.1.0.8/Rcpp/inst/tinytest/test_sugar.R | 5 Rcpp-1.1.0.8/Rcpp/man/Rcpp-deprecated.Rd | 3 Rcpp-1.1.0.8/Rcpp/man/asisWeave.Rd |only Rcpp-1.1.0.8/Rcpp/man/loadModule.Rd | 3 Rcpp-1.1.0.8/Rcpp/src/api.cpp | 1 Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-FAQ.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-attributes.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-extending.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-introduction.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-jss-2011.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-libraries.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-modules.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-package.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-quickref.pdf.asis |only Rcpp-1.1.0.8/Rcpp/vignettes/Rcpp-sugar.pdf.asis |only Rcpp-1.1.0/Rcpp/R/compilerCheck.R |only Rcpp-1.1.0/Rcpp/R/loadRcppModules.R |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-FAQ.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-attributes.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-extending.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-introduction.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-jss-2011.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-libraries.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-modules.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-package.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-quickref.Rnw |only Rcpp-1.1.0/Rcpp/inst/doc/Rcpp-sugar.Rnw |only Rcpp-1.1.0/Rcpp/man/compilerCheck.Rd |only Rcpp-1.1.0/Rcpp/man/loadRcppModules-deprecated.Rd |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-FAQ.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-attributes.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-extending.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-introduction.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-jss-2011.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-libraries.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-modules.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-package.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-quickref.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/Rcpp-sugar.Rnw |only Rcpp-1.1.0/Rcpp/vignettes/pdf |only 82 files changed, 364 insertions(+), 152 deletions(-)
Title: 'NoSQL' Database Connector
Description: Simplified JSON document database access and manipulation,
providing a common API across supported 'NoSQL' databases
'Elasticsearch', 'CouchDB', 'MongoDB' as well as
'SQLite/JSON1', 'PostgreSQL', and 'DuckDB'.
Author: Ralf Herold [aut, cre] ,
Scott Chamberlain [aut] ,
Rich FitzJohn [aut],
Jeroen Ooms [aut],
Ivan Tarbakou [cph]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between nodbi versions 0.13.1 dated 2025-06-26 and 0.14.0 dated 2025-12-07
DESCRIPTION | 11 +++-- MD5 | 28 +++++++------- NEWS.md | 8 ++++ R/query.R | 85 +++++++++++++++---------------------------- R/src_couchdb.R | 2 - R/src_duckdb.R | 2 - R/src_elastic.R | 2 - R/src_mongo.R | 2 - R/src_postgres.R | 3 + R/src_sqlite.R | 4 +- R/update.R | 6 ++- R/zzz.R | 5 +- inst/doc/nodbi-overview.html | 2 - tests/testthat/core-nodbi.R | 27 ++++++++++--- tests/testthat/helper.R | 10 +++++ 15 files changed, 108 insertions(+), 89 deletions(-)
Title: Convert and Impute Dates to ISO Standard ("International
Organization for Standardization")
Description: Provides functions to convert and impute date values to the ISO 8601
standard format. The package automatically recognizes date patterns within a
data frame and transforms them into consistent ISO-formatted dates. It also
supports imputing missing month or day components in partial date strings
using user-defined rules. Only one date format can be applied within a single
data frame column.
Author: Lukasz Andrzejewski [aut, cre]
Maintainer: Lukasz Andrzejewski <lukasz.coding@gmail.com>
Diff between datetoiso versions 1.1.1 dated 2025-11-18 and 1.2.0 dated 2025-12-07
DESCRIPTION | 8 +- MD5 | 20 +++-- NAMESPACE | 4 - NEWS.md | 110 +++++++++++++++------------ R/impute_date.R | 20 +---- R/reconcile.R |only man/compare_rows_with_same_index.Rd |only man/get_same_class.Rd |only man/impute_date.Rd | 144 ++++++++++++++++++------------------ man/impute_date_dmy.Rd | 134 ++++++++++++++++----------------- man/impute_date_ymd.Rd | 134 ++++++++++++++++----------------- man/reconcile.Rd |only man/reconcile_without_index.Rd |only tests/testthat/test-reconcile.R |only 14 files changed, 287 insertions(+), 287 deletions(-)
Title: Analyzing Censored Factor Models
Description: Provides generation and estimation of censored factor models for high-dimensional data with censored errors (normal, t, logistic). Includes Sparse Orthogonal Principal Components (SOPC), and evaluation metrics. Based on Guo G. (2023) <doi:10.1007/s00180-022-01270-z>.
Author: Guangbao Guo [aut, cre],
Tong Meng [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between CFM versions 0.7.0 dated 2025-11-13 and 0.8.0 dated 2025-12-07
DESCRIPTION | 6 +++--- MD5 | 11 ++++++++++- R/Aids2.R |only R/bcdata.R |only R/data_yoghurt.R |only data |only man/Aids2.Rd |only man/bcdata.Rd |only man/yoghurt.Rd |only 9 files changed, 13 insertions(+), 4 deletions(-)
Title: WOFOST Crop Growth Simulation Model
Description: An implementation of the WOFOST ("World Food Studies") crop growth model. WOFOST is a dynamic simulation model that uses daily weather data, and crop, soil and management parameters to simulate crop growth and development. See De Wit et al. (2019) <doi:10.1016/j.agsy.2018.06.018> for a recent review of the history and use of the model.
Author: Robert J. Hijmans [cre, aut],
Huang Fang [ctb],
C.A. van Diepen [ctb],
Allard de Wit [ctb],
Daniel van Kraalingen [ctb],
Tamme van der Wal [ctb],
C. Rappoldt [ctb],
Hendrik Boogard [ctb],
I.G.A.M. Noy [ctb],
Alterra, Wageningen-UR [cph]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between Rwofost versions 0.8-6 dated 2025-12-04 and 0.8-7 dated 2025-12-07
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- build/partial.rdb |binary src/wofost.cpp | 15 ++++++++++----- 4 files changed, 17 insertions(+), 12 deletions(-)
Title: Spectral Modularity Clustering
Description: Implements the network clustering algorithm described in
Newman (2006) <doi:10.1103/PhysRevE.74.036104>. The complete
iterative algorithm comprises of two steps. In the first step, the
network is expressed in terms of its leading eigenvalue and
eigenvector and recursively partition into two communities.
Partitioning occurs if the maximum positive
eigenvalue is greater than the tolerance (10e-5) for the current
partition, and if it results in a positive contribution to the
Modularity.
Given an initial separation using the leading eigen step, 'rSpectral'
then continues to maximise for the change in Modularity using a
fine-tuning step - or variate thereof. The first stage here is to
find the node which, when moved from one community to another,
gives the maximum change in Modularity. This node’s community is
then fixed and we repeat the process until all nodes have been moved.
The whole process is repeated from this new state until the change
in the Modularity, between the new and o [...truncated...]
Author: Colin Mclean [aut] ,
Anatoly Sorokin [aut, cre]
Maintainer: Anatoly Sorokin <lptolik@gmail.com>
This is a re-admission after prior archival of version 1.0.0.10 dated 2023-01-18
Diff between rSpectral versions 1.0.0.10 dated 2023-01-18 and 1.0.0.14 dated 2025-12-07
DESCRIPTION | 8 +++--- MD5 | 26 +++++++++++----------- R/igraph.R | 2 - R/rSpectral-package.R | 2 - README.md | 6 +++++ build/partial.rdb |binary inst/CITATION | 19 ++++++++-------- man/figures/README-karate.example-1.png |binary man/figures/README-plot.rspec.default-1.png |binary man/figures/README-plot.rspec.fixneig-1.png |binary man/figures/README-plot.rspec.fixneig.cnmin-1.png |binary man/rSpectral.Rd | 4 +-- man/spectral_igraph_communities.Rd | 2 - src/Makevars | 1 14 files changed, 38 insertions(+), 32 deletions(-)
Title: Reduced-Rank Regression
Description: Multivariate regression methodologies including
classical reduced-rank regression (RRR)
studied by Anderson (1951) <doi:10.1214/aoms/1177729580> and
Reinsel and Velu (1998) <doi:10.1007/978-1-4757-2853-8>,
reduced-rank regression via adaptive nuclear norm penalization
proposed by Chen et al. (2013) <doi:10.1093/biomet/ast036> and
Mukherjee et al. (2015) <doi:10.1093/biomet/asx080>,
robust reduced-rank regression (R4) proposed by
She and Chen (2017) <doi:10.1093/biomet/asx032>,
generalized/mixed-response reduced-rank regression (mRRR) proposed by
Luo et al. (2018) <doi:10.1016/j.jmva.2018.04.011>,
row-sparse reduced-rank regression (SRRR) proposed by
Chen and Huang (2012) <doi:10.1080/01621459.2012.734178>,
reduced-rank regression with a sparse singular value decomposition (RSSVD)
proposed by Chen et al. (2012) <doi:10.1111/j.1467-9868.2011.01002.x>
and sparse and orthogonal factor regression (SOFAR) proposed by
Uematsu et al. (2019) <d [...truncated...]
Author: Kun Chen [aut, cre] ,
Wenjie Wang [aut] ,
Jun Yan [ctb]
Maintainer: Kun Chen <kun.chen@uconn.edu>
Diff between rrpack versions 0.1-13 dated 2022-06-16 and 0.1-14 dated 2025-12-07
DESCRIPTION | 14 +++++++------- MD5 | 8 ++++---- R/mrrr.R | 16 ++++++++-------- man/mrrr.Rd | 16 ++++++++-------- src/Makevars | 1 - 5 files changed, 27 insertions(+), 28 deletions(-)
Title: Radiocarbon Calibration Curves
Description: The IntCal20 radiocarbon calibration curves (Reimer et al. 2020 <doi:10.1017/RDC.2020.68>) are provided as a data package, together with previous IntCal curves (IntCal13, IntCal09, IntCal04, IntCal98), other curves (e.g., NOTCal04 [van der Plicht et al. 2004], Arnold & Libby 1951, Stuiver & Suess 1966, Pearson & Stuiver 1986) and postbomb curves. Also provided are functions to copy the curves into memory, and to read, query and plot the data underlying the IntCal20 curves.
Author: Maarten Blaauw [aut, cre] ,
Christopher Bronk Ramsey [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rintcal versions 1.3.0 dated 2025-07-09 and 1.3.1 dated 2025-12-07
rintcal-1.3.0/rintcal/inst/extdata/Arnold_Libby_1951.txt |only rintcal-1.3.1/rintcal/DESCRIPTION | 10 rintcal-1.3.1/rintcal/MD5 | 30 +- rintcal-1.3.1/rintcal/NEWS.md | 4 rintcal-1.3.1/rintcal/R/data.R | 27 +- rintcal-1.3.1/rintcal/R/rintcal.R | 77 ++++--- rintcal-1.3.1/rintcal/build/partial.rdb |binary rintcal-1.3.1/rintcal/build/vignette.rds |binary rintcal-1.3.1/rintcal/inst/doc/rintcal.R | 18 - rintcal-1.3.1/rintcal/inst/doc/rintcal.Rmd | 48 ++-- rintcal-1.3.1/rintcal/inst/doc/rintcal.html | 128 ++++++------ rintcal-1.3.1/rintcal/inst/extdata/Arnold_Libby_1951.14C |only rintcal-1.3.1/rintcal/inst/extdata/Pearson_Stuiver_1986.14C |only rintcal-1.3.1/rintcal/inst/extdata/Stuiver_Suess_1966.14C |only rintcal-1.3.1/rintcal/man/ccurve.Rd | 15 + rintcal-1.3.1/rintcal/man/glue.ccurves.Rd | 4 rintcal-1.3.1/rintcal/man/intcal.data.Rd | 5 rintcal-1.3.1/rintcal/vignettes/rintcal.Rmd | 48 ++-- 18 files changed, 230 insertions(+), 184 deletions(-)
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
Olivier Roy [ctb],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 1.21 dated 2025-10-31 and 1.22 dated 2025-12-07
openxlsx2-1.21/openxlsx2/R/onUnload.R |only openxlsx2-1.21/openxlsx2/man/figures/tableoptions.pdf |only openxlsx2-1.21/openxlsx2/man/figures/tableoptions.png |only openxlsx2-1.22/openxlsx2/DESCRIPTION | 11 openxlsx2-1.22/openxlsx2/MD5 | 214 +-- openxlsx2-1.22/openxlsx2/NAMESPACE | 2 openxlsx2-1.22/openxlsx2/NEWS.md | 41 openxlsx2-1.22/openxlsx2/R/RcppExports.R | 12 openxlsx2-1.22/openxlsx2/R/class-comment.R | 109 + openxlsx2-1.22/openxlsx2/R/class-workbook-utils.R | 3 openxlsx2-1.22/openxlsx2/R/class-workbook-wrappers.R | 164 +- openxlsx2-1.22/openxlsx2/R/class-workbook.R | 110 - openxlsx2-1.22/openxlsx2/R/converters.R | 22 openxlsx2-1.22/openxlsx2/R/dates.R | 13 openxlsx2-1.22/openxlsx2/R/deprecate.R | 103 - openxlsx2-1.22/openxlsx2/R/get-named-regions.R | 2 openxlsx2-1.22/openxlsx2/R/helper-functions.R | 8 openxlsx2-1.22/openxlsx2/R/openxlsx2-package.R | 10 openxlsx2-1.22/openxlsx2/R/read.R | 89 - openxlsx2-1.22/openxlsx2/R/utils.R | 144 ++ openxlsx2-1.22/openxlsx2/R/wb_functions.R | 109 + openxlsx2-1.22/openxlsx2/R/wb_load.R | 13 openxlsx2-1.22/openxlsx2/R/wb_styles.R | 10 openxlsx2-1.22/openxlsx2/R/write.R | 22 openxlsx2-1.22/openxlsx2/R/xl_open.R | 115 +- openxlsx2-1.22/openxlsx2/R/zzz.R |only openxlsx2-1.22/openxlsx2/build/vignette.rds |binary openxlsx2-1.22/openxlsx2/inst/WORDLIST | 2 openxlsx2-1.22/openxlsx2/inst/doc/Update-from-openxlsx.R | 2 openxlsx2-1.22/openxlsx2/inst/doc/Update-from-openxlsx.Rmd | 2 openxlsx2-1.22/openxlsx2/inst/doc/Update-from-openxlsx.html | 2 openxlsx2-1.22/openxlsx2/inst/doc/conditional-formatting.Rmd | 2 openxlsx2-1.22/openxlsx2/inst/doc/conditional-formatting.html | 2 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2.Rmd | 2 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2.html | 6 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_read_to_df.R | 2 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_read_to_df.Rmd | 4 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_read_to_df.html | 6 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_style_manual.R | 4 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_style_manual.Rmd | 4 openxlsx2-1.22/openxlsx2/inst/doc/openxlsx2_style_manual.html | 4 openxlsx2-1.22/openxlsx2/man/col2int.Rd | 5 openxlsx2-1.22/openxlsx2/man/col_widths-wb.Rd | 2 openxlsx2-1.22/openxlsx2/man/convertToExcelDate.Rd | 2 openxlsx2-1.22/openxlsx2/man/convert_date.Rd | 8 openxlsx2-1.22/openxlsx2/man/create_hyperlink.Rd | 6 openxlsx2-1.22/openxlsx2/man/delete_data.Rd | 2 openxlsx2-1.22/openxlsx2/man/dims_to_dataframe.Rd | 4 openxlsx2-1.22/openxlsx2/man/filter-wb.Rd | 2 openxlsx2-1.22/openxlsx2/man/int2col.Rd | 5 openxlsx2-1.22/openxlsx2/man/named_region-wb.Rd | 2 openxlsx2-1.22/openxlsx2/man/openxlsx2-package.Rd | 4 openxlsx2-1.22/openxlsx2/man/openxlsx2_options.Rd | 3 openxlsx2-1.22/openxlsx2/man/row_heights-wb.Rd | 5 openxlsx2-1.22/openxlsx2/man/wbWorkbook.Rd | 15 openxlsx2-1.22/openxlsx2/man/wb_add_conditional_formatting.Rd | 2 openxlsx2-1.22/openxlsx2/man/wb_add_data.Rd | 3 openxlsx2-1.22/openxlsx2/man/wb_add_data_table.Rd | 12 openxlsx2-1.22/openxlsx2/man/wb_add_data_validation.Rd | 2 openxlsx2-1.22/openxlsx2/man/wb_add_page_break.Rd | 2 openxlsx2-1.22/openxlsx2/man/wb_get_tables.Rd | 4 openxlsx2-1.22/openxlsx2/man/wb_open.Rd | 6 openxlsx2-1.22/openxlsx2/man/wb_remove_tables.Rd | 2 openxlsx2-1.22/openxlsx2/man/wb_save.Rd | 31 openxlsx2-1.22/openxlsx2/man/wb_to_df.Rd | 13 openxlsx2-1.22/openxlsx2/man/wb_workbook.Rd | 18 openxlsx2-1.22/openxlsx2/man/write_data.Rd | 2 openxlsx2-1.22/openxlsx2/man/write_datatable.Rd | 14 openxlsx2-1.22/openxlsx2/man/write_formula.Rd | 4 openxlsx2-1.22/openxlsx2/man/xl_open.Rd | 3 openxlsx2-1.22/openxlsx2/src/RcppExports.cpp | 36 openxlsx2-1.22/openxlsx2/src/date.cpp | 14 openxlsx2-1.22/openxlsx2/src/helper_functions.cpp | 406 ++++--- openxlsx2-1.22/openxlsx2/src/load_workbook.cpp | 49 openxlsx2-1.22/openxlsx2/src/openxlsx2.h | 250 +--- openxlsx2-1.22/openxlsx2/src/pugi.cpp | 50 openxlsx2-1.22/openxlsx2/src/styles_xml.cpp | 27 openxlsx2-1.22/openxlsx2/src/write_file.cpp | 41 openxlsx2-1.22/openxlsx2/src/xlsb.cpp | 26 openxlsx2-1.22/openxlsx2/src/xlsb_flags.h | 574 ++++------ openxlsx2-1.22/openxlsx2/src/xlsb_funs.h | 42 openxlsx2-1.22/openxlsx2/tests/testthat/helper.R | 28 openxlsx2-1.22/openxlsx2/tests/testthat/test-Workbook_properties.R | 1 openxlsx2-1.22/openxlsx2/tests/testthat/test-class-comment.R | 77 - openxlsx2-1.22/openxlsx2/tests/testthat/test-class-workbook-wrappers.R | 28 openxlsx2-1.22/openxlsx2/tests/testthat/test-class-workbook.R | 39 openxlsx2-1.22/openxlsx2/tests/testthat/test-conditional_formatting.R | 3 openxlsx2-1.22/openxlsx2/tests/testthat/test-date_time_conversion.R | 4 openxlsx2-1.22/openxlsx2/tests/testthat/test-deleting_tables.R | 3 openxlsx2-1.22/openxlsx2/tests/testthat/test-formulas.R | 2 openxlsx2-1.22/openxlsx2/tests/testthat/test-loading_workbook.R | 89 + openxlsx2-1.22/openxlsx2/tests/testthat/test-named_regions.R | 11 openxlsx2-1.22/openxlsx2/tests/testthat/test-names.R | 1 openxlsx2-1.22/openxlsx2/tests/testthat/test-outlines.R | 28 openxlsx2-1.22/openxlsx2/tests/testthat/test-protect-workbook.R | 1 openxlsx2-1.22/openxlsx2/tests/testthat/test-read_from_created_wb.R | 82 + openxlsx2-1.22/openxlsx2/tests/testthat/test-read_sources.R | 8 openxlsx2-1.22/openxlsx2/tests/testthat/test-read_write_logicals.R | 3 openxlsx2-1.22/openxlsx2/tests/testthat/test-read_xlsx_random_seed.R | 8 openxlsx2-1.22/openxlsx2/tests/testthat/test-remove_worksheets.R | 11 openxlsx2-1.22/openxlsx2/tests/testthat/test-save.R | 8 openxlsx2-1.22/openxlsx2/tests/testthat/test-styles_xml.R | 23 openxlsx2-1.22/openxlsx2/tests/testthat/test-wb_functions.R | 10 openxlsx2-1.22/openxlsx2/tests/testthat/test-write.R | 6 openxlsx2-1.22/openxlsx2/tests/testthat/test-writing_posixct.R | 3 openxlsx2-1.22/openxlsx2/vignettes/Update-from-openxlsx.Rmd | 2 openxlsx2-1.22/openxlsx2/vignettes/conditional-formatting.Rmd | 2 openxlsx2-1.22/openxlsx2/vignettes/openxlsx2.Rmd | 2 openxlsx2-1.22/openxlsx2/vignettes/openxlsx2_read_to_df.Rmd | 4 openxlsx2-1.22/openxlsx2/vignettes/openxlsx2_style_manual.Rmd | 4 110 files changed, 2085 insertions(+), 1474 deletions(-)
Title: Negative Binomial Mixed Models Using Large-Sample Approximation
for Differential Expression Analysis of ScRNA-Seq Data
Description: A fast negative binomial mixed model for conducting association analysis of multi-subject single-cell data. It can be used for identifying marker genes, differential expression and co-expression analyses. The model includes subject-level random effects to account for the hierarchical structure in multi-subject single-cell data. See He et al. (2021) <doi:10.1038/s42003-021-02146-6>.
Author: Liang He [aut, cre],
Raghav Sharma [ctb]
Maintainer: Liang He <hyx520101@gmail.com>
Diff between nebula versions 1.5.3 dated 2024-02-15 and 1.5.6 dated 2025-12-07
DESCRIPTION | 8 +- MD5 | 20 +++--- R/nebula.R | 39 +++++++++--- R/utils.R | 29 +++++---- README.md | 116 +++++++++++++++++++++--------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/nebula_example.Rmd | 8 +- inst/doc/nebula_example.html | 136 +++++++++++++++++++++---------------------- man/nebula.Rd | 2 vignettes/nebula_example.Rmd | 8 +- 11 files changed, 206 insertions(+), 160 deletions(-)
Title: Generate Isolines and Isobands from Regularly Spaced Elevation
Grids
Description: A fast C++ implementation to generate contour lines
(isolines) and contour polygons (isobands) from regularly spaced grids
containing elevation data.
Author: Hadley Wickham [aut] ,
Claus O. Wilke [aut] ,
Thomas Lin Pedersen [aut, cre] ,
Posit, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between isoband versions 0.2.7 dated 2022-12-20 and 0.3.0 dated 2025-12-07
isoband-0.2.7/isoband/R/isoband.R |only isoband-0.2.7/isoband/src/init.cpp |only isoband-0.2.7/isoband/src/utils.h |only isoband-0.3.0/isoband/DESCRIPTION | 38 isoband-0.3.0/isoband/LICENSE | 4 isoband-0.3.0/isoband/MD5 | 89 isoband-0.3.0/isoband/NAMESPACE | 1 isoband-0.3.0/isoband/NEWS.md | 11 isoband-0.3.0/isoband/R/clip-lines.R | 20 isoband-0.3.0/isoband/R/cpp11.R |only isoband-0.3.0/isoband/R/iso-to-sfg.R | 16 isoband-0.3.0/isoband/R/isoband-package.R |only isoband-0.3.0/isoband/R/isobands-grob.R | 28 isoband-0.3.0/isoband/R/isobands.R | 36 isoband-0.3.0/isoband/R/isolines-grob.R | 126 isoband-0.3.0/isoband/R/label-placer.R | 74 isoband-0.3.0/isoband/R/plot-iso.R | 64 isoband-0.3.0/isoband/R/utilities.R | 9 isoband-0.3.0/isoband/README.md | 4 isoband-0.3.0/isoband/build/vignette.rds |binary isoband-0.3.0/isoband/inst/doc/isoband1.R | 4 isoband-0.3.0/isoband/inst/doc/isoband1.Rmd | 6 isoband-0.3.0/isoband/inst/doc/isoband1.html | 216 - isoband-0.3.0/isoband/inst/doc/isoband3.R | 2 isoband-0.3.0/isoband/inst/doc/isoband3.Rmd | 4 isoband-0.3.0/isoband/inst/doc/isoband3.html | 211 - isoband-0.3.0/isoband/man/figures/README-basic-example-plot-1.png |binary isoband-0.3.0/isoband/man/figures/README-volcano-1.png |binary isoband-0.3.0/isoband/man/isoband-package.Rd | 14 isoband-0.3.0/isoband/src/Makevars | 1 isoband-0.3.0/isoband/src/Makevars.win | 1 isoband-0.3.0/isoband/src/clip-lines.cpp | 92 isoband-0.3.0/isoband/src/clip-lines.h | 12 isoband-0.3.0/isoband/src/cpp11.cpp |only isoband-0.3.0/isoband/src/isoband.cpp | 191 - isoband-0.3.0/isoband/src/polygon.h | 6 isoband-0.3.0/isoband/src/separate-polygons.cpp | 69 isoband-0.3.0/isoband/src/separate-polygons.h | 5 isoband-0.3.0/isoband/tests/testthat.R | 8 isoband-0.3.0/isoband/tests/testthat/_snaps |only isoband-0.3.0/isoband/tests/testthat/test-clip-lines.R | 92 isoband-0.3.0/isoband/tests/testthat/test-iso-to-sfg.R | 250 + isoband-0.3.0/isoband/tests/testthat/test-isobands.R | 1503 ++++++++-- isoband-0.3.0/isoband/tests/testthat/test-isolines-grob.R | 61 isoband-0.3.0/isoband/tests/testthat/test-isolines.R | 207 + isoband-0.3.0/isoband/tests/testthat/test-label-placer.R | 39 isoband-0.3.0/isoband/vignettes/isoband1.Rmd | 6 isoband-0.3.0/isoband/vignettes/isoband3.Rmd | 4 48 files changed, 2543 insertions(+), 981 deletions(-)
Title: Visualizing Hypothesis Tests in Multivariate Linear Models
Description: Provides HE plot and other functions for visualizing hypothesis
tests in multivariate linear models. HE plots represent sums-of-squares-and-products
matrices for linear hypotheses and for error using ellipses (in two
dimensions) and ellipsoids (in three dimensions). It also provides other tools for analysis and graphical display of the models
such as robust methods and homogeneity of variance covariance matrices.
The related 'candisc' package provides visualizations in a reduced-rank canonical discriminant space when
there are more than a few response variables.
Author: Michael Friendly [aut, cre] ,
John Fox [aut] ,
Georges Monette [aut] ,
Phil Chalmers [ctb] ,
Duncan Murdoch [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between heplots versions 1.7.8 dated 2025-08-18 and 1.8.1 dated 2025-12-07
DESCRIPTION | 18 MD5 | 270 ++-- NAMESPACE | 5 NEWS.md | 27 R/Ellipsoid.R | 16 R/Mahalanobis.R | 15 R/arrow3d.R | 7 R/bartlettTests.R | 13 R/bbox3d.R | 7 R/boxM.R | 453 +++++--- R/coefplot.mlm.R | 18 R/colDevs.R | 14 R/covEllipses.R | 110 + R/cqplot.R | 56 - R/cross3d.R | 3 R/datasets.R | 896 ++++++++-------- R/distancePlot.R | 29 R/ellipse.axes.R | 32 R/ellipse.box.R | 14 R/ellipse3d.axes.R | 13 R/etasq.R | 26 R/glance.mlm.R | 19 R/gsorth.R | 22 R/heplot.R | 293 ++--- R/heplot1d.R | 99 - R/heplot3d.R | 128 +- R/heplots-package.R | 49 R/interpPlot.R | 18 R/label.ellipse.R | 214 ++- R/leveneTests.R | 25 R/logdetCI.R | 22 R/mark.H0.R | 8 R/noteworthy.R | 32 R/pairs.mlm.R | 37 R/plot.boxM.R | 63 - R/plot.robmlm.R | 59 - R/rel_diff.R | 8 R/robmlm.R | 45 R/schoolsites.R | 24 R/statList.R | 26 R/termMeans.R | 6 R/text_usr.R |only R/trans.colors.R | 4 R/uniStats.R | 4 inst/CITATION | 2 inst/doc/HE_manova.html | 27 inst/doc/HE_mmra.html | 25 inst/doc/Robust.html | 11 inst/doc/datasets.R | 29 inst/doc/datasets.Rmd | 48 inst/doc/datasets.html | 1323 +++++++++++++++++++----- man/AddHealth.Rd | 17 man/Adopted.Rd | 20 man/Bees.Rd | 22 man/Diabetes.Rd | 18 man/Ellipsoid.Rd | 6 man/FootHead.Rd | 16 man/Headache.Rd | 32 man/Hernior.Rd | 30 man/Iwasaki_Big_Five.Rd | 30 man/Mahalanobis.Rd | 14 man/MockJury.Rd | 38 man/NLSY.Rd | 18 man/NeuroCog.Rd | 30 man/Oslo.Rd | 50 man/Overdose.Rd | 148 +- man/Parenting.Rd | 12 man/Plastic.Rd | 12 man/Pottery2.Rd | 44 man/Probe.Rd | 32 man/RatWeight.Rd | 16 man/ReactTime.Rd | 18 man/Rohwer.Rd | 41 man/RootStock.Rd | 12 man/Sake.Rd | 22 man/Skulls.Rd | 28 man/SocGrades.Rd | 24 man/SocialCog.Rd | 16 man/TIPI.Rd | 57 - man/VocabGrowth.Rd | 12 man/WeightLoss.Rd | 16 man/arrow3d.Rd | 9 man/bartlettTests.Rd | 8 man/bbox3d.Rd | 13 man/boxM.Rd | 147 +- man/coefplot.Rd | 9 man/colDevs.Rd | 4 man/covEllipses.Rd | 45 man/cqplot.Rd | 27 man/cross3d.Rd | 9 man/distancePlot.Rd | 250 ++-- man/dogfood.Rd | 18 man/ellipse.axes.Rd | 6 man/ellipse.box.Rd | 141 +- man/ellipse3d.axes.Rd | 17 man/etasq.Rd | 27 man/figures/README-iris4-1.png |binary man/glance.mlm.Rd | 19 man/heplot.Rd | 65 - man/heplot1d.Rd | 41 man/heplot3d.Rd | 38 man/heplots-package.Rd | 31 man/interpPlot.Rd | 6 man/label.ellipse.Rd | 137 +- man/leveneTests.Rd | 16 man/logdetCI.Rd | 11 man/mathscore.Rd | 10 man/noteworthy.Rd | 180 +-- man/oral.Rd | 18 man/pairs.mlm.Rd | 18 man/peng.Rd | 172 +-- man/plot.boxM.Rd | 18 man/plot.robmlm.Rd | 37 man/robmlm.Rd | 30 man/schooldata.Rd | 27 man/schoolsites.Rd | 108 - man/statList.Rd | 8 man/termMeans.Rd | 8 man/text_usr.Rd |only man/trans.colors.Rd | 2 man/uniStats.Rd | 4 vignettes/datasets.Rmd | 48 vignettes/fig/manova-addhealth-means-each-1.png |binary vignettes/fig/manova-addhealth-means-plot-1.png |binary vignettes/fig/manova-jury-mod1-pairs-1.png |binary vignettes/fig/manova-plastic1-1.png |binary vignettes/fig/manova-plastic1a-1.png |binary vignettes/fig/manova-plastic2-1.png |binary vignettes/fig/manova-skulls-HE-pairs-1.png |binary vignettes/fig/mmra-grades-pairs-1.png |binary vignettes/fig/mmra-hern-pairs-1.png |binary vignettes/fig/mmra-rohwer-HE1-1.png |binary vignettes/fig/mmra-rohwer-HE2-1.png |binary vignettes/fig/mmra-rohwer-HE2-2.png |binary vignettes/fig/mmra-rohwer-HE3-1.png |binary vignettes/fig/mmra-rohwer-long-ggplot-1.png |binary vignettes/fig/robust-pottery-pairs-1.png |binary 137 files changed, 4429 insertions(+), 2916 deletions(-)
Title: Rmetrics - Markets and Basic Statistics
Description: Provides a collection of functions to
explore and to investigate basic properties of financial returns
and related quantities.
The covered fields include techniques of explorative data analysis
and the investigation of distributional properties, including
parameter estimation and hypothesis testing. Even more there are
several utility functions for data handling and management.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Martin Maechler [ctb] ,
CRAN Team [ctb],
Georgi N. Boshnakov [cre, aut]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between fBasics versions 4041.97 dated 2024-08-19 and 4052.98 dated 2025-12-07
DESCRIPTION | 17 ++++-- MD5 | 46 +++++++++--------- NEWS.md | 17 ++++++ data/Capitalization.rda |binary data/DowJones30.csv.gz |binary data/HedgeFund.rda |binary data/PensionFund.csv.gz |binary data/SWXLP.csv.gz |binary data/cars2.csv.gz |binary data/msft.dat.rda |binary data/nyse.csv.gz |binary data/swissEconomy.rda |binary data/usdthb.csv.gz |binary inst/pkgdown.yml | 4 - man/plot-acfPlot.Rd | 105 +++++++++++++++++++++++++++---------------- man/plot-boxPlot.Rd | 40 ++++++++++++---- man/plot-histPlot.Rd | 31 +++++++++++- man/plot-qqPlot.Rd | 88 +++++++++++++++++++++++++----------- man/plot-returnSeriesGUI.Rd | 47 ++++++++++++++----- man/plot-scalinglawPlot.Rd | 62 ++++++++++++++++--------- man/plot-seriesPlot.Rd | 57 +++++++++++++++-------- man/stableSlider.Rd | 30 +++++++++++- man/utils-interactivePlot.Rd | 43 ++++++++++++++--- src/nig.c | 14 +---- 24 files changed, 420 insertions(+), 181 deletions(-)
Title: "Risk Model Regression and Analysis with Complex Non-Linear
Models"
Description: Performs survival analysis using general non-linear models. Risk models can be the sum or product of terms. Each term is the product of exponential/linear functions of covariates. Additionally sub-terms can be defined as a sum of exponential, linear threshold, and step functions. Cox Proportional hazards <https://en.wikipedia.org/wiki/Proportional_hazards_model>, Poisson <https://en.wikipedia.org/wiki/Poisson_regression>, and Fine-Gray competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grants 80NSSC19M0161 and 80NSSC23M0129 through a subcontract from the National Council on Radiation Protection and Measurements (NCRP). The computing for this project was performed on the Beocat Research Cluster at Kansas State University, which is funded in part by NSF grants CNS-1006860, EPS-1006860, EPS-0919443, ACI-1440548, CHE-1726332, and NIH P20GM113109.
Author: Eric Giunta [aut, cre] ,
Amir Bahadori [ctb] ,
Dan Andresen [ctb] ,
Linda Walsh [ctb] ,
Benjamin French [ctb] ,
Lawrence Dauer [ctb] ,
John Boice Jr [ctb] ,
Kansas State University [cph],
NASA [fnd],
NCRP [fnd],
NRC [fnd]
Maintainer: Eric Giunta <egiunta@ksu.edu>
Diff between Colossus versions 1.4.3 dated 2025-10-30 and 1.4.5 dated 2025-12-07
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Colossus-1.4.5/Colossus/src/Main_Functions.cpp | 145 - Colossus-1.4.5/Colossus/src/Main_Multi.cpp | 57 Colossus-1.4.5/Colossus/src/Omnibus_Pieces.cpp | 137 - Colossus-1.4.5/Colossus/src/Omnibus_Pieces.h | 2 Colossus-1.4.5/Colossus/src/Plot_Extensions.cpp | 21 Colossus-1.4.5/Colossus/src/R_Interface.cpp | 108 - Colossus-1.4.5/Colossus/src/R_Interface.h | 6 Colossus-1.4.5/Colossus/src/RcppExports.cpp | 37 Colossus-1.4.5/Colossus/src/Step_Calc.cpp | 3 Colossus-1.4.5/Colossus/src/Step_Grad.cpp | 4 Colossus-1.4.5/Colossus/src/Step_Newton.cpp | 7 Colossus-1.4.5/Colossus/src/Subterms_Risk.cpp | 247 +-- Colossus-1.4.5/Colossus/src/Subterms_Risk.h | 6 Colossus-1.4.5/Colossus/tests/testthat/test-Assigned.R | 100 - Colossus-1.4.5/Colossus/tests/testthat/test-CaseControl.R | 67 Colossus-1.4.5/Colossus/tests/testthat/test-Cox_Plot.R | 167 -- Colossus-1.4.5/Colossus/tests/testthat/test-Cox_Regression.R | 179 -- Colossus-1.4.5/Colossus/tests/testthat/test-Formula.R | 109 - Colossus-1.4.5/Colossus/tests/testthat/test-Gradient.R | 119 - Colossus-1.4.5/Colossus/tests/testthat/test-Joint.R | 63 Colossus-1.4.5/Colossus/tests/testthat/test-Logbound.R | 118 - Colossus-1.4.5/Colossus/tests/testthat/test-Logit.R | 12 Colossus-1.4.5/Colossus/tests/testthat/test-Multidose.R | 156 - Colossus-1.4.5/Colossus/tests/testthat/test-Norm.R | 59 Colossus-1.4.5/Colossus/tests/testthat/test-Omnibus.R | 58 Colossus-1.4.5/Colossus/tests/testthat/test-Poisson_Regression.R | 77 Colossus-1.4.5/Colossus/tests/testthat/test-Poisson_Residual.R | 27 Colossus-1.4.5/Colossus/tests/testthat/test-Utility.R | 127 + Colossus-1.4.5/Colossus/vignettes/Alt_Run_Opt.Rmd | 12 Colossus-1.4.5/Colossus/vignettes/Equation_Expression.Rmd | 2 Colossus-1.4.5/Colossus/vignettes/Excess_and_Predicted_Cases.Rmd | 21 Colossus-1.4.5/Colossus/vignettes/Logistic.Rmd | 11 Colossus-1.4.5/Colossus/vignettes/Matched_Case_Control.Rmd | 10 Colossus-1.4.5/Colossus/vignettes/Starting-Description.Rmd | 5 Colossus-1.4.5/Colossus/vignettes/Wald_and_Log_Bound.Rmd | 2 108 files changed, 4966 insertions(+), 5994 deletions(-)