Title: Simulation and Statistical Analysis of Multifractional Processes
Description: Simulation of several fractional and multifractional processes. Includes Brownian and fractional Brownian motions, bridges and Gaussian Haar-based multifractional processes (GHBMP). Implements the methods from Ayache, Olenko and Samarakoon (2026) <doi:10.1016/j.matcom.2026.01.033> for simulation of GHBMP. Estimation of Hurst functions and local fractal dimension. Clustering realisations based on the Hurst functions. Several functions to estimate and plot geometric statistics of the processes and time series. Provides a 'shiny' application for interactive use of the functions from the package.
Author: Andriy Olenko [aut] ,
Nemini Samarakoon [aut, cre]
Maintainer: Nemini Samarakoon <neminisamarakoon95@gmail.com>
Diff between Rmfrac versions 0.1.1 dated 2025-09-10 and 1.0.0 dated 2026-04-16
DESCRIPTION | 21 +++++++------ MD5 | 71 +++++++++++++++++++++++++++----------------- R/Analyses_functions_1.R | 18 +++++------ R/Analyses_functions_2.R | 28 ++++++++--------- R/Covariance_fn.R | 9 +++-- R/Estimation.R | 16 +++++---- R/Hierarchical_clustering.R | 2 - R/Kmeans_clustering.R | 10 +++--- R/Plots_sim_est.R | 22 ++++++------- R/Simulation.R | 22 ++++--------- README.md | 5 +-- inst/CITATION | 35 +++++++++++++++------ inst/GHBMP_app/app.R | 56 +++++++++++++++++----------------- man/Bbridge.Rd | 2 - man/FBbridge.Rd | 2 - man/FGn.Rd | 2 - man/GHBMP.Rd | 8 ++-- man/H_LFD.Rd | 6 +-- man/Hurst.Rd | 10 +++--- man/LFD.Rd | 4 +- man/RS_Index.Rd | 2 - man/cov_GHBMP.Rd | 5 +-- man/kmeans_hurst.Rd | 6 +-- man/mean_streak.Rd | 2 - man/plot.H_LFD.Rd | 4 +- man/plot.mp.Rd | 8 ++-- man/plot_tsest.Rd | 4 +- man/sojourn.Rd | 2 - tests |only 29 files changed, 208 insertions(+), 174 deletions(-)
Title: A Fast and Flexible Pipeline for Text Classification
Description: A high-level pipeline that simplifies text classification into three streamlined steps:
preprocessing, model training, and standardized prediction.
It unifies the interface for multiple algorithms (including 'glmnet', 'ranger',
'xgboost', and 'naivebayes') and memory-efficient sparse matrix vectorization
methods (Bag-of-Words, Term Frequency, TF-IDF, and Binary). Users can go from
raw text to a fully evaluated sentiment model, complete with ROC-optimized
thresholds, in just a few function calls. The resulting model artifact
automatically aligns the vocabulary of new datasets during the prediction phase,
safely appending predicted classes and probability matrices directly to the
user's original dataframe to preserve metadata.
Author: Alabhya Dahal [aut, cre]
Maintainer: Alabhya Dahal <alabhya.dahal@gmail.com>
Diff between quickSentiment versions 0.3.3 dated 2026-04-01 and 0.3.4 dated 2026-04-16
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 7 +-- R/evaluate_performance.R | 17 +++++-- inst/doc/introduction-to-quickSentiment.R | 10 ++++ inst/doc/introduction-to-quickSentiment.Rmd | 21 ++++++++- inst/doc/introduction-to-quickSentiment.html | 62 +++++++++++++++++++++------ vignettes/introduction-to-quickSentiment.Rmd | 21 ++++++++- 8 files changed, 124 insertions(+), 34 deletions(-)
More information about quickSentiment at CRAN
Permanent link
Title: Branch-Level Inference Framework for Recognizing Optimal Shifts
in Traits
Description: Methods for detecting and visualizing cladogenic shifts in multivariate trait data on phylogenies. Implements penalized-likelihood multivariate generalized least squares models, enabling analyses of high-dimensional trait datasets and large trees via searchOptimalConfiguration(). Includes a greedy step-wise shift-search algorithm following approaches developed in Smith et al. (2023) <doi:10.1111/nph.19099> and Berv et al. (2024) <doi:10.1126/sciadv.adp0114>. Methods build on multivariate GLS approaches described in Clavel et al. (2019) <doi:10.1093/sysbio/syy045> and implemented in the mvgls() function from the 'mvMORPH' package. Documentation and vignettes are available at <https://jakeberv.com/bifrost/>, including worked examples for the jaw-shape dataset.
Author: Jacob S. Berv [aut, cre, cph, fnd] ,
Nathan Fox [aut] ,
Matt J. Thorstensen [aut] ,
Henry Lloyd-Laney [aut] ,
Emily M. Troyer [aut] ,
Rafael A. Rivero-Vega [aut] ,
Stephen A. Smith [aut, fnd] ,
Matt Friedman [aut, fnd] ,
David F. Fouhey [aut, fnd] ,
[...truncated...]
Maintainer: Jacob S. Berv <jacob.berv@gmail.com>
Diff between bifrost versions 0.1.3 dated 2026-01-21 and 0.1.4 dated 2026-04-16
DESCRIPTION | 19 +- MD5 | 21 +- NEWS.md | 17 ++ R/searchOptimalConfiguration.R | 97 ++++++++++-- README.md | 281 +++++++------------------------------ build/vignette.rds |binary inst/CITATION | 105 ++++++++++--- inst/WORDLIST | 138 +++++++++++++++++- inst/doc/quick-start-vignette.R |only inst/doc/quick-start-vignette.Rmd |only inst/doc/quick-start-vignette.html |only man/searchOptimalConfiguration.Rd | 93 ++++++++++-- vignettes/quick-start |only vignettes/quick-start-vignette.Rmd |only 14 files changed, 468 insertions(+), 303 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-03 2.0.0
2015-07-27 1.6.0
2006-03-08 1.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-03-11 1.0.1
2015-03-10 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-19 0.1.6
2013-05-16 0.1.1
2012-11-26 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-26 0.2.1
2020-11-24 0.2.0
2020-02-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-11-08 0.0-12
2013-03-19 0.0-7
2012-08-23 0.0-6
2008-08-12 0.0-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-07-02 1.8
2023-02-01 1.7
2022-03-16 1.6
2021-04-16 1.5
2018-10-24 1.4
2018-09-01 1.2
2017-11-16 1.1
2017-03-03 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-26 2.2.0
2012-08-23 2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-17 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-13 2.6.2
2023-08-20 2.6.1
2021-01-13 2.6.0
2020-07-10 2.5.1
2020-04-14 2.5.0
2020-03-30 2.2.0
2020-03-22 2.1.1
2019-01-10 2.1.0
2019-01-02 2.0
2019-01-02 2.0.1
2018-08-20 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-31 1.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-02-12 0.9.15
2024-07-07 0.9.13
2024-01-17 0.9.12
2023-05-08 0.9.11
2021-11-02 0.9.10
2021-03-21 0.9.9
2018-05-23 0.9.8-1
2017-05-01 0.9.7
2016-09-24 0.9.5
2016-04-15 0.9.4
2015-12-06 0.9.3
2015-07-14 0.9.1
2015-05-06 0.8.1
2013-09-05 0.6
2013-04-15 0.5.4
2012-08-23 0.5.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-08-23 1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-05 2.0-6
2015-07-29 2.0-5
2015-06-17 2.0-4
2015-05-31 2.0-3
2013-11-17 2.0-2
2013-07-21 2.0-1
2012-08-23 2.0-0
2008-05-02 1.8-0
2007-11-04 1.7-9
2007-10-17 1.7-8
2007-10-08 1.7-7
2007-09-14 1.7-6
2006-10-03 1.7-5
Title: Simple Definition Of Time Intervals
Description: Simple definition of time intervals for the current, previous, and next week, month, quarter and year.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between timeperiodsR versions 0.7.3 dated 2024-01-23 and 0.7.5 dated 2026-04-16
DESCRIPTION | 9 - MD5 | 20 +- NEWS.md | 8 - R/check_dayoffs.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/tpr_intro.R | 28 +-- inst/doc/tpr_intro.Rmd | 2 inst/doc/tpr_intro.html | 355 +++++++++++++++++++++++++++++++++++++----------- man/check_dayoffs.Rd | 2 vignettes/tpr_intro.Rmd | 2 11 files changed, 322 insertions(+), 108 deletions(-)
Title: R Analyzer for Large-Scale Assessments
Description: Download, prepare and analyze data from large-scale assessments and
surveys with complex sampling and assessment design (see 'Rutkowski',
2010 <doi:10.3102/0013189X10363170>). Such studies are, for example,
international assessments like 'TIMSS', 'PIRLS' and 'PISA'. A graphical
interface is available for the non-technical user.The package includes
functions to covert the original data from 'SPSS' into 'R' data sets
keeping the user-defined missing values, merge data from different
respondents and/or countries, generate variable dictionaries, modify
data, produce descriptive statistics (percentages, means, percentiles,
benchmarks) and multivariate statistics (correlations, linear
regression, binary logistic regression). The number of supported
studies and analysis types will increase in future. For a general
presentation of the package, see 'Mirazchiyski', 2021a
(<doi:10.1186/s40536-021-00114-4>). For detailed technical aspects of
the package, see 'Mirazchiyski', 2021b (< [...truncated...]
Author: Plamen V. Mirazchiyski [aut, cre]
Maintainer: Plamen V. Mirazchiyski <plamen.mirazchiyski@gmail.com>
Diff between RALSA versions 1.6.5 dated 2026-03-17 and 1.6.6 dated 2026-04-16
DESCRIPTION | 18 ++--- MD5 | 54 ++++++++--------- NEWS.md | 4 + R/RALSA.r | 2 R/common.r | 7 -- R/lsa.bench.r | 2 R/lsa.bin.log.reg.r | 2 R/lsa.corr.r | 2 R/lsa.crosstabs.r | 2 R/lsa.data.diag.r | 4 - R/lsa.lin.reg.r | 2 R/lsa.merge.data.r | 6 - R/lsa.pcts.means.r | 2 R/lsa.prctls.r | 2 R/zzz.r | 4 - README.md | 7 -- inst/shiny/GUI/server.r | 152 ++++++++++++++++++++++++------------------------ inst/shiny/GUI/ui.r | 36 ++++++----- man/RALSA.Rd | 2 man/lsa.bench.Rd | 2 man/lsa.bin.log.reg.Rd | 2 man/lsa.corr.Rd | 2 man/lsa.crosstabs.Rd | 2 man/lsa.data.diag.Rd | 2 man/lsa.lin.reg.Rd | 2 man/lsa.merge.data.Rd | 2 man/lsa.pcts.means.Rd | 2 man/lsa.prctls.Rd | 2 28 files changed, 163 insertions(+), 165 deletions(-)
Title: Bayesian Network Meta-Analysis of Individual and Aggregate Data
Description: Network meta-analysis and network meta-regression models for
aggregate data, individual patient data, and mixtures of both individual
and aggregate data using multilevel network meta-regression as described by
Phillippo et al. (2020) <doi:10.1111/rssa.12579>. Models are estimated in a
Bayesian framework using 'Stan'.
Author: David M. Phillippo [aut, cre] ,
Samuel J. Perren [ctb] ,
Niels Dunnewind [ctb]
Maintainer: David M. Phillippo <david.phillippo@bristol.ac.uk>
Diff between multinma versions 0.9.0 dated 2026-04-13 and 0.9.1 dated 2026-04-16
DESCRIPTION | 6 MD5 | 22 NEWS.md | 5 README.md | 2 build/partial.rdb |binary inst/REFERENCES.bib | 3 inst/doc/example_social_anxiety.html | 4 inst/doc/vignette_overview.html | 4 inst/stan/survival_mspline.stan | 19 inst/stan/survival_param.stan | 24 src/stanExports_survival_mspline.h | 2738 +++++++++++++++++------------------ src/stanExports_survival_param.h | 2536 ++++++++++++++++---------------- 12 files changed, 2691 insertions(+), 2672 deletions(-)
Title: Access your Coletum's Data from API
Description: Get your data (forms, structures, answers) from Coletum
<https://coletum.com> to handle and analyse.
Author: Andre Smaniotto [aut, cre],
Marcelo Magnani [aut],
Rodrigo Sant'Ana [aut],
GeoSapiens [cph, fnd]
Maintainer: Andre Smaniotto <smaniotto@geosapiens.com.br>
Diff between RColetum versions 0.2.2 dated 2022-10-20 and 1.0.0 dated 2026-04-16
RColetum-0.2.2/RColetum/man/GetFormStructure.Rd |only RColetum-0.2.2/RColetum/tests/testthat/test-GetFormStructure.R |only RColetum-1.0.0/RColetum/DESCRIPTION | 9 RColetum-1.0.0/RColetum/MD5 | 38 RColetum-1.0.0/RColetum/NAMESPACE | 3 RColetum-1.0.0/RColetum/NEWS.md | 19 RColetum-1.0.0/RColetum/R/FlattenAnswers.R |only RColetum-1.0.0/RColetum/R/GetAnswers.R | 461 RColetum-1.0.0/RColetum/R/GetForm.R |only RColetum-1.0.0/RColetum/R/GetFormStructure.R | 102 RColetum-1.0.0/RColetum/R/GetForms.R | 123 RColetum-1.0.0/RColetum/R/RColetum.r | 4 RColetum-1.0.0/RColetum/R/utils.R | 562 RColetum-1.0.0/RColetum/README.md | 46 RColetum-1.0.0/RColetum/man/FlattenAnswers.Rd |only RColetum-1.0.0/RColetum/man/GetAnswers.Rd | 146 RColetum-1.0.0/RColetum/man/GetForm.Rd |only RColetum-1.0.0/RColetum/man/GetForms.Rd | 46 RColetum-1.0.0/RColetum/man/RColetum-package.Rd | 4 RColetum-1.0.0/RColetum/tests/testthat/test-FlattenAnswers.R |only RColetum-1.0.0/RColetum/tests/testthat/test-GetAnswers.R | 995 RColetum-1.0.0/RColetum/tests/testthat/test-GetAnswersComplexForm.R |75267 ---------- RColetum-1.0.0/RColetum/tests/testthat/test-GetForm.R |only RColetum-1.0.0/RColetum/tests/testthat/test-GetForms.R | 175 24 files changed, 1065 insertions(+), 76935 deletions(-)
Title: Calculate Metrics for Trauma System Performance
Description: Hospitals, hospital systems, and even trauma systems that
provide care to injured patients may not be aware of robust metrics
that can help gauge the efficacy of their programs in saving the lives
of injured patients. 'traumar' provides robust functions driven by
the academic literature to automate the calculation of relevant
metrics to individuals desiring to measure the performance of their
trauma center or even a trauma system. 'traumar' also provides some
helper functions for the data analysis journey. Users can refer to the
following publications for descriptions of the methods used in
'traumar'. TRISS methodology, including probability of survival, and
the W, M, and Z Scores - Flora (1978)
<doi:10.1097/00005373-197810000-00003>, Boyd et al. (1987,
PMID:3106646), Llullaku et al. (2009) <doi:10.1186/1749-7922-4-2>,
Singh et al. (2011) <doi:10.4103/0974-2700.86626>, Baker et al. (1974,
PMID:4814394), and Champion et al. (1989)
<doi:10.1097/00005373-198905000- [...truncated...]
Author: Nicolas Foss [aut, cre],
Iowa Department of Health and Human Services [cph]
Maintainer: Nicolas Foss <nicolas.foss@hhs.iowa.gov>
Diff between traumar versions 1.2.4 dated 2026-02-05 and 1.2.5 dated 2026-04-16
DESCRIPTION | 6 - MD5 | 8 - NEWS.md | 272 +++++++++++++++++++----------------------------------- R/seqic_7.R | 5 build/partial.rdb |binary 5 files changed, 109 insertions(+), 182 deletions(-)
Title: Numeric Matrices K-NN and PCA Imputation
Description: Fast k-nearest neighbors (K-NN) and principal component
analysis (PCA) imputation algorithms for missing values in
high-dimensional numeric matrices, i.e., epigenetic data. For
extremely high-dimensional data with ordered features, a sliding
window approach for K-NN or PCA imputation is provided. Additional
features include group-wise imputation (e.g., by chromosome),
hyperparameter tuning with repeated cross-validation, multi-core
parallelization, and optional subset imputation. The K-NN algorithm is
described in: Hastie, T., Tibshirani, R., Sherlock, G., Eisen, M.,
Brown, P. and Botstein, D. (1999) "Imputing Missing Data for Gene
Expression Arrays". The PCA imputation is an optimized version of the
imputePCA() function from the 'missMDA' package described in: Josse,
J. and Husson, F. (2016) <doi:10.18637/jss.v070.i01> "missMDA: A
Package for Handling Missing Values in Multivariate Data Analysis".
Author: Hung Pham [aut, cre, cph]
Maintainer: Hung Pham <amser.hoanghung@gmail.com>
Diff between slideimp versions 0.5.4 dated 2026-01-07 and 1.0.0 dated 2026-04-16
slideimp-0.5.4/slideimp/R/khanmiss1.R |only slideimp-0.5.4/slideimp/data |only slideimp-0.5.4/slideimp/man/group_features.Rd |only slideimp-0.5.4/slideimp/man/khanmiss1.Rd |only slideimp-0.5.4/slideimp/man/print.ImputedMatrix.Rd |only slideimp-0.5.4/slideimp/src/utils.cpp |only slideimp-1.0.0/slideimp/DESCRIPTION | 18 slideimp-1.0.0/slideimp/MD5 | 106 - slideimp-1.0.0/slideimp/NAMESPACE | 11 slideimp-1.0.0/slideimp/NEWS.md | 93 slideimp-1.0.0/slideimp/R/RcppExports.R | 98 slideimp-1.0.0/slideimp/R/col_vars.R | 13 slideimp-1.0.0/slideimp/R/group_imp.R | 1242 +++++++----- slideimp-1.0.0/slideimp/R/knn_imp.R | 253 +- slideimp-1.0.0/slideimp/R/mean_imp_col.R | 68 slideimp-1.0.0/slideimp/R/pca_imp.R | 179 + slideimp-1.0.0/slideimp/R/print.R | 169 + slideimp-1.0.0/slideimp/R/sim_mat.R |only slideimp-1.0.0/slideimp/R/slide_imp.R | 481 +++- slideimp-1.0.0/slideimp/R/slideimp_registry.R |only slideimp-1.0.0/slideimp/R/tune_imp.R | 1317 ++++++++----- slideimp-1.0.0/slideimp/R/utils.R | 206 +- slideimp-1.0.0/slideimp/README.md | 459 +++- slideimp-1.0.0/slideimp/build/partial.rdb |binary slideimp-1.0.0/slideimp/build/vignette.rds |binary slideimp-1.0.0/slideimp/inst/doc/slideimp.R | 207 +- slideimp-1.0.0/slideimp/inst/doc/slideimp.Rmd | 254 +- slideimp-1.0.0/slideimp/inst/doc/slideimp.html | 678 ++++-- slideimp-1.0.0/slideimp/man/col_vars.Rd | 57 slideimp-1.0.0/slideimp/man/compute_metrics.Rd | 27 slideimp-1.0.0/slideimp/man/group_imp.Rd | 254 +- slideimp-1.0.0/slideimp/man/knn_imp.Rd | 184 + slideimp-1.0.0/slideimp/man/mean_imp_col.Rd | 17 slideimp-1.0.0/slideimp/man/pca_imp.Rd | 80 slideimp-1.0.0/slideimp/man/prep_groups.Rd |only slideimp-1.0.0/slideimp/man/print.slideimp_results.Rd |only slideimp-1.0.0/slideimp/man/print.slideimp_sim.Rd |only slideimp-1.0.0/slideimp/man/print.slideimp_tbl.Rd |only slideimp-1.0.0/slideimp/man/register_group_resolver.Rd |only slideimp-1.0.0/slideimp/man/sample_na_loc.Rd |only slideimp-1.0.0/slideimp/man/sim_mat.Rd | 65 slideimp-1.0.0/slideimp/man/slide_imp.Rd | 197 + slideimp-1.0.0/slideimp/man/tune_imp.Rd | 230 +- slideimp-1.0.0/slideimp/src/RcppExports.cpp | 153 + slideimp-1.0.0/slideimp/src/eig_sym_sel.h |only slideimp-1.0.0/slideimp/src/fastSVD.cpp | 476 ++-- slideimp-1.0.0/slideimp/src/find_windows.cpp |only slideimp-1.0.0/slideimp/src/find_windows_flank.cpp |only slideimp-1.0.0/slideimp/src/impute_knn_brute.cpp | 960 +++++---- slideimp-1.0.0/slideimp/src/impute_knn_mlpack.cpp | 91 slideimp-1.0.0/slideimp/src/imputed_value.cpp | 167 - slideimp-1.0.0/slideimp/src/imputed_value.h | 34 slideimp-1.0.0/slideimp/src/loc_timer.h |only slideimp-1.0.0/slideimp/src/mat_stats.cpp |only slideimp-1.0.0/slideimp/src/openmp_utils.cpp |only slideimp-1.0.0/slideimp/src/sample_each_rep_cpp.cpp |only slideimp-1.0.0/slideimp/tests/testthat/test-col_vars.R | 3 slideimp-1.0.0/slideimp/tests/testthat/test-group_imp.R | 716 +++++-- slideimp-1.0.0/slideimp/tests/testthat/test-knn_imp.R | 261 -- slideimp-1.0.0/slideimp/tests/testthat/test-mean_imp_col.R | 9 slideimp-1.0.0/slideimp/tests/testthat/test-pca_imp.R | 192 + slideimp-1.0.0/slideimp/tests/testthat/test-sim_mat.R |only slideimp-1.0.0/slideimp/tests/testthat/test-slide_imp.R | 556 ++++- slideimp-1.0.0/slideimp/tests/testthat/test-tune_imp.R | 581 +++++ slideimp-1.0.0/slideimp/vignettes/slideimp.Rmd | 254 +- 65 files changed, 7513 insertions(+), 3903 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Nuria Mercade-Besora [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.3.4 dated 2026-03-25 and 0.4.0 dated 2026-04-16
PhenotypeR-0.3.4/PhenotypeR/inst/doc/CodelistDiagnostics.R |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/CodelistDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/CodelistDiagnostics.html |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/CohortDiagnostics.R |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/CohortDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/CohortDiagnostics.html |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/DatabaseDiagnostics.R |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/DatabaseDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/DatabaseDiagnostics.html |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/PopulationDiagnostics.R |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/PopulationDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/inst/doc/PopulationDiagnostics.html |only PhenotypeR-0.3.4/PhenotypeR/man/clinicalTableSample.Rd |only PhenotypeR-0.3.4/PhenotypeR/man/drugExposureSampleDoc.Rd |only PhenotypeR-0.3.4/PhenotypeR/man/measurementSampleDoc.Rd |only PhenotypeR-0.3.4/PhenotypeR/vignettes/CodelistDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/vignettes/CohortDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/vignettes/DatabaseDiagnostics.Rmd |only PhenotypeR-0.3.4/PhenotypeR/vignettes/PopulationDiagnostics.Rmd |only PhenotypeR-0.4.0/PhenotypeR/DESCRIPTION | 9 PhenotypeR-0.4.0/PhenotypeR/MD5 | 136 - 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PhenotypeR-0.4.0/PhenotypeR/inst/doc/ShinyDiagnostics.R | 43 PhenotypeR-0.4.0/PhenotypeR/inst/doc/ShinyDiagnostics.Rmd | 52 PhenotypeR-0.4.0/PhenotypeR/inst/doc/ShinyDiagnostics.html | 104 - PhenotypeR-0.4.0/PhenotypeR/inst/shiny/data/raw/clinical_descriptions |only PhenotypeR-0.4.0/PhenotypeR/inst/shiny/data/raw/database_descriptions |only PhenotypeR-0.4.0/PhenotypeR/inst/shiny/data/raw/expectations/expectations.csv |only PhenotypeR-0.4.0/PhenotypeR/inst/shiny/global.R | 17 PhenotypeR-0.4.0/PhenotypeR/inst/shiny/scripts/functions.R | 123 + PhenotypeR-0.4.0/PhenotypeR/inst/shiny/scripts/preprocess.R | 201 ++ PhenotypeR-0.4.0/PhenotypeR/inst/shiny/server.R | 276 ++- PhenotypeR-0.4.0/PhenotypeR/inst/shiny/ui.R | 890 +++++----- PhenotypeR-0.4.0/PhenotypeR/man/codelistDiagnostics.Rd | 37 PhenotypeR-0.4.0/PhenotypeR/man/cohortDiagnostics.Rd | 30 PhenotypeR-0.4.0/PhenotypeR/man/databaseDiagnostics.Rd | 39 PhenotypeR-0.4.0/PhenotypeR/man/downloadClinicalDescriptionTemplate.Rd |only PhenotypeR-0.4.0/PhenotypeR/man/downloadDatabaseDescriptionTemplate.Rd |only PhenotypeR-0.4.0/PhenotypeR/man/drugDiagnosticsSampleDoc.Rd |only PhenotypeR-0.4.0/PhenotypeR/man/getClinicalDescription.Rd |only PhenotypeR-0.4.0/PhenotypeR/man/getCohortExpectations.Rd | 4 PhenotypeR-0.4.0/PhenotypeR/man/measurementDiagnosticsSampleDoc.Rd |only PhenotypeR-0.4.0/PhenotypeR/man/phenotypeDiagnostics.Rd | 104 - PhenotypeR-0.4.0/PhenotypeR/man/populationDiagnostics.Rd | 21 PhenotypeR-0.4.0/PhenotypeR/man/shinyDiagnostics.Rd | 23 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-codelistDiagnostics.R | 51 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-cohortDiagnostics.R | 35 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-databaseDiagnostics.R | 73 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-dbms.R | 14 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-getClinicalDescription.R |only PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-getCohortExpectations.R | 14 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-phenotypeDiagnostics.R | 186 +- PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-populationDiagnostics.R | 2 PhenotypeR-0.4.0/PhenotypeR/tests/testthat/test-shinyDiagnostics.R | 7 PhenotypeR-0.4.0/PhenotypeR/vignettes/CreateDescriptions.Rmd |only PhenotypeR-0.4.0/PhenotypeR/vignettes/CreateDescriptionsFigures |only PhenotypeR-0.4.0/PhenotypeR/vignettes/PhenotypeDiagnostics.Rmd | 161 + PhenotypeR-0.4.0/PhenotypeR/vignettes/PhenotypeExpectations.Rmd | 22 PhenotypeR-0.4.0/PhenotypeR/vignettes/ShinyDiagnostics.Rmd | 52 82 files changed, 3093 insertions(+), 1521 deletions(-)
Title: Indirect Effects Testing Methods in Mediation Analysis
Description: Used in testing if the indirect effect from linear regression mediation analysis is equal to 0. Includes established methods such as the Sobel Test, Joint Significant test (maxP), and tests based off the distribution of the Product or Normal Random Variables. Additionally, this package adds more powerful tests based on Intersection-Union theory. These tests are the S-Test, the ps-test, and the ascending squares test. These new methods are uniformly more powerful than maxP, which is more powerful than Sobel and less anti-conservative than the Product of Normal Random Variables. These methods are explored by Kidd and Lin, (2024) <doi:10.1007/s12561-023-09386-6> and Kidd et al., (2025) <doi:10.1007/s10260-024-00777-7>.
Author: John Kidd [aut, cre]
Maintainer: John Kidd <jkidd@uvu.edu>
Diff between ieTest versions 2.0 dated 2025-04-02 and 2.1 dated 2026-04-16
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NAMESPACE | 1 - src/Makevars | 2 +- src/Makevars.win | 2 +- src/asq_one.cpp | 2 +- src/asq_ord.cpp | 2 +- src/maxP_one.cpp | 2 +- src/maxp_ord.cpp | 2 +- src/ps_one.cpp | 2 +- src/ps_ord.cpp | 3 +-- 11 files changed, 23 insertions(+), 25 deletions(-)
Title: The Equiplot Graph and Complex Inequality Measures
Description: Generates the equiplot, an iconic dot-plot graph for visualizing inequalities, as well as three complex inequality measures: the slope index of inequality, the concentration index and the mean absolute difference to the mean. For more details see World Health Organization (2013) <https://www.who.int/docs/default-source/gho-documents/health-equity/handbook-on-health-inequality-monitoring/handbook-on-health-inequality-monitoring.pdf>.
Author: Leonardo Ferreira [aut, cre],
Luisa Arroyave [aut]
Maintainer: Leonardo Ferreira <lferreira@equidade.org>
Diff between ICEHmeasures versions 1.0.1 dated 2026-03-11 and 1.1.0 dated 2026-04-16
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/cixr.R | 24 ++++++++++++++++++++++-- R/mad.R | 26 ++++++++++++++++++++++++-- R/siilogit.R | 27 +++++++++++++++++++++------ 5 files changed, 74 insertions(+), 17 deletions(-)
Title: Vintage Sparse PCA for Semi-Parametric Factor Analysis
Description: Provides fast spectral estimation of latent factors in random
dot product graphs using the vsp estimator. Under mild assumptions,
the vsp estimator is consistent for (degree-corrected) stochastic
blockmodels, (degree-corrected) mixed-membership stochastic
blockmodels, and degree-corrected overlapping stochastic blockmodels.
Author: Karl Rohe [aut],
Muzhe Zeng [aut],
Alex Hayes [aut, cre, cph] ,
Fan Chen [aut]
Maintainer: Alex Hayes <alexpghayes@gmail.com>
Diff between vsp versions 0.1.3 dated 2025-08-20 and 0.1.4 dated 2026-04-16
DESCRIPTION | 21 +++++++++++-------- MD5 | 31 +++++++++++++++++------------ NAMESPACE | 8 +++++++ NEWS.md | 7 ++++++ R/localization.R |only R/plots.R | 6 +---- R/utils.R | 33 +++++++++++++++++++++++++++++++ README.md | 12 +++++------ build/vignette.rds |binary inst/doc/bff.html | 4 +-- man/cumulative_participation.Rd |only man/figures/README-unnamed-chunk-1-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/ipr.Rd |only man/iprs.Rd |only man/localization_statistics.Rd |only man/plot_cumulative_curves.Rd |only man/plot_ipr_curves.Rd |only man/plot_varimax_z_pairs.Rd | 4 +-- 20 files changed, 91 insertions(+), 35 deletions(-)
Title: Plotting Tool for Brain Atlases
Description: Provides a 'ggplot2' geom and position for visualizing brain
region data on cortical, subcortical, and white matter tract atlases.
Brain atlas geometries are stored as simple features ('sf'), enabling
seamless integration with the 'ggplot2' ecosystem including faceting,
custom scales, and themes. Mowinckel & Vidal-Piñeiro (2020)
<doi:10.1177/2515245920928009>.
Author: Athanasia Mo Mowinckel [aut, cre, cph] ,
Didac Vidal-Pineiro [aut, cph] ,
Ramiro Magno [aut] ,
Center for Lifespan Changes in Brain and Cognition, University of Oslo,
Norway [cph]
Maintainer: Athanasia Mo Mowinckel <a.m.mowinckel@psykologi.uio.no>
Diff between ggseg versions 2.1.0 dated 2026-04-03 and 2.1.1 dated 2026-04-16
ggseg-2.1.0/ggseg/tests/testthat/Rplots.pdf |only ggseg-2.1.1/ggseg/DESCRIPTION | 8 ggseg-2.1.1/ggseg/MD5 | 59 - ggseg-2.1.1/ggseg/NAMESPACE | 7 ggseg-2.1.1/ggseg/NEWS.md | 4 ggseg-2.1.1/ggseg/R/adapt_scales.R | 12 ggseg-2.1.1/ggseg/R/brain_join.R | 2 ggseg-2.1.1/ggseg/R/geom-brain.R | 4 ggseg-2.1.1/ggseg/R/ggseg-package.R | 5 ggseg-2.1.1/ggseg/R/layer-brain.R | 27 ggseg-2.1.1/ggseg/R/position-brain.R | 298 ++++++---- ggseg-2.1.1/ggseg/R/scale-brain.R | 9 ggseg-2.1.1/ggseg/inst/doc/external-data.R | 6 ggseg-2.1.1/ggseg/inst/doc/external-data.Rmd | 6 ggseg-2.1.1/ggseg/inst/doc/external-data.html | 8 ggseg-2.1.1/ggseg/inst/doc/ggseg.R | 27 ggseg-2.1.1/ggseg/inst/doc/ggseg.Rmd | 27 ggseg-2.1.1/ggseg/inst/doc/ggseg.html | 83 +- ggseg-2.1.1/ggseg/man/scale_brain2-deprecated.Rd | 4 ggseg-2.1.1/ggseg/tests/testthat/test-annotate-brain.R | 18 ggseg-2.1.1/ggseg/tests/testthat/test-brain_join.R | 4 ggseg-2.1.1/ggseg/tests/testthat/test-coord-funcs.R | 6 ggseg-2.1.1/ggseg/tests/testthat/test-coords.R | 6 ggseg-2.1.1/ggseg/tests/testthat/test-geom-brain.R | 19 ggseg-2.1.1/ggseg/tests/testthat/test-position-brain.R | 180 +++++- ggseg-2.1.1/ggseg/tests/testthat/test-read_freesurfer_stats.R | 34 - ggseg-2.1.1/ggseg/tests/testthat/test-scale-brain.R | 28 ggseg-2.1.1/ggseg/tests/testthat/test-theme_brain.R | 6 ggseg-2.1.1/ggseg/tests/testthat/test-utils.R | 16 ggseg-2.1.1/ggseg/vignettes/external-data.Rmd | 6 ggseg-2.1.1/ggseg/vignettes/ggseg.Rmd | 27 31 files changed, 604 insertions(+), 342 deletions(-)
Title: Imports, Processes, and Visualizes Biomechanical Pressure Data
Description: Allows biomechanical pressure data from a range of systems to be imported and processed in a reproducible manner. Automatic and manual tools are included to let the user define regions (masks) to be analyzed. Also includes functions for visualizing and animating pressure data. Example methods are described in Shi et al., (2022) <doi:10.1038/s41598-022-19814-0>, Lee et al., (2014) <doi:10.1186/1757-1146-7-18>, van der Zward et al., (2014) <doi:10.1186/1757-1146-7-20>, Najafi et al., (2010) <doi:10.1016/j.gaitpost.2009.09.003>, Cavanagh and Rodgers (1987) <doi:10.1016/0021-9290(87)90255-7>.
Author: Scott Telfer [aut, cre, cph] ,
Ellen Li [aut]
Maintainer: Scott Telfer <scott.telfer@gmail.com>
Diff between pressuRe versions 0.2.5 dated 2025-02-20 and 0.2.7 dated 2026-04-16
pressuRe-0.2.5/pressuRe/R/data.R |only pressuRe-0.2.5/pressuRe/data |only pressuRe-0.2.5/pressuRe/man/pedar_insole_areas.Rd |only pressuRe-0.2.5/pressuRe/man/pedar_insole_grid.Rd |only pressuRe-0.2.7/pressuRe/DESCRIPTION | 19 pressuRe-0.2.7/pressuRe/MD5 | 62 - pressuRe-0.2.7/pressuRe/NAMESPACE | 263 ++-- pressuRe-0.2.7/pressuRe/NEWS.md | 7 pressuRe-0.2.7/pressuRe/R/pressuRe_functions.R | 784 +++++++++++--- pressuRe-0.2.7/pressuRe/build/partial.rdb |binary pressuRe-0.2.7/pressuRe/inst/extdata/footscan_test.xls |binary pressuRe-0.2.7/pressuRe/inst/extdata/stappone_example.csv |only pressuRe-0.2.7/pressuRe/man/animate_pressure.Rd | 8 pressuRe-0.2.7/pressuRe/man/arch_index.Rd | 4 pressuRe-0.2.7/pressuRe/man/auto_detect_side.Rd | 4 pressuRe-0.2.7/pressuRe/man/clean_pressure.Rd |only pressuRe-0.2.7/pressuRe/man/cop.Rd | 4 pressuRe-0.2.7/pressuRe/man/cpei.Rd | 8 pressuRe-0.2.7/pressuRe/man/create_mask_auto.Rd | 18 pressuRe-0.2.7/pressuRe/man/create_mask_manual.Rd | 12 pressuRe-0.2.7/pressuRe/man/edit_mask.Rd | 10 pressuRe-0.2.7/pressuRe/man/footprint.Rd | 4 pressuRe-0.2.7/pressuRe/man/load_emed.Rd | 4 pressuRe-0.2.7/pressuRe/man/load_footscan.Rd | 4 pressuRe-0.2.7/pressuRe/man/load_pedar.Rd | 4 pressuRe-0.2.7/pressuRe/man/load_pliance.Rd | 4 pressuRe-0.2.7/pressuRe/man/load_stappone.Rd |only pressuRe-0.2.7/pressuRe/man/load_tekscan.Rd | 10 pressuRe-0.2.7/pressuRe/man/load_xsensor.Rd | 4 pressuRe-0.2.7/pressuRe/man/mask_analysis.Rd | 4 pressuRe-0.2.7/pressuRe/man/plot_pressure.Rd | 4 pressuRe-0.2.7/pressuRe/man/pressure_interp.Rd | 4 pressuRe-0.2.7/pressuRe/man/select_steps.Rd | 6 pressuRe-0.2.7/pressuRe/man/whole_pressure_curve.Rd | 4 pressuRe-0.2.7/pressuRe/tests |only 35 files changed, 864 insertions(+), 395 deletions(-)
Title: Multiresolution Forecasting
Description: Forecasting of univariate time series using feature extraction with variable prediction methods is provided. Feature extraction is done with a redundant Haar wavelet transform with filter h = (0.5, 0.5). The advantage of the approach compared to typical Fourier based methods is an dynamic adaptation to varying seasonalities. Currently implemented prediction methods based on the selected wavelets levels and scales are a regression and a multi-layer perceptron. Forecasts can be computed for horizon 1 or higher. Model selection is performed with an evolutionary optimization. Selection criteria are currently the AIC criterion, the Mean Absolute Error or the Mean Root Error. The data is split into three parts for model selection: Training, test, and evaluation dataset. The training data is for computing the weights of a parameter set. The test data is for choosing the best parameter set. The evaluation data is for assessing the forecast performance of the best parameter set on new data unkn [...truncated...]
Author: Quirin Stier [aut, cre, ctb] ,
Michael Thrun [ths, cph, rev, fnd, ctb]
Maintainer: Quirin Stier <research@quirin-stier.de>
This is a re-admission after prior archival of version 0.1.6 dated 2022-02-23
Diff between mrf versions 0.1.6 dated 2022-02-23 and 0.1.9 dated 2026-04-16
DESCRIPTION | 21 - MD5 | 25 + NAMESPACE | 10 R/mrf_evaluation.R | 2 R/mrf_regression_lsm_optimization.R | 34 +- R/mrf_regression_one_step_forecast.R | 10 R/mrf_rolling_forecasting_origin.R | 11 R/wavelet_decomposition.R | 7 R/wavelet_prediction_equation.R | 2 R/wavelet_tansformation.R |only build/partial.rdb |binary build/vignette.rds |binary inst/doc/mrf.R | 70 ++--- inst/doc/mrf.html | 446 ++++++++++++++++++++++++++--------- 14 files changed, 449 insertions(+), 189 deletions(-)
Title: Data Structures for Brain Imaging Data
Description: A collection of data structures and methods for handling volumetric
brain imaging data, with a focus on functional magnetic resonance imaging (fMRI). Provides efficient
representations for three-dimensional and four-dimensional neuroimaging data through sparse and dense array
implementations, memory-mapped file access for large datasets, and
spatial transformation capabilities. Implements methods for image resampling,
spatial filtering, region of interest analysis, and connected component labeling. General introduction
to fMRI analysis can be found in Poldrack et al. (2024, "Handbook of functional MRI data analysis",
<ISBN:9781108795760>).
Author: Bradley R Buchsbaum [aut, cre, cph]
Maintainer: Bradley R Buchsbaum <brad.buchsbaum@gmail.com>
Diff between neuroim2 versions 0.8.5 dated 2026-01-14 and 0.13.0 dated 2026-04-16
neuroim2-0.13.0/neuroim2/DESCRIPTION | 38 neuroim2-0.13.0/neuroim2/MD5 | 353 +- neuroim2-0.13.0/neuroim2/NAMESPACE | 55 neuroim2-0.13.0/neuroim2/NEWS.md | 100 neuroim2-0.13.0/neuroim2/R/affine_utils.R |only neuroim2-0.13.0/neuroim2/R/all_class.R | 50 neuroim2-0.13.0/neuroim2/R/all_generic.R | 58 neuroim2-0.13.0/neuroim2/R/array_like.R | 4 neuroim2-0.13.0/neuroim2/R/axis.R | 655 +++-- neuroim2-0.13.0/neuroim2/R/big_neurovec.R | 8 neuroim2-0.13.0/neuroim2/R/binary_io.R | 93 neuroim2-0.13.0/neuroim2/R/clustered_neurovec.R | 109 neuroim2-0.13.0/neuroim2/R/clustervol.R | 150 - neuroim2-0.13.0/neuroim2/R/common.R | 290 +- neuroim2-0.13.0/neuroim2/R/conncomp.R | 11 neuroim2-0.13.0/neuroim2/R/deoblique.R |only neuroim2-0.13.0/neuroim2/R/downsample.R | 145 + neuroim2-0.13.0/neuroim2/R/file_format.R | 11 neuroim2-0.13.0/neuroim2/R/filebacked_neurovec.R | 50 neuroim2-0.13.0/neuroim2/R/globals.R | 2 neuroim2-0.13.0/neuroim2/R/header_api.R |only neuroim2-0.13.0/neuroim2/R/index_vol.R | 66 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Title: Statistical Tools for the Analysis of Multi Environment
Agronomic Trials
Description: Data from multi environment agronomic trials, which are often
carried out by plant breeders, can be analyzed with the tools offered by this
package such as the Additive Main effects and Multiplicative Interaction model
or 'AMMI' ('Gauch' 1992, ISBN:9780444892409)
and the Site Regression model or 'SREG' ('Cornelius' 1996,
<doi:10.1201/9780367802226>). Since these methods present a poor performance
under the presence of outliers and missing values, this package includes
robust versions of the 'AMMI' model ('Rodrigues' 2016,
<doi:10.1093/bioinformatics/btv533>), and also imputation techniques
specifically developed for this kind of data ('Arciniegas-Alarcón' 2014,
<doi:10.2478/bile-2014-0006>).
Author: Julia Angelini [aut, cre] ,
Marcos Prunello [aut] ,
Gerardo Cervigni [aut]
Maintainer: Julia Angelini <jangelini_93@hotmail.com>
Diff between geneticae versions 0.4.0 dated 2022-07-20 and 1.0.0 dated 2026-04-16
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Title: Tools to Make Developing R Packages Easier
Description: Collection of package development tools.
Author: Hadley Wickham [aut],
Jim Hester [aut],
Winston Chang [aut],
Jennifer Bryan [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between devtools versions 2.5.0 dated 2026-03-14 and 2.5.1 dated 2026-04-16
DESCRIPTION | 16 +-- MD5 | 24 ++--- NEWS.md | 10 ++ R/build-readme.R | 14 ++- R/install.R | 41 +++++++++ R/release.R | 2 R/sitrep.R | 140 ++++++++++++++++++++++++---------- R/test.R | 2 inst/doc/dependencies.html | 3 tests/testthat/_snaps/build-readme.md | 10 ++ tests/testthat/_snaps/sitrep.md | 55 ++++++++++--- tests/testthat/test-build-readme.R | 24 +++++ tests/testthat/test-sitrep.R | 131 +++++++++++++++++++++++++------ 13 files changed, 362 insertions(+), 110 deletions(-)
Title: Integration Unit Tests for Pharmacoepidemiological Studies
Description: An R interface to load testing data in the 'OMOP' Common Data Model ('CDM'). An input file, csv or xlsx, can be converted to a 'CDMConnector' object. This object can be used to execute and test studies that use the 'CDM' <https://www.ohdsi.org/data-standardization/>.
Author: Cesar Barboza [aut] ,
Ioanna Nika [aut],
Ger Inberg [aut, cre] ,
Adam Black [aut]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>
Diff between TestGenerator versions 0.5.0 dated 2026-01-14 and 0.6.0 dated 2026-04-16
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Title: Fairness Evaluation Metrics with Confidence Intervals for Binary
Protected Attributes
Description: A collection of functions for computing fairness metrics for machine learning and statistical models, including confidence intervals for each metric. The package supports the evaluation of group-level fairness criterion commonly used in fairness research, particularly in healthcare for binary protected attributes. It is based on the overview of fairness in machine learning written by Gao et al (2025) <doi:10.1002/sim.70234>.
Author: Jianhui Gao [aut] ,
Benjamin Smith [aut, cre] ,
Benson Chou [aut] ,
Jessica Gronsbell [aut]
Maintainer: Benjamin Smith <benyamin.smith@mail.utoronto.ca>
Diff between fairmetrics versions 1.0.7 dated 2025-10-06 and 1.0.8 dated 2026-04-16
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/CITATION | 24 ++++++++++++++++-------- inst/doc/fairmetrics.html | 5 +++-- 4 files changed, 26 insertions(+), 17 deletions(-)
Title: Loading Data from 'Google Ads API'
Description: Interface for loading data from 'Google Ads API',
see <https://developers.google.com/google-ads/api/docs/start>.
Package provide function for authorization and loading reports.
Author: Alexey Seleznev [aut, cre] ,
Netpeak [cph]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rgoogleads versions 0.13.3 dated 2025-09-03 and 0.14.1 dated 2026-04-16
DESCRIPTION | 6 MD5 | 60 +- NAMESPACE | 104 ++-- NEWS.md | 9 R/gads_auth.R | 830 ++++++++++++++++----------------- R/gads_check_errors.R | 208 ++++---- R/gads_get_accessible_customers.R | 112 ++-- R/gads_get_ad_group_criterions.R | 274 +++++----- R/gads_get_ad_groups.R | 4 R/gads_get_ads.R | 276 +++++----- R/gads_get_campaigns.R | 194 +++---- R/gads_get_geo_targets.R | 100 +-- R/gads_get_keywords.R | 4 R/gads_get_report.R | 10 R/gads_utils.R | 282 +++++------ R/rgoogleads_package.R | 2 R/zzz.R | 226 ++++---- README.md | 4 inst/doc/migrate_from_radrowds_us.Rmd | 320 ++++++------ inst/doc/migrate_from_radrowds_us.html | 20 inst/doc/migrate_from_radwords_ru.Rmd | 318 ++++++------ inst/doc/migrate_from_radwords_ru.html | 17 man/gads_get_ad_group_criterions.Rd | 4 man/gads_get_ad_groups.Rd | 4 man/gads_get_ads.Rd | 57 -- man/gads_get_campaigns.Rd | 9 man/gads_get_keywords.Rd | 4 man/gads_get_report.Rd | 10 man/rgoogleads-package.Rd | 2 vignettes/migrate_from_radrowds_us.Rmd | 320 ++++++------ vignettes/migrate_from_radwords_ru.Rmd | 318 ++++++------ 31 files changed, 2046 insertions(+), 2062 deletions(-)
Title: Assessing Package Test Reliability and Quality
Description: A reliable and validated tool that calculates unit test coverage for R packages with standard testing frameworks and non-standard testing frameworks.
Author: Edward Gillian [cre, aut] ,
Hugo Bottois [aut] ,
Paulin Charliquart [aut],
Andre Couturier [aut],
Sanofi [cph, fnd]
Maintainer: Edward Gillian <edward.gillian-ext@sanofi.com>
Diff between test.assessr versions 1.1.1 dated 2026-03-02 and 2.0.0 dated 2026-04-16
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Title: Create a Mini Version of CRAN Containing Only Selected Packages
Description: Makes it possible to create an internally consistent
repository consisting of selected packages from CRAN-like repositories.
The user specifies a set of desired packages, and 'miniCRAN' recursively
reads the dependency tree for these packages, then downloads only this
subset. The user can then install packages from this repository directly,
rather than from CRAN. This is useful in production settings, e.g. server
behind a firewall, or remote locations with slow (or zero) Internet access.
Author: Andrie de Vries [aut, cre, cph],
Alex Chubaty [ctb],
Microsoft Corporation [cph]
Maintainer: Andrie de Vries <apdevries@gmail.com>
Diff between miniCRAN versions 0.3.1 dated 2025-04-23 and 0.3.2 dated 2026-04-16
DESCRIPTION | 6 ++--- MD5 | 16 +++++++-------- NEWS | 5 ++++ R/github-functions.R | 34 +++++++++++++++++--------------- build/vignette.rds |binary inst/doc/miniCRAN-dependency-graph.html | 8 +++---- inst/doc/miniCRAN-introduction.html | 4 +-- inst/doc/miniCRAN-non-CRAN-repos.html | 4 +-- tests/testthat/test-1-pkgAvail.R | 8 ++----- 9 files changed, 46 insertions(+), 39 deletions(-)
Title: Probabilistic Reconciliation via Conditioning
Description: Provides methods for probabilistic reconciliation of hierarchical forecasts of time series.
The available methods include analytical Gaussian reconciliation (Corani et al., 2021)
<doi:10.1007/978-3-030-67664-3_13>,
MCMC reconciliation of count time series (Corani et al., 2024)
<doi:10.1016/j.ijforecast.2023.04.003>,
Bottom-Up Importance Sampling (Zambon et al., 2024)
<doi:10.1007/s11222-023-10343-y>,
methods for the reconciliation of mixed hierarchies (Mix-Cond and TD-cond) (Zambon et al., 2024)
<https://proceedings.mlr.press/v244/zambon24a.html>,
analytical reconciliation with Bayesian treatment of the covariance matrix (Carrara et al., 2025)
<doi: 10.48550/arXiv.2506.19554>.
Author: Dario Azzimonti [aut, cre] ,
Lorenzo Zambon [aut] ,
Stefano Damato [aut] ,
Nicolo Rubattu [aut] ,
Giorgio Corani [aut]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between bayesRecon versions 1.0.0 dated 2026-03-07 and 1.0.1 dated 2026-04-16
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More information about CohortContrast at CRAN
Permanent link
Title: Search Algorithms and Loss Functions for Bayesian Clustering
Description: The SALSO algorithm is an efficient randomized greedy search method to find a point estimate for a random partition based on a loss function and posterior Monte Carlo samples. The algorithm is implemented for many loss functions, including the Binder loss and a generalization of the variation of information loss, both of which allow for unequal weights on the two types of clustering mistakes. Efficient implementations are also provided for Monte Carlo estimation of the posterior expected loss of a given clustering estimate. See Dahl, Johnson, Müller (2022) <doi:10.1080/10618600.2022.2069779>.
Author: David B. Dahl [aut, cre] ,
Devin J. Johnson [aut] ,
Peter Mueller [aut],
Andres Felipe Barrientos [aut],
Garritt Page [aut],
David Dunson [aut],
Authors of the dependency Rust crates [ctb]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between salso versions 0.3.77 dated 2026-04-12 and 0.3.78 dated 2026-04-16
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 3 +++ src/rust/Cargo.lock | 39 +++++++++++++++++++++------------------ src/rust/Cargo.toml | 13 +++++++------ src/rust/rbindings/Cargo.toml | 2 +- src/rust/roxido/Cargo.toml | 2 +- src/rust/roxido_macro/Cargo.toml | 2 +- src/rust/vendor.tar.xz |binary 9 files changed, 46 insertions(+), 39 deletions(-)
Title: Management Strategy Evaluation for Salmon Species
Description: Simulation tools to evaluate the long-term effects of salmon management strategies, including a combination of habitat, harvest, and
habitat actions. The stochastic age-structured operating model accommodates complex life histories, including freshwater survival across
early life stages, juvenile survival and fishery exploitation in the marine life stage, partial maturity by age class, and fitness impacts of
hatchery programs on natural spawning populations. 'salmonMSE' also provides an age-structured conditioning model to develop operating models
fitted to data.
Author: Quang Huynh [aut, cre]
Maintainer: Quang Huynh <quang@bluematterscience.com>
Diff between salmonMSE versions 1.0.0 dated 2026-03-20 and 2.0.0 dated 2026-04-16
DESCRIPTION | 8 MD5 | 76 +- NAMESPACE | 2 NEWS.md | 9 R/AHA_int.R | 4 R/CM.R | 676 +++++++++---------- R/CM_int.R | 1 R/CMfun.R | 8 R/MMSE2SMSE.R | 59 + R/Rel.R | 74 +- R/SOM2MOM.R | 1599 ++++++++++++++++++++++----------------------- R/SOM2MOM_int.R | 2 R/SRR.R | 28 R/data_obj.R |only R/define-SOM.R | 24 R/hatchery.R | 9 R/plot-SOM.R | 374 +++++----- R/plot-statevar.R | 237 ++++++ R/ref.R | 674 +++++++++--------- R/rmd_SMSE.R | 4 R/salmonMSE.R | 78 ++ build/partial.rdb |binary data/glossary.rda |binary data/multi_SOM.rda |only data/simple_SOM.rda |only man/Bio-class.Rd | 24 man/Harvest-class.Rd | 2 man/Hatchery-class.Rd | 10 man/SMSE-class.Rd | 7 man/SOM-class.Rd | 8 man/calc_SRR.Rd | 14 man/calc_SRRpars.Rd | 9 man/calc_Smsy_Ricker.Rd | 9 man/calc_pwild_age.Rd | 4 man/calc_ref.Rd | 5 man/calc_smolt.Rd | 5 man/check_SOM.Rd | 4 man/plot_decision_table.Rd | 88 ++ man/plot_tradeoff.Rd | 62 + man/salmonMSE.Rd | 6 man/simple_SOM.Rd |only 41 files changed, 2425 insertions(+), 1778 deletions(-)
Title: Regression Estimation and Presentation
Description: A collection of functions for interpretation and presentation
of regression analysis. These functions are used
to produce the statistics lectures in
<https://pj.freefaculty.org/guides/>. Includes regression
diagnostics, regression tables, and plots of interactions and
"moderator" variables. The emphasis is on "mean-centered" and
"residual-centered" predictors. The vignette 'rockchalk' offers a
fairly comprehensive overview. The vignette 'Rstyle' has advice
about coding in R. The package title 'rockchalk' refers to our
school motto, 'Rock Chalk Jayhawk, Go K.U.'.
Author: Paul E. Johnson [aut, cre],
Gabor Grothendieck [ctb],
Dimitri Papadopoulos OrfanosGabor [ctb]
Maintainer: Paul E. Johnson <pauljohn32@freefaculty.org>
Diff between rockchalk versions 1.8.157 dated 2022-08-06 and 1.8.164 dated 2026-04-16
rockchalk-1.8.157/rockchalk/man/summary.factor.Rd |only rockchalk-1.8.164/rockchalk/DESCRIPTION | 17 rockchalk-1.8.164/rockchalk/MD5 | 84 - rockchalk-1.8.164/rockchalk/NAMESPACE | 2 rockchalk-1.8.164/rockchalk/R/centralValues.R | 8 rockchalk-1.8.164/rockchalk/R/descriptiveTable.R | 4 rockchalk-1.8.164/rockchalk/R/drawnorm.R | 2 rockchalk-1.8.164/rockchalk/R/mcDiagnose.R | 2 rockchalk-1.8.164/rockchalk/R/outreg.R | 5 rockchalk-1.8.164/rockchalk/R/pctable.R | 5 rockchalk-1.8.164/rockchalk/R/rockchalk-package.R | 8 rockchalk-1.8.164/rockchalk/R/summarize.R | 10 rockchalk-1.8.164/rockchalk/build/vignette.rds |binary rockchalk-1.8.164/rockchalk/data/cheating.RData |binary rockchalk-1.8.164/rockchalk/data/religioncrime.RData |binary rockchalk-1.8.164/rockchalk/inst/doc/Rchaeology.R | 74 - rockchalk-1.8.164/rockchalk/inst/doc/Rchaeology.Rnw | 283 ++- rockchalk-1.8.164/rockchalk/inst/doc/Rchaeology.pdf |binary rockchalk-1.8.164/rockchalk/inst/doc/Rstyle.R | 8 rockchalk-1.8.164/rockchalk/inst/doc/Rstyle.Rnw | 304 ++-- rockchalk-1.8.164/rockchalk/inst/doc/Rstyle.pdf |binary rockchalk-1.8.164/rockchalk/inst/doc/outreg.R | 50 rockchalk-1.8.164/rockchalk/inst/doc/outreg.Rnw | 74 - rockchalk-1.8.164/rockchalk/inst/doc/outreg.pdf |binary rockchalk-1.8.164/rockchalk/inst/doc/rockchalk.R | 28 rockchalk-1.8.164/rockchalk/inst/doc/rockchalk.Rnw | 88 - rockchalk-1.8.164/rockchalk/inst/doc/rockchalk.pdf |binary rockchalk-1.8.164/rockchalk/man/cheating.Rd | 1 rockchalk-1.8.164/rockchalk/man/descriptiveTable.Rd | 2 rockchalk-1.8.164/rockchalk/man/drawnorm.Rd | 2 rockchalk-1.8.164/rockchalk/man/getPartialCor.Rd | 2 rockchalk-1.8.164/rockchalk/man/kurtosis.Rd | 2 rockchalk-1.8.164/rockchalk/man/pctable.Rd | 5 rockchalk-1.8.164/rockchalk/man/rockchalk-package.Rd | 6 rockchalk-1.8.164/rockchalk/man/skewness.Rd | 2 rockchalk-1.8.164/rockchalk/man/summary_factor.Rd |only rockchalk-1.8.164/rockchalk/vignettes/Rchaeology.Rnw | 283 ++- rockchalk-1.8.164/rockchalk/vignettes/Rchaeology.lyx | 10 rockchalk-1.8.164/rockchalk/vignettes/Rstyle.Rnw | 304 ++-- rockchalk-1.8.164/rockchalk/vignettes/Rstyle.lyx | 6 rockchalk-1.8.164/rockchalk/vignettes/outreg.Rnw | 74 - rockchalk-1.8.164/rockchalk/vignettes/outreg.lyx | 997 +++++++++----- rockchalk-1.8.164/rockchalk/vignettes/rockchalk.Rnw | 88 - rockchalk-1.8.164/rockchalk/vignettes/theme/logo-vert.pdf |binary 44 files changed, 1721 insertions(+), 1119 deletions(-)
Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre] ,
Hadley Wickham [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 1.2.1 dated 2026-04-12 and 1.2.2 dated 2026-04-16
renv-1.2.1/renv/inst/repos/src/contrib/renv_1.2.1.tar.gz |only renv-1.2.2/renv/DESCRIPTION | 6 renv-1.2.2/renv/MD5 | 62 +-- renv-1.2.2/renv/NEWS.md | 13 renv-1.2.2/renv/R/graph.R | 256 +++++++-------- renv-1.2.2/renv/R/install.R | 14 renv-1.2.2/renv/R/project.R | 8 renv-1.2.2/renv/R/roxygen.R | 16 renv-1.2.2/renv/build/vignette.rds |binary renv-1.2.2/renv/inst/doc/faq.Rmd | 2 renv-1.2.2/renv/inst/doc/faq.html | 2 renv-1.2.2/renv/inst/doc/package-install.Rmd | 2 renv-1.2.2/renv/inst/doc/package-install.html | 2 renv-1.2.2/renv/inst/doc/rsconnect.Rmd | 2 renv-1.2.2/renv/inst/doc/rsconnect.html | 2 renv-1.2.2/renv/inst/repos/src/contrib/PACKAGES | 4 renv-1.2.2/renv/inst/repos/src/contrib/PACKAGES.gz |binary renv-1.2.2/renv/inst/repos/src/contrib/PACKAGES.rds |binary renv-1.2.2/renv/inst/repos/src/contrib/renv_1.2.2.tar.gz |only renv-1.2.2/renv/man/install.Rd | 28 + renv-1.2.2/renv/man/retrieve.Rd | 15 renv-1.2.2/renv/tests/testthat/_snaps/sysreqs.md | 2 renv-1.2.2/renv/tests/testthat/helper-scope.R | 5 renv-1.2.2/renv/tests/testthat/helper-setup.R | 58 +++ renv-1.2.2/renv/tests/testthat/test-available-packages.R | 4 renv-1.2.2/renv/tests/testthat/test-cache.R | 13 renv-1.2.2/renv/tests/testthat/test-checkout.R | 10 renv-1.2.2/renv/tests/testthat/test-graph.R | 47 ++ renv-1.2.2/renv/tests/testthat/test-install.R | 22 + renv-1.2.2/renv/tests/testthat/test-sysreqs.R | 6 renv-1.2.2/renv/vignettes/faq.Rmd | 2 renv-1.2.2/renv/vignettes/package-install.Rmd | 2 renv-1.2.2/renv/vignettes/rsconnect.Rmd | 2 33 files changed, 397 insertions(+), 210 deletions(-)
Title: Reliability Growth Analysis and Repairable Systems Modeling
Description: Modeling and plotting functions for Reliability Growth Analysis (RGA) and Non-Homogeneous Poisson Process (NHPP) models for repairable systems. RGA models include the Duane (1962) <doi:10.1109/TA.1964.4319640>, NHPP by Crow (1975) (No. AMSAATR138), Piecewise Weibull NHPP by Guo et al. (2010) <doi:10.1109/RAMS.2010.5448029>, and Piecewise Weibull NHPP with Change Point Detection based on the 'segmented' package by Muggeo (2024) <https://cran.r-project.org/package=segmented>. Repairable systems functions include the Mean Cumulative Function (MCF) using the Nelson-Aalen estimator, parametric Power Law and Log-Linear NHPP models, and forecasting.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between ReliaGrowR versions 0.4 dated 2026-03-31 and 0.6 dated 2026-04-16
ReliaGrowR-0.4/ReliaGrowR/inst/paper |only ReliaGrowR-0.6/ReliaGrowR/DESCRIPTION | 12 ReliaGrowR-0.6/ReliaGrowR/MD5 | 73 ++-- ReliaGrowR-0.6/ReliaGrowR/NAMESPACE | 19 + ReliaGrowR-0.6/ReliaGrowR/NEWS.md | 15 ReliaGrowR-0.6/ReliaGrowR/R/exposure.R |only ReliaGrowR-0.6/ReliaGrowR/R/mcf.R |only ReliaGrowR-0.6/ReliaGrowR/R/nhpp.R |only ReliaGrowR-0.6/ReliaGrowR/R/rga.R | 180 +++++++++++ ReliaGrowR-0.6/ReliaGrowR/README.md | 30 + ReliaGrowR-0.6/ReliaGrowR/build/vignette.rds |binary ReliaGrowR-0.6/ReliaGrowR/inst/WORDLIST | 19 + ReliaGrowR-0.6/ReliaGrowR/inst/doc/RGF.R | 34 -- ReliaGrowR-0.6/ReliaGrowR/inst/doc/RGF.Rmd | 34 -- ReliaGrowR-0.6/ReliaGrowR/inst/doc/RGF.html | 36 -- ReliaGrowR-0.6/ReliaGrowR/inst/doc/RSA.R |only ReliaGrowR-0.6/ReliaGrowR/inst/doc/RSA.Rmd |only ReliaGrowR-0.6/ReliaGrowR/inst/doc/RSA.html |only ReliaGrowR-0.6/ReliaGrowR/inst/hex_sticker.R |only ReliaGrowR-0.6/ReliaGrowR/man/exposure.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/figures/logo.png |only ReliaGrowR-0.6/ReliaGrowR/man/mcf.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/nhpp.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/overlay_nhpp.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/overlay_rga.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/plot.exposure.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/plot.mcf.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/plot.nhpp.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/plot.nhpp_predict.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/plot.rga.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/man/plot.rga_predict.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/man/predict_nhpp.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/predict_rga.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/man/print.exposure.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/print.mcf.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/print.nhpp.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/print.nhpp_predict.Rd |only ReliaGrowR-0.6/ReliaGrowR/man/print.rga.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/man/print.rga_predict.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/man/rga.Rd | 1 ReliaGrowR-0.6/ReliaGrowR/tests/testthat/Rplots.pdf |binary ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-duane.R | 3 ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-exposure.R |only ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-mcf.R |only ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-nhpp.R |only ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-rga.R | 112 ++++++ ReliaGrowR-0.6/ReliaGrowR/tests/testthat/test-srr-testdata.R | 2 ReliaGrowR-0.6/ReliaGrowR/vignettes/RGF.Rmd | 34 -- ReliaGrowR-0.6/ReliaGrowR/vignettes/RSA.Rmd |only 49 files changed, 430 insertions(+), 179 deletions(-)
Title: Spatial Phylogenetic Analysis
Description: Analyze spatial phylogenetic diversity patterns.
Use your data on an evolutionary tree and geographic distributions of the
terminal taxa to compute diversity and endemism metrics, test significance
with null model randomization, analyze community turnover and biotic
regionalization, and perform spatial conservation prioritizations. All
functions support quantitative community data in addition to binary data.
Author: Matthew Kling [aut, cre, cph]
Maintainer: Matthew Kling <mattkling@berkeley.edu>
Diff between phylospatial versions 1.3.0 dated 2026-04-03 and 1.4.0 dated 2026-04-16
DESCRIPTION | 10 +- MD5 | 54 ++++++++------ NAMESPACE | 3 NEWS.md | 12 +++ R/phylospatial.R | 11 ++- R/ps_grid.R |only R/ps_quantize.R | 31 ++++++-- R/ps_rand.R | 101 ++++++++++++++++++++++----- R/ps_trace.R |only inst/doc/alpha-diversity.R | 31 +++++++- inst/doc/alpha-diversity.Rmd | 51 ++++++++++++- inst/doc/alpha-diversity.html | 124 ++++++++++++++++++++++++++-------- inst/doc/beta-diversity.R | 28 +++++++ inst/doc/beta-diversity.Rmd | 39 +++++++++- inst/doc/beta-diversity.html | 116 ++++++++++++++++++++++--------- inst/doc/phylospatial-data.R | 17 ++++ inst/doc/phylospatial-data.Rmd | 26 +++++++ inst/doc/phylospatial-data.html | 65 +++++++++++++++-- inst/extdata/alpha-diversity-rand.tif |binary man/phylospatial.Rd | 8 ++ man/ps_grid.Rd |only man/ps_quantize.Rd | 27 ++++++- man/ps_rand.Rd | 61 ++++++++++++---- man/ps_suggest_n_iter.Rd |only man/ps_trace.Rd |only tests/testthat/test-ps_grid.R |only tests/testthat/test-ps_quantize.R | 11 +++ tests/testthat/test-ps_rand.R | 45 +++++++++++- vignettes/alpha-diversity.Rmd | 51 ++++++++++++- vignettes/beta-diversity.Rmd | 39 +++++++++- vignettes/phylospatial-data.Rmd | 26 +++++++ 31 files changed, 814 insertions(+), 173 deletions(-)
Title: Spline-Based Nonlinear Modeling for Multilevel and Longitudinal
Data
Description: Provides a unified framework for fitting, predicting, and
interpreting nonlinear relationships in single-level, multilevel, and
longitudinal regression models. Flexible functional forms are supported
using natural cubic splines ('splines'), B-splines ('splines'), and GAM
smooths ('mgcv'). Supports two-way and nested clustering via 'lme4',
automatic knot selection by AIC or BIC, multilevel R-squared
decomposition (Nakagawa-Schielzeth marginal and conditional R-squared
with level-specific variance partitioning), a postestimation suite
returning first and second derivatives with confidence bands, turning
points and inflection regions, and a model comparison workflow
contrasting linear, polynomial, and spline fits by AIC, BIC, and
likelihood-ratio tests. Cluster heterogeneity in nonlinear effects is
supported via random-slope spline terms.
Author: Subir Hait [aut, cre]
Maintainer: Subir Hait <haitsubi@msu.edu>
Diff between MultiSpline versions 0.1.1 dated 2026-03-16 and 0.2.0 dated 2026-04-16
MultiSpline-0.1.1/MultiSpline/LICENSE |only MultiSpline-0.1.1/MultiSpline/tests |only MultiSpline-0.2.0/MultiSpline/DESCRIPTION | 55 - MultiSpline-0.2.0/MultiSpline/MD5 | 47 MultiSpline-0.2.0/MultiSpline/NAMESPACE | 34 MultiSpline-0.2.0/MultiSpline/NEWS.md | 79 + MultiSpline-0.2.0/MultiSpline/R/nl_compare.R |only MultiSpline-0.2.0/MultiSpline/R/nl_derivatives.R |only MultiSpline-0.2.0/MultiSpline/R/nl_fit.R | 802 ++++++++--------- MultiSpline-0.2.0/MultiSpline/R/nl_het.R |only MultiSpline-0.2.0/MultiSpline/R/nl_icc.R | 294 ++---- MultiSpline-0.2.0/MultiSpline/R/nl_knots.R |only MultiSpline-0.2.0/MultiSpline/R/nl_methods.R | 24 MultiSpline-0.2.0/MultiSpline/R/nl_plot.R | 469 ++++----- MultiSpline-0.2.0/MultiSpline/R/nl_predict.R | 631 ++++++------- MultiSpline-0.2.0/MultiSpline/R/nl_r2.R |only MultiSpline-0.2.0/MultiSpline/R/nl_summary.R | 84 - MultiSpline-0.2.0/MultiSpline/R/utils.R | 22 MultiSpline-0.2.0/MultiSpline/README.md | 383 ++++++-- MultiSpline-0.2.0/MultiSpline/inst |only MultiSpline-0.2.0/MultiSpline/man/nl_compare.Rd |only MultiSpline-0.2.0/MultiSpline/man/nl_derivatives.Rd |only MultiSpline-0.2.0/MultiSpline/man/nl_fit.Rd | 180 +-- MultiSpline-0.2.0/MultiSpline/man/nl_het.Rd |only MultiSpline-0.2.0/MultiSpline/man/nl_icc.Rd | 39 MultiSpline-0.2.0/MultiSpline/man/nl_knots.Rd |only MultiSpline-0.2.0/MultiSpline/man/nl_plot.Rd | 122 -- MultiSpline-0.2.0/MultiSpline/man/nl_predict.Rd | 100 -- MultiSpline-0.2.0/MultiSpline/man/nl_r2.Rd |only MultiSpline-0.2.0/MultiSpline/man/nl_summary.Rd | 37 MultiSpline-0.2.0/MultiSpline/man/nl_turning_points.Rd |only 31 files changed, 1706 insertions(+), 1696 deletions(-)
Title: Models of Trait Macroevolution on Trees
Description: Functions for fitting models of trait evolution
on phylogenies for continuous traits. The majority of functions are
described in Thomas and Freckleton (2012)
<doi:10.1111/j.2041-210X.2011.00132.x> and allow tests of variation
in the rates of trait evolution.
Author: Mark Puttick [aut, cph] ,
Gavin Thomas [aut, cph],
Rob Freckleton [aut, cph],
Magnus Clarke [ctb],
Travis Ingram [ctb],
David Orme [ctb],
Emmanuel Paradis [ctb],
Martin R. Smith [ctb, cre]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
This is a re-admission after prior archival of version 2.1.3 dated 2019-11-25
Diff between motmot versions 2.1.3 dated 2019-11-25 and 2.1.4 dated 2026-04-16
motmot-2.1.3/motmot/R/RData_mammals.R |only motmot-2.1.3/motmot/R/motmot-package.R |only motmot-2.1.3/motmot/data/mammals.rda |only motmot-2.1.3/motmot/inst/doc/motmot.R |only motmot-2.1.3/motmot/inst/doc/motmot.Rmd |only motmot-2.1.3/motmot/inst/doc/motmot.html |only motmot-2.1.3/motmot/man/mammals.Rd |only motmot-2.1.3/motmot/vignettes/motmot.Rmd |only motmot-2.1.4/motmot/DESCRIPTION | 59 +++++++++++---- motmot-2.1.4/motmot/MD5 | 86 ++++++++++++---------- motmot-2.1.4/motmot/NAMESPACE | 1 motmot-2.1.4/motmot/NEWS.md |only motmot-2.1.4/motmot/R/ML.RatePhylo.R | 34 ++++---- motmot-2.1.4/motmot/R/RData_finch_sympatric.R |only motmot-2.1.4/motmot/R/chr.displacement_fun.R | 20 ++--- motmot-2.1.4/motmot/R/mcmc.plot.R | 2 motmot-2.1.4/motmot/R/package-motmot.R |only motmot-2.1.4/motmot/R/plot.timeSlice.ML.R | 4 - motmot-2.1.4/motmot/R/plot.traitMedusa.model.R | 4 - motmot-2.1.4/motmot/R/sortTraitData.R | 2 motmot-2.1.4/motmot/R/summary.traitMedusa.R | 2 motmot-2.1.4/motmot/R/supplementary_fun.R | 16 ++-- motmot-2.1.4/motmot/R/transformPhylo.MCMC.R | 14 +-- motmot-2.1.4/motmot/R/transformPhylo.ML.R | 38 ++++----- motmot-2.1.4/motmot/R/transformPhylo.R | 26 +++--- motmot-2.1.4/motmot/R/transformPhylo.ll.R | 32 +++----- motmot-2.1.4/motmot/README.md |only motmot-2.1.4/motmot/build/partial.rdb |only motmot-2.1.4/motmot/build/vignette.rds |binary motmot-2.1.4/motmot/data/finches.rda |binary motmot-2.1.4/motmot/inst/doc/motmot.vignette.R |only motmot-2.1.4/motmot/inst/doc/motmot.vignette.Rmd |only motmot-2.1.4/motmot/inst/doc/motmot.vignette.html |only motmot-2.1.4/motmot/man/ML.RatePhylo.Rd | 34 ++++---- motmot-2.1.4/motmot/man/allopatric.data.Rd | 4 - motmot-2.1.4/motmot/man/anolis.data.Rd | 4 - motmot-2.1.4/motmot/man/anolis.tree.Rd | 4 - motmot-2.1.4/motmot/man/finch.data.Rd | 4 - motmot-2.1.4/motmot/man/finch.tree.Rd | 4 - motmot-2.1.4/motmot/man/motmot-package.Rd | 19 ++++ motmot-2.1.4/motmot/man/sympatric.data.Rd |only motmot-2.1.4/motmot/man/transformPhylo.MCMC.Rd | 14 +-- motmot-2.1.4/motmot/man/transformPhylo.ML.Rd | 35 ++++---- motmot-2.1.4/motmot/man/transformPhylo.Rd | 26 +++--- motmot-2.1.4/motmot/man/transformPhylo.ll.Rd | 32 +++----- motmot-2.1.4/motmot/src/packagename_init.c | 4 - motmot-2.1.4/motmot/vignettes/figures |only motmot-2.1.4/motmot/vignettes/motmot.vignette.Rmd |only 48 files changed, 289 insertions(+), 235 deletions(-)
Title: Estimates Degrees of Relatedness (Up to the Second Degree) for
Extreme Low-Coverage Data
Description: The goal of the package is to provide an easy-to-use method
for estimating degrees of relatedness (up to the second degree)
for extreme low-coverage data. The package also allows users to
quantify and visualise the level of confidence in the estimated
degrees of relatedness.
Author: Jono Tuke [aut, cre] ,
Adam B. Rohrlach [aut] ,
Wolfgang Haak [aut] ,
Divyaratan Popli [aut]
Maintainer: Jono Tuke <simon.tuke@adelaide.edu.au>
Diff between BREADR versions 1.0.3 dated 2025-04-14 and 1.1.0 dated 2026-04-16
DESCRIPTION | 25 - MD5 | 47 +-- NAMESPACE | 2 NEWS.md | 10 R/callRelatedness.R | 169 ++++++++---- R/plotDOUGH.R |only R/plotLOAF.R | 146 +++++++--- R/plotSLICE.R | 229 +++++++++++------ R/priorSensitivity.R |only R/processEigenstrat.R | 346 ++++++++++++++++--------- R/saveSLICES.R | 82 ++++-- R/test_degree.R | 92 ++++-- README.md | 2 build/vignette.rds |binary inst/CITATION | 20 - inst/WORDLIST | 20 + inst/doc/example-pipeline.R | 55 +++- inst/doc/example-pipeline.Rmd | 151 +++++++++-- inst/doc/example-pipeline.html | 453 +++++++++++++++++++++++++++++----- inst/extdata/example2.ind.txt |only man/plotDOUGH.Rd |only man/plotSLICE.Rd | 2 man/priorSensitivity.Rd |only man/processEigenstrat.Rd | 14 - man/saveSLICES.Rd | 2 tests/testthat/test-callRelatedness.R | 2 vignettes/example-pipeline.Rmd | 151 +++++++++-- 27 files changed, 1515 insertions(+), 505 deletions(-)
Title: Bayesian Latent Variable Models
Description: Estimation of latent variable models using Bayesian methods. Currently estimates the loglinear cognitive diagnosis model of Henson, Templin, and Willse (2009) <doi:10.1007/s11336-008-9089-5>.
Author: Jonathan Templin [aut, cre]
Maintainer: Jonathan Templin <jtempli@clemson.edu>
Diff between blatent versions 0.1.2 dated 2023-12-08 and 0.1.3 dated 2026-04-16
DESCRIPTION | 15 ++++++++------- MD5 | 5 +++-- NEWS.md |only src/RcppExports.cpp | 4 ++-- 4 files changed, 13 insertions(+), 11 deletions(-)
Title: Biological Geometries
Description: Is used to simulate and fit biological geometries. 'biogeom' incorporates several novel universal parametric equations that can generate the profiles of bird eggs, flowers, linear and lanceolate leaves, seeds, starfish, and tree-rings (Gielis (2003) <doi:10.3732/ajb.90.3.333>; Shi et al. (2020) <doi:10.3390/sym12040645>), three growth-rate curves representing the ontogenetic growth trajectories of animals and plants against time, and the axially symmetrical and integral forms of all these functions (Shi et al. (2017) <doi:10.1016/j.ecolmodel.2017.01.012>; Shi et al. (2021) <doi:10.3390/sym13081524>). The optimization method proposed by Nelder and Mead (1965) <doi:10.1093/comjnl/7.4.308> was used to estimate model parameters. 'biogeom' includes several real data sets of the boundary coordinates of natural shapes, including avian eggs, fruit, lanceolate and ovate leaves, tree rings, seeds, and sea stars,and can be potentially applied to other natural shapes. [...truncated...]
Author: Peijian Shi [aut, cre],
Johan Gielis [aut],
Brady K. Quinn [aut]
Maintainer: Peijian Shi <pjshi@njfu.edu.cn>
Diff between biogeom versions 1.5.0 dated 2025-08-24 and 1.5.1 dated 2026-04-16
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/PlanCoor.R | 6 +++--- build/partial.rdb |binary man/PlanCoor.Rd | 10 +++++++--- man/SAMs.Rd | 13 +++++++------ man/SurfaceAreaAM.Rd | 4 ++++ man/VolumeAM.Rd | 6 +++++- man/fitAM.Rd | 19 ++++++++++--------- 9 files changed, 48 insertions(+), 34 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-19 0.1.0
Title: Implements the Leiden Algorithm via an R Interface
Description: An R interface to the Leiden algorithm, an iterative community detection algorithm on networks. The algorithm is designed to converge to a partition in which all subsets of all communities are locally optimally assigned, yielding communities guaranteed to be connected. The implementation proves to be fast, scales well, and can be run on graphs of millions of nodes (as long as they can fit in memory). The original implementation was constructed as a python interface "leidenalg" found here: <https://github.com/vtraag/leidenalg>. The algorithm was originally described in Traag, V.A., Waltman, L. & van Eck, N.J. "From Louvain to Leiden: guaranteeing well-connected communities". Sci Rep 9, 5233 (2019) <doi:10.1038/s41598-019-41695-z>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
Yichen Wang [aut],
V.A. Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Minh Van Nguyen [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between leidenAlg versions 1.1.6-1 dated 2026-04-15 and 1.1.7 dated 2026-04-16
leidenAlg-1.1.6-1/leidenAlg/src/rigraph/lazyeval.c |only leidenAlg-1.1.7/leidenAlg/DESCRIPTION | 6 - leidenAlg-1.1.7/leidenAlg/MD5 |only leidenAlg-1.1.7/leidenAlg/README.md | 2 leidenAlg-1.1.7/leidenAlg/src/rigraph/Makefile | 2 leidenAlg-1.1.7/leidenAlg/src/rigraph/Makefile.win | 2 leidenAlg-1.1.7/leidenAlg/src/rigraph/rinterface.c | 32 ++++++++ leidenAlg-1.1.7/leidenAlg/src/rigraph/rinterface_extra.c | 57 +++++++++++++-- 8 files changed, 89 insertions(+), 12 deletions(-)
Title: Engression Modelling
Description: Fits engression models for nonlinear distributional regression. Predictors and targets can be univariate or multivariate. Functionality includes estimation of conditional mean, estimation of conditional quantiles, or sampling from the fitted distribution. Training is done full-batch on CPU (the python version offers GPU-accelerated stochastic gradient descent). Based on "Engression: Extrapolation through the lens of distributional regression" by Xinwei Shen and Nicolai Meinshausen (2024) in JRSSB. Also supports classification (experimental).
<doi:10.1093/jrsssb/qkae108>.
Author: Xinwei Shen [aut],
Nicolai Meinshausen [aut, cre]
Maintainer: Nicolai Meinshausen <meinshausen@stat.math.ethz.ch>
Diff between engression versions 0.1.5 dated 2026-01-07 and 0.1.6 dated 2026-04-16
DESCRIPTION | 6 +++--- MD5 | 19 ++++++++++--------- NEWS.md |only R/engression.R | 20 +++++++++++--------- R/engressionfit.R | 4 ++-- R/predict.engression.R | 17 +++++++++-------- R/print.engression.R | 6 ++++-- man/engression.Rd | 10 ++++++---- man/engressionfit.Rd | 4 ++-- man/predict.engression.Rd | 6 +++--- man/print.engression.Rd | 4 +++- 11 files changed, 53 insertions(+), 43 deletions(-)
Title: Convert Country Names and Country Codes
Description: Standardize country names, convert them into one of 40
different coding schemes, convert between coding schemes, and assign
region descriptors.
Author: Vincent Arel-Bundock [aut, cre] ,
CJ Yetman [ctb] ,
Nils Enevoldsen [ctb] ,
Etienne Bacher [ctb] ,
Samuel Meichtry [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between countrycode versions 1.7.0 dated 2026-02-27 and 1.8.0 dated 2026-04-16
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ R/codelist.R | 1 + R/countrycode.R | 8 +++++--- data/codelist.rda |binary data/codelist_panel.rda |binary man/codelist.Rd | 1 + tests/testthat/test-corner-cases.R | 3 +++ tests/testthat/test-regex-internal.R | 34 ++++++++++++++++++++++------------ tests/testthat/test-regex-special.R | 5 +++++ 11 files changed, 55 insertions(+), 28 deletions(-)