Title: Economic Statistics System of the Bank of Korea
Description: API wrapper to download statistical information from the Economic
Statistics System (ECOS) of the Bank of Korea
<https://ecos.bok.or.kr/api/#/>.
Author: Seokhoon Joo [aut, cre],
Jaehyun Joo [ctb]
Maintainer: Seokhoon Joo <seokhoonj@gmail.com>
Diff between ecos versions 0.1.6 dated 2024-02-08 and 0.1.7 dated 2025-07-31
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 14 ++++++++++++-- R/keyStatList.R | 2 +- R/statMeta.R | 2 +- R/statSearch.R | 2 +- R/statTableList.R | 11 +++++++---- R/statWord.R | 2 +- R/utils.R | 12 ++++++------ man/statTableList.Rd | 9 ++++++++- 10 files changed, 50 insertions(+), 30 deletions(-)
Title: Smooth Time-Dependent ROC Curve Estimation
Description: Computes smooth estimations for the Cumulative/Dynamic and Incident/Dynamic ROC curves, in presence of right censorship, based on the bivariate kernel density estimation of the joint distribution function of the Marker and Time-to-event variables.
Author: Susana Diaz-Coto [aut, cre]
Maintainer: Susana Diaz-Coto <susanacoto@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2018-11-14
Diff between smoothROCtime versions 0.1.0 dated 2018-11-14 and 0.1.1 dated 2025-07-31
DESCRIPTION | 22 +++++++++++++--------- MD5 | 14 +++++++------- NAMESPACE | 1 - build/partial.rdb |binary man/funcen.Rd | 16 ++++++++-------- man/plotsROCt.Rd | 2 +- man/smoothROCtime-package.Rd | 16 ++++++++-------- man/stRoc.Rd | 23 +++++++++++------------ 8 files changed, 48 insertions(+), 46 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use
in photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse ratios and
other derived quantities from spectral data. Local maxima and minima: peaks,
valleys and spikes. Conversion between energy-and photon-based units.
Wavelength interpolation. Colours and vision. This package is part of the
'r4photobiology' suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] ,
Titta K. Kotilainen [ctb] ,
Glenn Davis [ctb],
Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.13.1 dated 2025-06-23 and 0.13.2 dated 2025-07-31
DESCRIPTION | 15 - MD5 | 124 +++++++------- NAMESPACE | 10 + NEWS.md | 13 + R/interpolate.spectrum.r | 37 +++- R/mspct.mean.r | 54 +++--- R/mspct.mean.se.band.r | 44 +--- R/mspct.mean.se.r | 42 +--- R/mspct.median.r | 41 +--- R/mspct.prod.r | 41 +--- R/mspct.quantile.r |only R/mspct.range.r | 43 +--- R/mspct.row.funs.r | 12 - R/mspct.sd.r | 39 +--- R/mspct.se.r | 42 +--- R/mspct.sum.r | 40 +--- R/mspct.var.r | 43 +--- R/source-spct-ratios.R | 64 ++++--- R/spct.illuminance.r | 10 - R/spct.integrate.r | 34 +-- R/spct.irrad.r | 61 ++---- R/spct.normalize.r | 5 R/spct.peaks.r | 249 ++++++++++++++++++---------- R/spct.response.R | 11 - README.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/userguide-0-r4p-introduction.Rmd | 4 inst/doc/userguide-0-r4p-introduction.html | 7 inst/doc/userguide-1-radiation.html | 50 ++--- man/check_wl_stepsize.Rd | 3 man/e_fluence.Rd | 11 - man/e_irrad.Rd | 11 - man/e_ratio.Rd | 12 - man/eq_ratio.Rd | 14 - man/find_peaks.Rd | 71 +++++--- man/fluence.Rd | 11 - man/get_peaks.Rd | 256 +++++++++++++++-------------- man/interpolate_spct.Rd | 42 +++- man/interpolate_spectrum.Rd | 33 +++ man/interpolate_wl.Rd | 40 +++- man/irrad.Rd | 12 - man/normalize.Rd | 2 man/peaks.Rd | 106 ++++-------- man/photobiology-package.Rd | 2 man/q_fluence.Rd | 11 - man/q_irrad.Rd | 11 - man/q_ratio.Rd | 12 - man/qe_ratio.Rd | 14 - man/rowwise.Rd | 2 man/s_mean.Rd | 49 ++--- man/s_mean_se.Rd | 52 ++--- man/s_mean_se_band.Rd | 49 ++--- man/s_median.Rd | 52 ++--- man/s_prod.Rd | 41 ---- man/s_quantile.Rd |only man/s_range.Rd | 54 ++---- man/s_sd.Rd | 42 +--- man/s_se.Rd | 46 +---- man/s_sum.Rd | 36 ---- man/s_var.Rd | 46 +---- man/valleys.Rd | 106 ++++-------- man/wls_at_target.Rd | 26 -- vignettes/userguide-0-r4p-introduction.Rmd | 4 64 files changed, 1074 insertions(+), 1344 deletions(-)
Title: Download Official Data on Brazil's Federal Budget
Description: Allows users to download and analyze official data on Brazil's federal budget through the 'SPARQL' endpoint
provided by the Integrated Budget and Planning System ('SIOP'). This package enables access to detailed information on budget
allocations and expenditures of the federal government, making it easier to analyze and visualize these data. Technical
information on the Brazilian federal budget is available (Portuguese only) at <https://www1.siop.planejamento.gov.br/mto/>.
The 'SIOP' endpoint is available at <https://www1.siop.planejamento.gov.br/sparql/>.
Author: Daniel Gersten Reiss [aut, cre] ,
Bernardo Borba de Andrade [ctb] ,
Gustavo Jose de Guimaraes e Souza [ctb] ,
Ministerio do Planejamento e Orcamento [cph, fnd]
Maintainer: Daniel Gersten Reiss <daniel.reiss@planejamento.gov.br>
Diff between orcamentoBR versions 1.0.4 dated 2025-04-05 and 1.0.5 dated 2025-07-31
DESCRIPTION | 18 +++++++++--------- MD5 | 8 ++++---- R/SIOPutils.R | 2 +- R/orcamentoBR.R | 4 +++- man/despesaDetalhada.Rd | 4 +++- 5 files changed, 20 insertions(+), 16 deletions(-)
Title: Data Sets Useful for Modeling Examples
Description: Data sets used for demonstrating or testing model-related
packages are contained in this package.
Author: Max Kuhn [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between modeldata versions 1.4.0 dated 2024-06-19 and 1.5.0 dated 2025-07-31
modeldata-1.4.0/modeldata/R/reexports.R |only modeldata-1.4.0/modeldata/man/reexports.Rd |only modeldata-1.5.0/modeldata/DESCRIPTION | 20 modeldata-1.5.0/modeldata/LICENSE | 2 modeldata-1.5.0/modeldata/MD5 | 33 modeldata-1.5.0/modeldata/NAMESPACE | 5 modeldata-1.5.0/modeldata/NEWS.md | 6 modeldata-1.5.0/modeldata/R/ames.R | 4 modeldata-1.5.0/modeldata/R/car_prices.R | 2 modeldata-1.5.0/modeldata/R/import-standalone-obj-type.R |only modeldata-1.5.0/modeldata/R/import-standalone-types-check.R |only modeldata-1.5.0/modeldata/R/modeldata-package.R | 40 + modeldata-1.5.0/modeldata/R/simulations.R | 399 +++++++++--- modeldata-1.5.0/modeldata/build/partial.rdb |binary modeldata-1.5.0/modeldata/man/ames.Rd | 4 modeldata-1.5.0/modeldata/man/car_prices.Rd | 2 modeldata-1.5.0/modeldata/man/modeldata-package.Rd | 2 modeldata-1.5.0/modeldata/man/sim_classification.Rd | 62 + modeldata-1.5.0/modeldata/tests/testthat/_snaps |only modeldata-1.5.0/modeldata/tests/testthat/test-simulations.R | 168 ++++- 20 files changed, 573 insertions(+), 176 deletions(-)
Title: Preprocessing Operators and Pipelines for 'mlr3'
Description: Dataflow programming toolkit that enriches 'mlr3' with a diverse
set of pipelining operators ('PipeOps') that can be composed into graphs.
Operations exist for data preprocessing, model fitting, and ensemble
learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can
therefore be resampled, benchmarked, and tuned.
Author: Martin Binder [aut, cre],
Florian Pfisterer [aut] ,
Lennart Schneider [aut] ,
Bernd Bischl [aut] ,
Michel Lang [aut] ,
Sebastian Fischer [aut] ,
Susanne Dandl [aut],
Keno Mersmann [ctb],
Maximilian Muecke [ctb] ,
Lona Koers [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>
Diff between mlr3pipelines versions 0.8.0 dated 2025-06-17 and 0.9.0 dated 2025-07-31
DESCRIPTION | 8 MD5 | 62 ++-- NEWS.md | 16 + R/PipeOp.R | 30 +- R/PipeOpEnsemble.R | 7 R/PipeOpFilter.R | 12 R/PipeOpFixFactors.R | 16 - R/PipeOpImpute.R | 126 ++++++-- R/PipeOpImputeConstant.R | 33 +- R/PipeOpImputeLearner.R | 5 R/PipeOpImputeOOR.R | 53 ++- R/PipeOpImputeSample.R | 4 R/PipeOpLearner.R | 3 R/PipeOpLearnerCV.R | 6 R/PipeOpLearnerPICVPlus.R | 2 R/PipeOpLearnerQuantiles.R | 4 R/PipeOpTaskPreproc.R | 6 R/PipeOpVtreat.R | 2 R/multiplicity.R | 2 R/zzz.R | 3 build/partial.rdb |binary build/vignette.rds |binary inst/doc/extending.html | 432 ++++++++++++++--------------- inst/testthat/helper_functions.R | 33 -- man/Multiplicity.Rd | 2 man/PipeOpImpute.Rd | 41 ++ man/mlr_pipeops_imputeconstant.Rd | 22 - man/mlr_pipeops_imputeoor.Rd | 32 +- man/mlr_pipeops_vtreat.Rd | 2 tests/testthat/test_PipeOp.R | 95 ++++++ tests/testthat/test_pipeop_impute.R | 342 ++++++++++++++++++---- tests/testthat/test_pipeop_imputelearner.R | 39 ++ 32 files changed, 952 insertions(+), 488 deletions(-)
Title: Facilitate Analysis of Proteomic Data from Olink
Description: A collection of functions to facilitate analysis of proteomic
data from Olink, primarily NPX data that has been exported from Olink
Software. The functions also work on QUANT data from
Olink by log- transforming the QUANT data. The functions are focused
on reading data, facilitating data wrangling and quality control
analysis, performing statistical analysis and generating figures to
visualize the results of the statistical analysis. The goal of this
package is to help users extract biological insights from proteomic
data run on the Olink platform.
Author: Kathleen Nevola [aut, cre] ,
Marianne Sandin [aut] ,
Jamey Guess [aut] ,
Simon Forsberg [aut] ,
Christoffer Cambronero [aut] ,
Pascal Pucholt [aut] ,
Boxi Zhang [aut] ,
Masoumeh Sheikhi [aut] ,
Klev Diamanti [aut] ,
Amrita Kar [aut] ,
Lei Conze [aut] [...truncated...]
Maintainer: Kathleen Nevola <biostattools@olink.com>
Diff between OlinkAnalyze versions 4.3.0 dated 2025-06-24 and 4.3.1 dated 2025-07-31
DESCRIPTION | 6 MD5 | 31 +- NEWS.md | 7 R/Olink_bridgeselector.R | 16 - R/olink_Pathway_Enrichment.R | 9 R/olink_lod.R | 4 R/olink_normalization_utils.R | 156 ++++++---- inst/doc/LOD.html | 2 inst/doc/OutlierExclusion.html | 4 inst/doc/Vignett.html | 4 inst/doc/bridging_crossproduct.html | 2 inst/doc/bridging_introduction.html | 96 +++--- inst/doc/plate_randomizer.html | 4 man/olink_bridgeselector.Rd | 17 - man/olink_norm_input_check_quant.Rd |only tests/testthat/_snaps/npxProcessing.md | 130 ++++---- tests/testthat/test-olink_normalization_utils.R | 370 ++++++++++++++++++++++-- 17 files changed, 631 insertions(+), 227 deletions(-)
Title: Automatically Builds 20 Classification Models
Description: Automatically builds 20 classification models from data. The package returns 26 plots, 5 tables and a summary report.
The package automatically builds 12 individual classification models, including error (RMSE) and predictions. That data is used to create an ensemble, which is then modeled using 8 methods.
The process is repeated as many times as the user requests. The mean of the results are presented in a summary table.
The package returns the confusion matrices for all 20 models, tables of the correlation of the numeric data, the results of the variance inflation process, the head of the ensemble and the head of the data frame.
Author: Russ Conte [aut, cre, cph]
Maintainer: Russ Conte <russconte@mac.com>
Diff between ClassificationEnsembles versions 0.5.0 dated 2025-04-01 and 0.6.0 dated 2025-07-31
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 4 R/ClassificationEnsembles.R | 215 +++++++++++++++++++------ build/vignette.rds |binary inst/doc/ClassificationEnsembles-vignette.Rmd | 2 man/Classification.Rd | 7 vignettes/ClassificationEnsembles-vignette.Rmd | 2 8 files changed, 189 insertions(+), 61 deletions(-)
More information about ClassificationEnsembles at CRAN
Permanent link
Title: High-Dimensional Cure Models
Description: Provides functions for fitting various penalized parametric and semi-parametric mixture cure models with different penalty functions, testing for a significant cure fraction, and testing for sufficient follow-up as described in Fu et al (2022)<doi:10.1002/sim.9513> and Archer et al (2024)<doi:10.1186/s13045-024-01553-6>. False discovery rate controlled variable selection is provided using model-X knock-offs.
Author: Han Fu [aut],
Kellie J. Archer [aut, cre] ,
Tung Lam Nguyen [rev]
Maintainer: Kellie J. Archer <archer.43@osu.edu>
Diff between hdcuremodels versions 0.0.1 dated 2024-06-13 and 0.0.5 dated 2025-07-31
hdcuremodels-0.0.1/hdcuremodels/R/AUC.R |only hdcuremodels-0.0.1/hdcuremodels/inst/doc/hdcuremodels-vignette.R |only hdcuremodels-0.0.1/hdcuremodels/inst/doc/hdcuremodels-vignette.Rmd |only hdcuremodels-0.0.1/hdcuremodels/inst/doc/hdcuremodels-vignette.html |only hdcuremodels-0.0.1/hdcuremodels/man/AUC.Rd |only hdcuremodels-0.0.1/hdcuremodels/vignettes/hdcuremodels-vignette.Rmd |only hdcuremodels-0.0.5/hdcuremodels/DESCRIPTION | 27 hdcuremodels-0.0.5/hdcuremodels/MD5 | 123 hdcuremodels-0.0.5/hdcuremodels/NAMESPACE | 8 hdcuremodels-0.0.5/hdcuremodels/R/auc_mcm.R |only hdcuremodels-0.0.5/hdcuremodels/R/coef.R | 309 hdcuremodels-0.0.5/hdcuremodels/R/concordance_mcm.R | 309 hdcuremodels-0.0.5/hdcuremodels/R/cure_estimate.R | 50 hdcuremodels-0.0.5/hdcuremodels/R/cureem.R | 416 hdcuremodels-0.0.5/hdcuremodels/R/curegmifs.R | 366 hdcuremodels-0.0.5/hdcuremodels/R/cv_cureem.R | 603 - hdcuremodels-0.0.5/hdcuremodels/R/cv_curegmifs.R | 457 hdcuremodels-0.0.5/hdcuremodels/R/data.R | 20 hdcuremodels-0.0.5/hdcuremodels/R/dim.R |only hdcuremodels-0.0.5/hdcuremodels/R/family.R |only hdcuremodels-0.0.5/hdcuremodels/R/formula.R |only hdcuremodels-0.0.5/hdcuremodels/R/generate_cure_data.R | 356 hdcuremodels-0.0.5/hdcuremodels/R/logLik.R |only hdcuremodels-0.0.5/hdcuremodels/R/nobs.R |only hdcuremodels-0.0.5/hdcuremodels/R/nonzerocure_test.R | 184 hdcuremodels-0.0.5/hdcuremodels/R/plot.R | 302 hdcuremodels-0.0.5/hdcuremodels/R/predict.R | 307 hdcuremodels-0.0.5/hdcuremodels/R/print.R | 90 hdcuremodels-0.0.5/hdcuremodels/R/srr-stats-standards.R |only hdcuremodels-0.0.5/hdcuremodels/R/sufficient_fu_test.R | 93 hdcuremodels-0.0.5/hdcuremodels/R/summary.R | 185 hdcuremodels-0.0.5/hdcuremodels/R/zzz.R | 5028 ++++++---- hdcuremodels-0.0.5/hdcuremodels/README.md |only hdcuremodels-0.0.5/hdcuremodels/build/vignette.rds |binary hdcuremodels-0.0.5/hdcuremodels/inst/CITATION | 4 hdcuremodels-0.0.5/hdcuremodels/inst/doc/hdcuremodels.R |only hdcuremodels-0.0.5/hdcuremodels/inst/doc/hdcuremodels.Rmd |only hdcuremodels-0.0.5/hdcuremodels/inst/doc/hdcuremodels.html |only hdcuremodels-0.0.5/hdcuremodels/man/amltest.Rd | 8 hdcuremodels-0.0.5/hdcuremodels/man/amltrain.Rd | 8 hdcuremodels-0.0.5/hdcuremodels/man/auc_mcm.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/coef.mixturecure.Rd | 67 hdcuremodels-0.0.5/hdcuremodels/man/concordance_mcm.Rd | 63 hdcuremodels-0.0.5/hdcuremodels/man/cure_estimate.Rd | 13 hdcuremodels-0.0.5/hdcuremodels/man/cureem.Rd | 200 hdcuremodels-0.0.5/hdcuremodels/man/curegmifs.Rd | 163 hdcuremodels-0.0.5/hdcuremodels/man/cv_cureem.Rd | 321 hdcuremodels-0.0.5/hdcuremodels/man/cv_curegmifs.Rd | 218 hdcuremodels-0.0.5/hdcuremodels/man/dim.mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/family.mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/figures |only hdcuremodels-0.0.5/hdcuremodels/man/formula.mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/generate_cure_data.Rd | 116 hdcuremodels-0.0.5/hdcuremodels/man/logLik.mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/nobs.mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/nonzerocure_test.Rd | 42 hdcuremodels-0.0.5/hdcuremodels/man/npar_mixturecure.Rd |only hdcuremodels-0.0.5/hdcuremodels/man/plot.mixturecure.Rd | 70 hdcuremodels-0.0.5/hdcuremodels/man/predict.mixturecure.Rd | 71 hdcuremodels-0.0.5/hdcuremodels/man/print.mixturecure.Rd | 44 hdcuremodels-0.0.5/hdcuremodels/man/sufficient_fu_test.Rd | 24 hdcuremodels-0.0.5/hdcuremodels/man/summary.mixturecure.Rd | 35 hdcuremodels-0.0.5/hdcuremodels/tests |only hdcuremodels-0.0.5/hdcuremodels/vignettes/hdcuremodels.Rmd |only 64 files changed, 7043 insertions(+), 3657 deletions(-)
Title: Client for 'GoFigr.io'
Description: Integrates with your 'RMarkdown' documents to automatically publish
figures to the <https://GoFigr.io> service. Supports both 'knitr' and interactive
execution within 'RStudio'.
Author: Maciej Pacula [cre, aut],
Flagstaff Solutions, LLC [cph]
Maintainer: Maciej Pacula <maciej@gofigr.io>
Diff between gofigR versions 1.1.0 dated 2025-07-18 and 1.1.2 dated 2025-07-31
DESCRIPTION | 10 +- MD5 | 15 +++- NAMESPACE | 7 ++ R/integrations.R | 92 +++++++++++++++++++++++++- man/read.csv.Rd |only man/read.csv2.Rd |only man/read.xlsx.Rd |only man/read_csv.Rd |only man/read_csv2.Rd |only man/read_delim.Rd |only man/read_tsv.Rd |only tests/testthat/test_integration.R | 131 ++++++++++++++++++-------------------- 12 files changed, 177 insertions(+), 78 deletions(-)
Title: Analyze Dose-Volume Histograms and Check Constraints
Description: Functionality for analyzing dose-volume histograms (DVH)
in radiation oncology: Read DVH text files, calculate DVH
metrics as well as generalized equivalent uniform dose (gEUD),
biologically effective dose (BED), equivalent dose in 2 Gy
fractions (EQD2), normal tissue complication probability
(NTCP), and tumor control probability (TCP). Show DVH
diagrams, check and visualize quality assurance constraints
for the DVH. Includes web-based graphical user interface.
Author: Daniel Wollschlaeger [aut, cre],
Heiko Karle [aut],
Heinz Schmidberger [ctb]
Maintainer: Daniel Wollschlaeger <wollschlaeger@uni-mainz.de>
Diff between DVHmetrics versions 0.4.2 dated 2022-03-23 and 0.4.3 dated 2025-07-31
DESCRIPTION | 10 +-- MD5 | 105 ++++++++++++++++++++-------------------- R/convertDVH.R | 40 +++++++-------- R/convertDVHsmooth.R | 2 R/dvhDistance.R | 2 R/getBED.R | 2 R/getEUD.R | 15 ++++- R/getIsoEffD.R | 2 R/getMeanDVH.R | 19 +++---- R/getNTCP.R | 50 +++++++++---------- R/parseCadplan.R | 2 R/parseConstraint.R | 22 ++++---- R/parseEclipse.R | 2 R/parseHiArt.R | 11 ++-- R/parseMasterplan.R | 2 R/parseMetric.R | 2 R/parseMirada.R |only R/parseMonaco.R | 10 +-- R/parsePRIMO.R | 2 R/parseProSoma.R | 2 R/parseRayStation.R | 19 +++++-- R/print.R | 18 +++--- R/readDVH.R | 28 ++++++++-- R/showDVH.R | 49 +++++++++++------- R/showMeanDVH.R | 12 ++-- R/smoothDVH.R | 8 +-- R/unitConversion.R | 35 ++++++------- R/unix/parseDVH.R | 10 +++ R/windows/parseDVH.R | 15 ++++- build/vignette.rds |binary data/dataConstr.rda |binary data/dataMZ.rda |binary inst/ChangeLog | 29 ++++++++++- inst/DVHshiny/ABOUT.html | 28 +++++----- inst/DVHshiny/ABOUT.md | 30 +++++------ inst/DVHshiny/app.R | 3 - inst/DVHshiny/app_ui_tab_data.R | 3 - inst/doc/DVHmetrics.R | 34 ++++++------ inst/doc/DVHmetrics.Rnw | 4 - inst/doc/DVHmetrics.pdf |binary inst/doc/DVHshiny.R | 4 - inst/doc/DVHshiny.pdf |binary man/DVHmetrics-package.Rd | 6 +- man/checkConstraint.Rd | 4 - man/getDMEAN.Rd | 2 man/getMeanDVH.Rd | 2 man/getNTCP.Rd | 12 ++-- man/getTCP.Rd | 4 - man/readDVH.Rd | 24 ++++----- man/runGUI.Rd | 2 man/showConstraint.Rd | 2 man/showDVH.Rd | 17 ++++-- vignettes/DVHmetrics.Rnw | 4 - vignettes/lit.bib | 46 ++++++++++------- 54 files changed, 434 insertions(+), 322 deletions(-)
Title: The Grammar of Tables
Description: Provides an extensible formula system to quickly and easily create
production quality tables. The processing steps are a formula parser,
statistical content generation from data as defined by formula, followed by
rendering into a table. Each step of the processing is separate and user
definable thus creating a set of composable building blocks for
highly customizable table generation. A user is not limited by any of the
choices of the package creator other than the formula grammar. For example,
one could chose to add a different S3 rendering function and output a format
not provided in the default package, or possibly one would rather have Gini
coefficients for their statistical content in a resulting table. Routines to
achieve New England Journal of Medicine style, Lancet style and
Hmisc::summaryM() statistics are provided. The package contains rendering
for HTML5, Rmarkdown and an indexing format for use in tracing and tracking
are provided.
Author: Shawn Garbett [aut, cre] ,
Thomas Stewart [ctb],
Jennifer Thompson [ctb],
Frank Harrell [ctb],
Ahra Kim [ctb]
Maintainer: Shawn Garbett <Shawn.Garbett@vumc.org>
Diff between tangram versions 0.8.2 dated 2023-01-26 and 0.8.3 dated 2025-07-31
tangram-0.8.2/tangram/man/rtf.cell.Rd |only tangram-0.8.2/tangram/man/rtf.cell_chi2.Rd |only tangram-0.8.2/tangram/man/rtf.cell_fstat.Rd |only tangram-0.8.2/tangram/man/rtf.cell_header.Rd |only tangram-0.8.2/tangram/man/rtf.cell_iqr.Rd |only tangram-0.8.2/tangram/man/rtf.cell_label.Rd |only tangram-0.8.2/tangram/man/rtf.cell_n.Rd |only tangram-0.8.2/tangram/man/rtf.cell_subheader.Rd |only tangram-0.8.3/tangram/DESCRIPTION | 21 - tangram-0.8.3/tangram/MD5 | 40 +-- tangram-0.8.3/tangram/NAMESPACE | 14 - tangram-0.8.3/tangram/R/hmisc-biVar.R | 3 tangram-0.8.3/tangram/R/hmisc-impute.R | 8 tangram-0.8.3/tangram/R/parser.R | 18 - tangram-0.8.3/tangram/R/render-latex.R | 3 tangram-0.8.3/tangram/R/render-rtf.R | 320 +++--------------------- tangram-0.8.3/tangram/man/ASTBranch.Rd | 4 tangram-0.8.3/tangram/man/ASTFunction.Rd | 2 tangram-0.8.3/tangram/man/ASTMultiply.Rd | 2 tangram-0.8.3/tangram/man/ASTPlus.Rd | 2 tangram-0.8.3/tangram/man/ASTTableFormula.Rd | 2 tangram-0.8.3/tangram/man/ASTVariable.Rd | 2 tangram-0.8.3/tangram/man/Parser.Rd | 2 tangram-0.8.3/tangram/man/Token.Rd | 2 tangram-0.8.3/tangram/man/latex_template.Rd | 4 25 files changed, 116 insertions(+), 333 deletions(-)
Title: Efficient Bayesian Inference for Stochastic Volatility (SV)
Models
Description: Efficient algorithms for fully Bayesian estimation of stochastic volatility (SV) models with and without asymmetry (leverage) via Markov chain Monte Carlo (MCMC) methods. Methodological details are given in Kastner and Frühwirth-Schnatter (2014) <doi:10.1016/j.csda.2013.01.002> and Hosszejni and Kastner (2019) <doi:10.1007/978-3-030-30611-3_8>; the most common use cases are described in Hosszejni and Kastner (2021) <doi:10.18637/jss.v100.i12> and Kastner (2016) <doi:10.18637/jss.v069.i05> and the package examples.
Author: Darjus Hosszejni [aut, cre] ,
Gregor Kastner [aut]
Maintainer: Darjus Hosszejni <darjus.hosszejni@icloud.com>
Diff between stochvol versions 3.2.5 dated 2024-10-28 and 3.2.6 dated 2025-07-31
DESCRIPTION | 14 +- MD5 | 40 +++--- NAMESPACE | 1 NEWS.md | 6 R/stochvol-package.R | 4 R/utilities_svdraws.R | 6 build/partial.rdb |binary build/vignette.rds |binary data/exrates.RData |binary inst/doc/article.R | 40 +++--- inst/doc/article.pdf |binary inst/doc/article2.R | 180 ++++++++++++++--------------- inst/doc/article2.pdf |binary man/exrates.Rd | 2 tests/testthat.R | 8 + tests/testthat/test-formula.R | 2 tests/testthat/test-priorspec.R | 2 tests/testthat/test-samplers.R | 2 tests/testthat/test-utilities_svdraws.R | 194 +++++++++++++++++++++++++++++--- tests/testthat/test-validation.R | 2 tests/testthat/test-wrappers.R | 131 ++++++++++++++++++++- 21 files changed, 464 insertions(+), 170 deletions(-)
Title: Cohort Generation for the OMOP Common Data Model
Description: Generate cohorts and subsets using an Observational
Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database.
Cohorts are defined using 'CIRCE' (<https://github.com/ohdsi/circe-be>) or
SQL compatible with 'SqlRender' (<https://github.com/OHDSI/SqlRender>).
Author: Anthony Sena [aut, cre],
Jamie Gilbert [aut],
Gowtham Rao [aut],
Freddy Avila Cruz [aut],
Martijn Schuemie [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Anthony Sena <sena@ohdsi.org>
Diff between CohortGenerator versions 0.11.2 dated 2024-09-30 and 0.12.0 dated 2025-07-31
DESCRIPTION | 19 MD5 | 92 +- NEWS.md | 18 R/CohortConstruction.R | 2 R/CohortCount.R | 2 R/CohortDefinitionSet.R | 2 R/CohortGenerator.R | 2 R/CohortSample.R | 2 R/CohortStats.R | 4 R/CohortTables.R | 2 R/CsvHelper.R | 2 R/Export.R | 2 R/Incremental.R | 5 R/NegativeControlCohorts.R | 2 R/ResultsDataModel.R | 2 R/RunCohortGeneration.R | 2 R/SubsetDefinitions.R | 3 R/SubsetQueryBuilders.R | 39 R/Subsets.R | 208 +++-- R/data.R |only README.md | 3 build/vignette.rds |binary data |only inst/doc/CreatingCohortSubsetDefinitions.R | 279 ++++-- inst/doc/CreatingCohortSubsetDefinitions.Rmd | 404 ++++++---- inst/doc/CreatingCohortSubsetDefinitions.html | 680 ++++++----------- inst/doc/GeneratingCohorts.pdf |binary inst/doc/SamplingCohorts.pdf |binary inst/sql/sql_server/NegativeControlOutcomes.sql | 7 inst/sql/sql_server/migrations/Migration_2-v0.12.0.sql |only inst/sql/sql_server/subsets/CohortSubsetOperator.sql | 4 inst/sql/sql_server/subsets/LimitSubsetOperator.sql | 3 inst/testdata/CohortsToSubset.JSON |only inst/testdata/SubsetVignetteCohorts.JSON |only inst/testdata/drug_exposure_data.RData |only inst/testdata/person_data.RData |only man/CohortGenerator-package.Rd | 1 man/CohortSubsetOperator.Rd | 32 man/LimitSubsetOperator.Rd | 2 man/SubsetCohortWindow.Rd | 4 man/createCohortSubset.Rd | 14 man/createLimitSubset.Rd | 3 man/createSubsetCohortWindow.Rd | 27 man/omopCdmDrugExposure.Rd |only man/omopCdmPerson.Rd |only tests/testthat/test-CohortConstructionAndStats.R | 4 tests/testthat/test-Incremental.R | 22 tests/testthat/test-SubsetOperations.R | 40 - tests/testthat/test-Subsets.R | 246 +++++- tests/testthat/test-dbms-platforms.R | 16 vignettes/CreatingCohortSubsetDefinitions.Rmd | 404 ++++++---- 51 files changed, 1604 insertions(+), 1001 deletions(-)
More information about CohortGenerator at CRAN
Permanent link
Title: Badge for R Package
Description: Query information and generate badge for using in README and GitHub Pages.
Author: Guangchuang Yu [aut, cre] ,
Gregor de Cillia [ctb],
Dirk Eddelbuettel [ctb],
Maelle Salmon [ctb],
Robrecht Cannoodt [ctb] ,
Alexander Rossell Hayes [ctb] ,
Waldir Leoncio [ctb],
Matthew Schuelke [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between badger versions 0.2.4 dated 2024-06-08 and 0.2.5 dated 2025-07-31
DESCRIPTION | 23 +++-- MD5 | 62 ++++++++-------- NEWS.md | 6 + R/badge.R | 155 +++++++++++++++++++++++----------------- R/utilities.R | 4 - man/badge_altmetric.Rd | 6 + man/badge_bioc_download.Rd | 4 - man/badge_bioc_release.Rd | 4 - man/badge_code_size.Rd | 4 - man/badge_codecov.Rd | 4 - man/badge_codefactor.Rd | 4 - man/badge_coveralls.Rd | 4 - man/badge_cran_checks.Rd | 4 - man/badge_cran_download.Rd | 5 + man/badge_cran_release.Rd | 4 - man/badge_custom.Rd | 4 - man/badge_dependencies.Rd | 4 - man/badge_devel.Rd | 4 - man/badge_doi.Rd | 6 + man/badge_github_actions.Rd | 8 +- man/badge_github_release.Rd | 4 - man/badge_github_version.Rd | 4 - man/badge_last_commit.Rd | 4 - man/badge_license.Rd | 9 ++ man/badge_lifecycle.Rd | 4 - man/badge_runiverse.Rd | 4 - man/badge_sci_citation.Rd | 6 + man/badge_travis.Rd | 4 - man/biocRanking.Rd | 8 +- man/ver_devel.Rd | 2 tests/testthat/test-badges.R | 8 +- tests/testthat/test-utilities.R | 4 - 32 files changed, 237 insertions(+), 143 deletions(-)
Title: Handling Hierarchically Structured Risk Factors using Random
Effects Models
Description: Using this package, you can fit a random effects model using either the hierarchical credibility model, a combination of the hierarchical credibility model with a generalized linear model or a Tweedie generalized linear mixed model. See Campo, B.D.C. and Antonio, K. (2023) <doi:10.1080/03461238.2022.2161413>.
Author: Campo Bavo D.C. [aut, cre]
Maintainer: Campo Bavo D.C. <bavo.decock@kuleuven.be>
Diff between actuaRE versions 0.1.5 dated 2023-03-20 and 0.1.6 dated 2025-07-31
DESCRIPTION | 10 - MD5 | 30 +-- R/adjIntercept.R | 4 R/helperFunctions.R | 7 R/hierCredibility.R | 2 R/plotRE.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/actuaRE.R | 6 inst/doc/actuaRE.html | 381 +++++++++++++++++++++++++------------------------ man/actuaRE.Rd | 2 man/adjustIntercept.Rd | 4 man/findbars.Rd | 6 man/hierCredibility.Rd | 2 man/plotRE.Rd | 6 man/weights-actuaRE.Rd | 7 16 files changed, 242 insertions(+), 231 deletions(-)
Title: Rapid Asynchronous and Distributed Computing
Description: Package to tackle large-scale problems asynchronously across
a distributed network. Employing a database centric model, rush
enables workers to communicate tasks and their results over a shared
'Redis' database. Key features include low task overhead, efficient
caching, and robust error handling. The package powers the
asynchronous optimization algorithms in the 'bbotk' and 'mlr3tuning'
packages.
Author: Marc Becker [cre, aut, cph]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between rush versions 0.2.0 dated 2025-05-30 and 0.3.0 dated 2025-07-31
DESCRIPTION | 10 MD5 | 39 +- NEWS.md | 9 R/AppenderRedis.R | 2 R/Rush.R | 53 ++-- R/RushWorker.R | 9 R/heartbeat_loops.R | 5 R/start_worker.R | 29 +- R/zzz.R | 3 man/Rush.Rd | 48 +++ man/heartbeat.Rd | 4 man/rush_plan.Rd | 2 man/start_worker.Rd | 16 + tests/testthat/helper.R | 8 tests/testthat/setup.R | 7 tests/testthat/teardown.R | 2 tests/testthat/test-AppenderRedis.R | 13 tests/testthat/test-Rush.R | 472 +++++++++++------------------------- tests/testthat/test-RushWorker.R | 2 tests/testthat/test-extra.R |only tests/testthat/test-rush_plan.R | 10 21 files changed, 350 insertions(+), 393 deletions(-)
Title: Interface to 'LANDFIRE Product Service' API
Description: Provides access to a suite of geospatial data layers for wildfire management, fuel modeling, ecology, natural resource management, climate, conservation, etc., via the 'LANDFIRE' (<https://www.landfire.gov/>) Product Service ('LFPS') API.
Author: Mark Buckner [aut, cre, cph]
Maintainer: Mark Buckner <mab677@cornell.edu>
Diff between rlandfire versions 2.0.0 dated 2025-04-28 and 2.0.1 dated 2025-07-31
DESCRIPTION | 9 MD5 | 35 + NEWS.md | 5 R/landfireAPI.R | 39 + README.md | 23 - build/vignette.rds |binary inst/CITATION | 2 inst/doc/rlandfire.html | 551 +++++++++++++++------------- man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/landfireAPI.Rd | 2 man/landfireAPIv2.Rd | 6 tests/testthat/_mock |only tests/testthat/test-checkStatus.R | 88 ++-- tests/testthat/test-landfireAPI.R | 586 ++++++++++++++++++------------ tests/testthat/test-utils.R | 3 17 files changed, 806 insertions(+), 543 deletions(-)
Title: Interface to the 'OpenGWAS' Database API
Description: Interface to the 'OpenGWAS' database API <https://api.opengwas.io/api/>. Includes a wrapper
to make generic calls to the API, plus convenience functions for
specific queries.
Author: Gibran Hemani [aut, cre, cph] ,
Ben Elsworth [aut] ,
Tom Palmer [aut] ,
Rita Rasteiro [aut]
Maintainer: Gibran Hemani <g.hemani@bristol.ac.uk>
Diff between ieugwasr versions 1.0.4 dated 2025-06-18 and 1.1.0 dated 2025-07-31
DESCRIPTION | 6 +- MD5 | 62 +++++++++++++-------------- R/afl2.r | 20 +++++--- R/ld_clump.R | 17 ++++--- R/ld_matrix.R | 5 +- R/query.R | 98 ++++++++++++++++++++++++++++---------------- R/variants.R | 18 ++++---- man/afl2_chrpos.Rd | 9 +++- man/afl2_list.Rd | 4 + man/afl2_rsid.Rd | 4 + man/api_query.Rd | 5 +- man/api_status.Rd | 5 +- man/associations.Rd | 11 ++++ man/batches.Rd | 4 + man/editcheck.Rd | 4 + man/fill_n.Rd | 4 + man/gwasinfo.Rd | 4 + man/gwasinfo_files.Rd | 4 + man/infer_ancestry.Rd | 4 + man/ld_clump.Rd | 7 ++- man/ld_clump_api.Rd | 5 +- man/ld_matrix.Rd | 5 +- man/ld_reflookup.Rd | 4 + man/phewas.Rd | 10 ++++ man/tophits.Rd | 5 +- man/variants_chrpos.Rd | 4 + man/variants_gene.Rd | 4 + man/variants_rsid.Rd | 4 + man/variants_to_rsid.Rd | 4 + tests/testthat/test_afl2.r | 2 tests/testthat/test_ld.r | 2 tests/testthat/test_query.r | 2 32 files changed, 227 insertions(+), 119 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-17 2.1.5
2025-01-24 2.1.3
2024-08-31 2.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-17 1.0.15
2024-08-19 1.0.14
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-22 1.0.3
2024-08-19 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-28 1.1.36
2025-07-17 1.1.35
2025-01-17 1.1.34
2024-12-11 1.1.33
2024-08-19 1.1.32
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-23 1.0.4
2025-04-07 1.0.3
2024-09-29 1.0.2
2021-03-09 1.0.1
Title: Fitting Shared Atoms Nested Models via MCMC or Variational Bayes
Description: An efficient tool for fitting nested mixture models based on a shared set of
atoms via Markov Chain Monte Carlo and variational inference algorithms.
Specifically, the package implements the common atoms model (Denti et al., 2023),
its finite version (similar to D'Angelo et al., 2023), and a hybrid finite-infinite
model (D'Angelo and Denti, 2024). All models implement univariate nested mixtures
with Gaussian kernels equipped with a normal-inverse gamma prior distribution
on the parameters. Additional functions are provided to help analyze the
results of the fitting procedure.
References:
Denti, Camerlenghi, Guindani, Mira (2023) <doi:10.1080/01621459.2021.1933499>,
D’Angelo, Canale, Yu, Guindani (2023) <doi:10.1111/biom.13626>,
D’Angelo, Denti (2024) <doi:10.1214/24-BA1458>.
Author: Francesco Denti [aut, cre, cph] ,
Laura D'Angelo [aut]
Maintainer: Francesco Denti <francescodenti.personal@gmail.com>
Diff between sanba versions 0.0.1 dated 2025-05-23 and 0.0.2 dated 2025-07-31
sanba-0.0.1/sanba/R/03_SANBA_summary_estimate_partitions.R |only sanba-0.0.1/sanba/man/dot-relabel.Rd |only sanba-0.0.1/sanba/man/extract_best.Rd |only sanba-0.0.1/sanba/man/summary.Rd |only sanba-0.0.2/sanba/DESCRIPTION | 23 ++-- sanba-0.0.2/sanba/MD5 | 73 +++++++------ sanba-0.0.2/sanba/NAMESPACE | 34 +++++- sanba-0.0.2/sanba/NEWS.md | 15 ++ sanba-0.0.2/sanba/R/00_CAM.R | 19 +-- sanba-0.0.2/sanba/R/00_fSAN.R | 11 + sanba-0.0.2/sanba/R/00_fiSAN.R | 13 +- sanba-0.0.2/sanba/R/01_2_SANBA_aux_not_exported.R | 42 +++---- sanba-0.0.2/sanba/R/01_MCMC_mcmc_CAM.R | 32 ++--- sanba-0.0.2/sanba/R/01_MCMC_mcmc_fSAN.R | 20 +-- sanba-0.0.2/sanba/R/01_MCMC_mcmc_fiSAN.R | 22 +-- sanba-0.0.2/sanba/R/01_VI_variational_CAM.R | 13 +- sanba-0.0.2/sanba/R/01_VI_variational_fSAN.R | 4 sanba-0.0.2/sanba/R/01_VI_variational_fiSAN.R | 6 - sanba-0.0.2/sanba/R/02_SANBA_printing.R | 20 ++- sanba-0.0.2/sanba/R/02_SANBA_summary.R |only sanba-0.0.2/sanba/R/03_SANBA_estimate_partitions.R |only sanba-0.0.2/sanba/R/03_SANBA_plotting.R | 30 ++--- sanba-0.0.2/sanba/R/04_MCMC_compute_psm.R |only sanba-0.0.2/sanba/R/04_VI_estimate_G.R | 63 +++++++---- sanba-0.0.2/sanba/R/04_VI_prob_cluster_alloc.R |only sanba-0.0.2/sanba/R/05_estimate_number_clusters.R |only sanba-0.0.2/sanba/R/05_getfunctions.R |only sanba-0.0.2/sanba/README.md | 31 +++-- sanba-0.0.2/sanba/build/partial.rdb |binary sanba-0.0.2/sanba/inst |only sanba-0.0.2/sanba/man/compute_psm.Rd |only sanba-0.0.2/sanba/man/estimate_G.Rd | 27 ++-- sanba-0.0.2/sanba/man/estimate_partition.Rd |only sanba-0.0.2/sanba/man/figures/README-example2-2.png |binary sanba-0.0.2/sanba/man/fit_CAM.Rd | 19 +-- sanba-0.0.2/sanba/man/fit_fSAN.Rd | 11 + sanba-0.0.2/sanba/man/fit_fiSAN.Rd | 13 +- sanba-0.0.2/sanba/man/get_accessors.Rd |only sanba-0.0.2/sanba/man/number_clusters.Rd |only sanba-0.0.2/sanba/man/plot.SANmcmc.Rd | 2 sanba-0.0.2/sanba/man/plot.SANvi.Rd | 2 sanba-0.0.2/sanba/man/plot_vi_allocation_prob.Rd |only sanba-0.0.2/sanba/man/print.SANmcmc.Rd | 2 sanba-0.0.2/sanba/man/print.SANvi.Rd | 2 sanba-0.0.2/sanba/man/summary.SANmcmc.Rd |only sanba-0.0.2/sanba/man/summary.SANvi.Rd |only sanba-0.0.2/sanba/tests |only 47 files changed, 317 insertions(+), 232 deletions(-)
Title: Query the Breeding Management System(s)
Description: This R package assists breeders in linking data systems with their analytic pipelines,
a crucial step in digitizing breeding processes. It supports querying and retrieving
phenotypic and genotypic data from systems like 'EBS' <https://ebs.excellenceinbreeding.org/>,
'BMS' <https://bmspro.io>, 'BreedBase' <https://breedbase.org>,
'GIGWA' <https://github.com/SouthGreenPlatform/Gigwa2> (using 'BrAPI' <https://brapi.org> calls),
, and 'Germinate' <https://germinateplatform.github.io/get-germinate/>.
Extra helper functions support environmental data sources, including
'TerraClimate' <https://www.climatologylab.org/terraclimate.html> and 'FAO'
'HWSDv2' <https://gaez.fao.org/pages/hwsd> soil database.
Author: Khaled Al-Shamaa [aut, cre],
Mariano Omar Crimi [ctb],
Zakaria Kehel [ctb],
Johan Aparicio [ctb],
ICARDA [cph]
Maintainer: Khaled Al-Shamaa <k.el-shamaa@cgiar.org>
Diff between QBMS versions 1.5.0 dated 2024-09-18 and 2.0.0 dated 2025-07-31
QBMS-1.5.0/QBMS/man/brapi_headers.Rd |only QBMS-2.0.0/QBMS/DESCRIPTION | 19 QBMS-2.0.0/QBMS/MD5 | 176 ++++--- QBMS-2.0.0/QBMS/NAMESPACE | 8 QBMS-2.0.0/QBMS/NEWS.md | 10 QBMS-2.0.0/QBMS/R/auth.R | 217 ++++++++- QBMS-2.0.0/QBMS/R/brapi.R | 44 + QBMS-2.0.0/QBMS/R/engine.R |only QBMS-2.0.0/QBMS/R/gigwa.R | 412 +++++++++++++----- QBMS-2.0.0/QBMS/R/http.R | 159 +++--- QBMS-2.0.0/QBMS/R/hwsd.R | 4 QBMS-2.0.0/QBMS/R/qbms.R | 214 +++++---- QBMS-2.0.0/QBMS/R/terraclimate.R | 6 QBMS-2.0.0/QBMS/README.md | 30 - QBMS-2.0.0/QBMS/build/partial.rdb |binary QBMS-2.0.0/QBMS/build/vignette.rds |binary QBMS-2.0.0/QBMS/inst/CITATION |only QBMS-2.0.0/QBMS/inst/doc/bms_example.Rmd | 2 QBMS-2.0.0/QBMS/inst/doc/bms_example.html | 8 QBMS-2.0.0/QBMS/inst/doc/breedbase_example.Rmd | 2 QBMS-2.0.0/QBMS/inst/doc/breedbase_example.html | 8 QBMS-2.0.0/QBMS/inst/doc/ebs_example.Rmd | 2 QBMS-2.0.0/QBMS/inst/doc/ebs_example.html | 9 QBMS-2.0.0/QBMS/inst/doc/germinate_example.Rmd |only QBMS-2.0.0/QBMS/inst/doc/germinate_example.html |only QBMS-2.0.0/QBMS/inst/doc/gigwa_example.Rmd | 7 QBMS-2.0.0/QBMS/inst/doc/gigwa_example.html | 15 QBMS-2.0.0/QBMS/inst/doc/hwsd2_example.html | 6 QBMS-2.0.0/QBMS/inst/doc/terraclimate_example.html | 6 QBMS-2.0.0/QBMS/man/brapi_get_call.Rd | 6 QBMS-2.0.0/QBMS/man/brapi_map.Rd | 2 QBMS-2.0.0/QBMS/man/brapi_post_search_allelematrix.Rd | 2 QBMS-2.0.0/QBMS/man/brapi_post_search_call.Rd | 2 QBMS-2.0.0/QBMS/man/calc_biovars.Rd | 2 QBMS-2.0.0/QBMS/man/debug_qbms.Rd | 2 QBMS-2.0.0/QBMS/man/get_async_page.Rd | 2 QBMS-2.0.0/QBMS/man/get_async_pages.Rd | 2 QBMS-2.0.0/QBMS/man/get_brapi_url.Rd | 2 QBMS-2.0.0/QBMS/man/get_germplasm_attributes.Rd | 2 QBMS-2.0.0/QBMS/man/get_germplasm_data.Rd | 4 QBMS-2.0.0/QBMS/man/get_germplasm_id.Rd | 2 QBMS-2.0.0/QBMS/man/get_germplasm_list.Rd | 4 QBMS-2.0.0/QBMS/man/get_hwsd2.Rd | 2 QBMS-2.0.0/QBMS/man/get_login_details.Rd | 4 QBMS-2.0.0/QBMS/man/get_marker_map.Rd |only QBMS-2.0.0/QBMS/man/get_program_studies.Rd | 4 QBMS-2.0.0/QBMS/man/get_program_trials.Rd | 4 QBMS-2.0.0/QBMS/man/get_qbms_connection.Rd | 2 QBMS-2.0.0/QBMS/man/get_study_data.Rd | 4 QBMS-2.0.0/QBMS/man/get_study_info.Rd | 4 QBMS-2.0.0/QBMS/man/get_terraclimate.Rd | 2 QBMS-2.0.0/QBMS/man/get_trial_data.Rd | 4 QBMS-2.0.0/QBMS/man/get_trial_obs_ontology.Rd | 4 QBMS-2.0.0/QBMS/man/get_trial_pedigree.Rd |only QBMS-2.0.0/QBMS/man/get_variants.Rd |only QBMS-2.0.0/QBMS/man/get_variantset.Rd |only QBMS-2.0.0/QBMS/man/gigwa_get_allelematrix.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_get_markers.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_get_metadata.Rd | 7 QBMS-2.0.0/QBMS/man/gigwa_get_samples.Rd | 4 QBMS-2.0.0/QBMS/man/gigwa_get_sequences.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_get_variants.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_list_dbs.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_list_projects.Rd | 4 QBMS-2.0.0/QBMS/man/gigwa_list_runs.Rd | 4 QBMS-2.0.0/QBMS/man/gigwa_set_db.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_set_project.Rd | 2 QBMS-2.0.0/QBMS/man/gigwa_set_run.Rd | 2 QBMS-2.0.0/QBMS/man/ini_hwsd2.Rd | 2 QBMS-2.0.0/QBMS/man/ini_terraclimate.Rd | 2 QBMS-2.0.0/QBMS/man/list_crops.Rd | 4 QBMS-2.0.0/QBMS/man/list_locations.Rd | 4 QBMS-2.0.0/QBMS/man/list_programs.Rd | 4 QBMS-2.0.0/QBMS/man/list_studies.Rd | 4 QBMS-2.0.0/QBMS/man/list_trials.Rd | 4 QBMS-2.0.0/QBMS/man/list_variantsets.Rd |only QBMS-2.0.0/QBMS/man/login.Rd |only QBMS-2.0.0/QBMS/man/login_bms.Rd | 13 QBMS-2.0.0/QBMS/man/login_breedbase.Rd | 18 QBMS-2.0.0/QBMS/man/login_germinate.Rd |only QBMS-2.0.0/QBMS/man/login_gigwa.Rd | 10 QBMS-2.0.0/QBMS/man/login_oauth2.Rd | 7 QBMS-2.0.0/QBMS/man/scan_brapi_endpoints.Rd | 2 QBMS-2.0.0/QBMS/man/set_crop.Rd | 4 QBMS-2.0.0/QBMS/man/set_program.Rd | 4 QBMS-2.0.0/QBMS/man/set_qbms_config.Rd | 4 QBMS-2.0.0/QBMS/man/set_qbms_connection.Rd | 2 QBMS-2.0.0/QBMS/man/set_study.Rd | 4 QBMS-2.0.0/QBMS/man/set_token.Rd | 2 QBMS-2.0.0/QBMS/man/set_trial.Rd | 4 QBMS-2.0.0/QBMS/man/set_variantset.Rd |only QBMS-2.0.0/QBMS/vignettes/bms_example.Rmd | 2 QBMS-2.0.0/QBMS/vignettes/breedbase_example.Rmd | 2 QBMS-2.0.0/QBMS/vignettes/ebs_example.Rmd | 2 QBMS-2.0.0/QBMS/vignettes/germinate_example.Rmd |only QBMS-2.0.0/QBMS/vignettes/gigwa_example.Rmd | 7 96 files changed, 1025 insertions(+), 553 deletions(-)
Title: Feature Selection for 'mlr3'
Description: Feature selection package of the 'mlr3' ecosystem. It selects
the optimal feature set for any 'mlr3' learner. The package works with
several optimization algorithms e.g. Random Search, Recursive Feature
Elimination, and Genetic Search. Moreover, it can automatically
optimize learners and estimate the performance of optimized feature
sets with nested resampling.
Author: Marc Becker [aut, cre] ,
Patrick Schratz [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
John Zobolas [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3fselect versions 1.3.0 dated 2025-01-16 and 1.4.0 dated 2025-07-31
mlr3fselect-1.3.0/mlr3fselect/tests/testthat/test_ArchiveFSelect.R |only mlr3fselect-1.3.0/mlr3fselect/tests/testthat/test_FSelectorDesignPoints.R |only mlr3fselect-1.4.0/mlr3fselect/DESCRIPTION | 49 ++-- mlr3fselect-1.4.0/mlr3fselect/MD5 | 114 ++++++---- mlr3fselect-1.4.0/mlr3fselect/NAMESPACE | 19 + mlr3fselect-1.4.0/mlr3fselect/NEWS.md | 6 mlr3fselect-1.4.0/mlr3fselect/R/ArchiveAsyncFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/R/ArchiveAsyncFSelectFrozen.R |only mlr3fselect-1.4.0/mlr3fselect/R/ArchiveBatchFSelect.R | 7 mlr3fselect-1.4.0/mlr3fselect/R/AutoFSelector.R | 44 +++ mlr3fselect-1.4.0/mlr3fselect/R/CallbackAsyncFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/R/ContextAsyncFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/R/EnsembleFSResult.R | 33 ++ mlr3fselect-1.4.0/mlr3fselect/R/FSelectInstanceAsyncMultiCrit.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectInstanceAsyncSingleCrit.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectInstanceBatchMultiCrit.R | 26 +- mlr3fselect-1.4.0/mlr3fselect/R/FSelectInstanceBatchSingleCrit.R | 16 - mlr3fselect-1.4.0/mlr3fselect/R/FSelector.R | 11 mlr3fselect-1.4.0/mlr3fselect/R/FSelectorAsync.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectorAsyncDesignPoints.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectorAsyncExhaustiveSearch.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectorAsyncFromOptimizerAsync.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectorAsyncRandomSearch.R |only mlr3fselect-1.4.0/mlr3fselect/R/FSelectorBatchShadowVariableSearch.R | 2 mlr3fselect-1.4.0/mlr3fselect/R/ObjectiveFSelectAsync.R |only mlr3fselect-1.4.0/mlr3fselect/R/ObjectiveFSelectBatch.R | 7 mlr3fselect-1.4.0/mlr3fselect/R/auto_fselector.R | 15 + mlr3fselect-1.4.0/mlr3fselect/R/fselect.R | 101 ++++++-- mlr3fselect-1.4.0/mlr3fselect/R/helper.R | 7 mlr3fselect-1.4.0/mlr3fselect/R/mlr_callbacks.R | 24 ++ mlr3fselect-1.4.0/mlr3fselect/R/sugar.R | 83 ++++++- mlr3fselect-1.4.0/mlr3fselect/R/zzz.R | 4 mlr3fselect-1.4.0/mlr3fselect/README.md | 109 ++++----- mlr3fselect-1.4.0/mlr3fselect/build/partial.rdb |binary mlr3fselect-1.4.0/mlr3fselect/inst/testthat/helper_misc.R | 16 + mlr3fselect-1.4.0/mlr3fselect/man/ArchiveAsyncFSelect.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/ArchiveAsyncFSelectFrozen.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/AutoFSelector.Rd | 5 mlr3fselect-1.4.0/mlr3fselect/man/CallbackAsyncFSelect.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/ContextAsyncFSelect.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/FSelectInstanceAsyncMultiCrit.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/FSelectInstanceAsyncSingleCrit.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/FSelectorAsync.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/FSelectorAsyncFromOptimizerAsync.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/ObjectiveFSelectAsync.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/assert_async_fselect_callback.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/auto_fselector.Rd | 55 ---- mlr3fselect-1.4.0/mlr3fselect/man/callback_async_fselect.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/ensemble_fs_result.Rd | 33 ++ mlr3fselect-1.4.0/mlr3fselect/man/fs.Rd | 6 mlr3fselect-1.4.0/mlr3fselect/man/fselect.Rd | 37 ++- mlr3fselect-1.4.0/mlr3fselect/man/fsi.Rd | 2 mlr3fselect-1.4.0/mlr3fselect/man/fsi_async.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/mlr3fselect.async_freeze_archive.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/mlr3fselect.svm_rfe.Rd | 2 mlr3fselect-1.4.0/mlr3fselect/man/mlr_fselectors_async_design_points.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/mlr_fselectors_async_exhaustive_search.Rd |only mlr3fselect-1.4.0/mlr3fselect/man/mlr_fselectors_async_random_search.Rd |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/setup.R | 12 - mlr3fselect-1.4.0/mlr3fselect/tests/testthat/teardown.R | 3 mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_ArchiveAsyncFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_ArchiveAsyncFSelectFrozen.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_ArchiveBatchFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_AutoFSelector.R | 25 ++ mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_CallbackAsyncFSelect.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectInstanceAsyncMultiCrit.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectInstanceAsyncSingleCrit.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectorAsyncDesignPoints.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectorAsyncExhaustiveSearch.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectorAsyncRandomSearch.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectorBatchDesignPoints.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_FSelectorShadowVariableSearch.R | 2 mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_ObjectiveFSelectAsync.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_auto_fselector.R | 53 ++++ mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_ensemble_fselect.R | 9 mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_fselect.R | 23 +- mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_fsi.R | 1 mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_fsi_async.R |only mlr3fselect-1.4.0/mlr3fselect/tests/testthat/test_mlr_callbacks.R | 45 +++ 79 files changed, 737 insertions(+), 269 deletions(-)
Title: Fuzzy Set Ordination
Description: Fuzzy set ordination is a multivariate analysis used in ecology to
relate the composition of samples to possible explanatory variables. While
differing in theory and method, in practice, the use is similar to 'constrained
ordination.' The package contains plotting and summary functions as well as
the analyses.
Author: David W. Roberts [aut, cre]
Maintainer: David W. Roberts <droberts@montana.edu>
Diff between fso versions 2.1-2 dated 2022-09-26 and 2.1-4 dated 2025-07-31
DESCRIPTION | 16 ++++++++++------ MD5 | 12 ++++++------ inst/ChangeLog | 4 ++++ man/fso.Rd | 2 +- man/mfso.Rd | 2 +- man/plot.mfso.Rd | 2 +- man/step.mfso.Rd | 2 +- 7 files changed, 24 insertions(+), 16 deletions(-)
Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for top-down exploratory data analysis
of spectral data including nuclear magnetic resonance (NMR), infrared (IR),
Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy.
Includes functions for plotting and inspecting spectra, peak alignment,
hierarchical cluster analysis (HCA), principal components analysis (PCA) and
model-based clustering. Robust methods appropriate for this type of
high-dimensional data are available. ChemoSpec is designed for structured
experiments, such as metabolomics investigations, where the samples fall into
treatment and control groups. Graphical output is formatted consistently for
publication quality plots. ChemoSpec is intended to be very user friendly and
to help you get usable results quickly. A vignette covering typical operations
is available.
Author: Bryan A. Hanson [aut, cre] ,
Mike Bostock [cph, ctb] ,
Matt Keinsley [ctb] ,
Tejasvi Gupta [ctb]
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpec versions 6.2.0 dated 2025-06-15 and 6.3.0 dated 2025-07-31
DESCRIPTION | 18 +++++++++--------- MD5 | 15 +++++++++++++-- NEWS.md | 11 ++++++++--- build |only inst/doc |only vignettes |only 6 files changed, 30 insertions(+), 14 deletions(-)
Title: Fuzzy Statistical Tools
Description: The main goal of this package is to present various fuzzy statistical tools. It intends to provide an implementation of the theoretical and empirical approaches presented in the book entitled "The signed distance measure in fuzzy statistical analysis. Some theoretical, empirical and programming advances" <doi: 10.1007/978-3-030-76916-1>. For the theoretical approaches, see Berkachy R. and Donze L. (2019) <doi:10.1007/978-3-030-03368-2_1>. For the empirical approaches, see Berkachy R. and Donze L. (2016) <ISBN: 978-989-758-201-1>). Important (non-exhaustive) implementation highlights of this package are as follows: (1) a numerical procedure to estimate the fuzzy difference and the fuzzy square. (2) two numerical methods of fuzzification. (3) a function performing different possibilities of distances, including the signed distance and the generalized signed distance for instance with all its properties. (4) numerical estimations of fuzzy statistical measures such as the [...truncated...]
Author: Redina Berkachy [aut, cre] ,
Laurent Donze [aut]
Maintainer: Redina Berkachy <redina.berkachy@hefr.ch>
Diff between FuzzySTs versions 0.3 dated 2024-07-07 and 0.4 dated 2025-07-31
DESCRIPTION | 25 +++++++++++++++++++------ MD5 | 19 ++++++++++--------- NAMESPACE | 1 + NEWS.md | 4 ++-- R/Distances_17102018.R | 46 ++++++++++++++++++++++++++++++++++++++++++++-- README.md | 2 +- inst/doc/Vignette_B.html | 2 +- inst/doc/Vignette_C.html | 30 +++++++++++++++--------------- man/GSGD.Rd | 4 ++-- man/distance.Rd | 4 ++-- man/optimal.distance.Rd |only 11 files changed, 97 insertions(+), 40 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureRMR versions 2.4.4 dated 2023-09-21 and 2.4.5 dated 2025-07-31
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++----------------- NAMESPACE | 12 ++++++++++++ NEWS.md | 4 ++++ R/az_login.R | 2 +- R/az_resgroup.R | 5 ++--- R/az_rm.R | 2 +- R/az_subscription.R | 4 ++-- R/az_template.R | 3 +-- R/call_azure_rm.R | 2 +- R/utils.R | 2 +- man/az_resource_group.Rd | 5 ++--- man/az_rm.Rd | 2 +- man/az_subscription.Rd | 2 +- man/az_template.Rd | 3 +-- man/azure_login.Rd | 2 +- man/call_azure.Rd | 2 +- man/utils.Rd | 2 +- 18 files changed, 54 insertions(+), 42 deletions(-)
Title: A Simulation Framework for Spatiotemporal Population Genetics
Description: A framework for simulating spatially explicit genomic data which
leverages real cartographic information for programmatic and visual encoding
of spatiotemporal population dynamics on real geographic landscapes. Population
genetic models are then automatically executed by the 'SLiM' software by Haller
et al. (2019) <doi:10.1093/molbev/msy228> behind the scenes, using a custom
built-in simulation 'SLiM' script. Additionally, fully abstract spatial models
not tied to a specific geographic location are supported, and users can also
simulate data from standard, non-spatial, random-mating models. These can be
simulated either with the 'SLiM' built-in back-end script, or using an efficient
coalescent population genetics simulator 'msprime' by Baumdicker et al. (2022)
<doi:10.1093/genetics/iyab229> with a custom-built 'Python' script bundled with the
R package. Simulated genomic data is saved in a tree-sequence format and can be
loaded, manipulated, and summarised using tree-sequen [...truncated...]
Author: Martin Petr [aut, cre]
Maintainer: Martin Petr <contact@bodkan.net>
Diff between slendr versions 1.1.0 dated 2025-06-03 and 1.2.0 dated 2025-07-31
slendr-1.1.0/slendr/inst/naturalearth/ne_110m_land.zip |only slendr-1.2.0/slendr/DESCRIPTION | 6 slendr-1.2.0/slendr/MD5 | 87 +++--- slendr-1.2.0/slendr/NEWS.md | 23 + slendr-1.2.0/slendr/R/interface.R | 79 ++++- slendr-1.2.0/slendr/R/msprime.R | 2 slendr-1.2.0/slendr/R/tree-sequences.R | 57 ++-- slendr-1.2.0/slendr/R/utils.R | 19 - slendr-1.2.0/slendr/R/visualization.R | 61 +++- slendr-1.2.0/slendr/inst/doc/vignette-01-tutorial.R | 2 slendr-1.2.0/slendr/inst/doc/vignette-01-tutorial.Rmd | 2 slendr-1.2.0/slendr/inst/doc/vignette-01-tutorial.html | 23 + slendr-1.2.0/slendr/inst/doc/vignette-02-grid-model.html | 140 ++++------ slendr-1.2.0/slendr/inst/doc/vignette-03-interactions.html | 2 slendr-1.2.0/slendr/inst/doc/vignette-04-nonspatial-models.R | 24 + slendr-1.2.0/slendr/inst/doc/vignette-04-nonspatial-models.Rmd | 39 ++ slendr-1.2.0/slendr/inst/doc/vignette-04-nonspatial-models.html | 72 +++++ slendr-1.2.0/slendr/inst/doc/vignette-05-tree-sequences.Rmd | 4 slendr-1.2.0/slendr/inst/doc/vignette-05-tree-sequences.html | 62 ++-- slendr-1.2.0/slendr/inst/doc/vignette-06-locations.html | 6 slendr-1.2.0/slendr/inst/doc/vignette-07-engines.html | 6 slendr-1.2.0/slendr/inst/doc/vignette-08-nonslendr-tskit.html | 4 slendr-1.2.0/slendr/inst/doc/vignette-10-tracts.html | 2 slendr-1.2.0/slendr/inst/doc/vignette-11-extensions.R | 30 +- slendr-1.2.0/slendr/inst/doc/vignette-11-extensions.Rmd | 72 ++--- slendr-1.2.0/slendr/inst/doc/vignette-11-extensions.html | 30 +- slendr-1.2.0/slendr/inst/extdata/models/introgression/__pycache__/script.cpython-312.pyc |binary slendr-1.2.0/slendr/inst/extdata/models/introgression/checksums.tsv | 2 slendr-1.2.0/slendr/inst/extdata/models/introgression/ranges.rds |binary slendr-1.2.0/slendr/inst/extdata/models/introgression/script.py | 31 +- slendr-1.2.0/slendr/inst/extdata/models/introgression/script.slim | 49 ++- slendr-1.2.0/slendr/inst/extdata/models/introgression_msprime.trees |binary slendr-1.2.0/slendr/inst/extdata/models/introgression_slim.trees |binary slendr-1.2.0/slendr/inst/extdata/models/msprime.trees |binary slendr-1.2.0/slendr/inst/naturalearth/ne_110m_land.gpkg |only slendr-1.2.0/slendr/inst/scripts/__pycache__/script.cpython-312.pyc |binary slendr-1.2.0/slendr/inst/scripts/script.py | 27 + slendr-1.2.0/slendr/inst/scripts/script.slim | 45 ++- slendr-1.2.0/slendr/man/plot_map.Rd | 5 slendr-1.2.0/slendr/man/schedule_sampling.Rd | 23 + slendr-1.2.0/slendr/tests/testthat/test-engines.R | 2 slendr-1.2.0/slendr/tests/testthat/test-named-sampling.R |only slendr-1.2.0/slendr/vignettes/vignette-01-tutorial.Rmd | 2 slendr-1.2.0/slendr/vignettes/vignette-04-nonspatial-models.Rmd | 39 ++ slendr-1.2.0/slendr/vignettes/vignette-05-tree-sequences.Rmd | 4 slendr-1.2.0/slendr/vignettes/vignette-11-extensions.Rmd | 72 ++--- 46 files changed, 767 insertions(+), 388 deletions(-)
Title: Ordination and Multivariate Analysis for Ecology
Description: A variety of ordination and community analyses
useful in analysis of data sets in community ecology.
Includes many of the common ordination methods, with
graphical routines to facilitate their interpretation,
as well as several novel analyses.
Author: David W. Roberts [aut, cre]
Maintainer: David W. Roberts <droberts@montana.edu>
Diff between labdsv versions 2.1-0 dated 2023-04-10 and 2.1-2 dated 2025-07-31
DESCRIPTION | 16 ++++++---- MD5 | 36 ++++++++++++------------ R/calibrate.R | 4 +- R/dga.R | 10 +++--- R/dsvls.R | 78 ++++++++++++++++++++++++++--------------------------- R/dsvord.R | 39 ++++++++++++-------------- R/importance.R | 7 ++-- R/indval.R | 29 ++++++++----------- R/nmds.R | 6 ++-- R/ordcomp.R | 2 - R/orddist.R | 5 +-- R/ordneighbors.R | 13 ++++---- R/pca.R | 8 ++--- R/predict.dsvord.R | 4 +- R/reconcile.R | 18 ++++++------ R/thull.R | 15 ++++------ R/tsne.R | 4 +- inst/ChangeLog | 5 +++ man/reconcile.Rd | 2 - 19 files changed, 150 insertions(+), 151 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 6.6 dated 2025-05-09 and 6.7 dated 2025-07-31
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- inst/www/home/news.html | 7 ++++--- inst/www/js/IsoplotR.js | 11 ++++------- inst/www/locales/en/home_id.json | 2 +- inst/www/version.txt | 2 +- 6 files changed, 20 insertions(+), 22 deletions(-)
Title: Tool-Box of Chain Ladder Plus Models
Description: Implementation of the age–period–cohort models for claim development presented in Pittarello G, Hiabu M, Villegas A (2025) “Replicating and Extending Chain‑Ladder via an Age–Period–Cohort Structure on the Claim Development in a Run‑Off Triangle” <doi:10.1080/10920277.2025.2496725>.
Author: Gabriele Pittarello [aut, cre, cph] ,
Munir Hiabu [aut, cph] ,
Andres Villegas [aut, cph]
Maintainer: Gabriele Pittarello <gabriele.pittarello@uniroma1.it>
This is a re-admission after prior archival of version 1.0.0 dated 2024-05-15
Diff between clmplus versions 1.0.0 dated 2024-05-15 and 1.0.1 dated 2025-07-31
DESCRIPTION | 21 MD5 | 38 R/predictclmplusmodel.R | 2 README.md | 35 build/vignette.rds |binary inst/CITATION |only inst/doc/casestudy1.R | 46 inst/doc/casestudy1.Rmd | 684 ++++----- inst/doc/casestudy1.html | 667 ++++----- inst/doc/modelscomparison.R | 553 +++---- inst/doc/modelscomparison.Rmd | 2156 +++++++++++++++--------------- inst/doc/modelscomparison.html | 2898 +++++++++-------------------------------- inst/references.bib |only man/AggregateDataPP.Rd | 96 - man/clmplus.AggregateDataPP.Rd | 186 +- man/plot.AggregateDataPP.Rd | 58 man/plot.clmplusmodel.Rd | 64 man/plot.clmpluspredictions.Rd | 64 man/predict.clmplusmodel.Rd | 110 - vignettes/casestudy1.Rmd | 684 ++++----- vignettes/modelscomparison.Rmd | 2156 +++++++++++++++--------------- 21 files changed, 4500 insertions(+), 6018 deletions(-)
Title: Generic Implementation of a PK/PD Model
Description: A generic, easy-to-use and expandable implementation of a
pharmacokinetic (PK) / pharmacodynamic (PD) model based on the S4
class system. This package allows the user to read/write a
pharmacometric model from/to files and adapt it further on the fly in
the R environment. For this purpose, this package provides an
intuitive API to add, modify or delete equations, ordinary
differential equations (ODE's), model parameters or compartment
properties (like infusion duration or rate, bioavailability and
initial values). Finally, this package also provides a useful export
of the model for use with simulation packages 'rxode2' and 'mrgsolve'.
This package is designed and intended to be used with package
'campsis', a PK/PD simulation platform built on top of 'rxode2' and
'mrgsolve'.
Author: Nicolas Luyckx [aut, cre]
Maintainer: Nicolas Luyckx <nicolas.luyckx@calvagone.com>
Diff between campsismod versions 1.2.2 dated 2025-03-28 and 1.2.3 dated 2025-07-31
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 3 +++ R/model_unknown_statement.R | 10 ++++++++++ man/replaceAll.Rd | 8 ++++++-- tests/testthat/testPattern.R | 14 ++++++++++---- 6 files changed, 37 insertions(+), 14 deletions(-)
Title: 'R' Bindings for the 'Boost' Math Functions
Description: 'R' bindings for the various functions and statistical distributions
provided by the 'Boost' Math library <https://www.boost.org/doc/libs/latest/libs/math/doc/html/index.html>.
Author: Andrew R. Johnson [aut, cre]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between boostmath versions 1.0.0 dated 2025-07-25 and 1.0.2 dated 2025-07-31
DESCRIPTION | 10 - MD5 | 275 ++++++++++++++-------------- NEWS.md |only R/airy_functions.R | 2 R/arcsine_distribution.R | 2 R/basic_functions.R | 2 R/bernoulli_distribution.R | 2 R/bessel_functions.R | 2 R/beta_distribution.R | 2 R/beta_functions.R | 2 R/binomial_distribution.R | 2 R/cauchy_distribution.R | 2 R/chi_squared_distribution.R | 2 R/elliptic_integrals.R | 2 R/error_functions.R | 2 R/exponential_distribution.R | 2 R/exponential_integrals.R | 2 R/extreme_value_distribution.R | 2 R/factorials_and_binomial_coefficients.R | 2 R/fisher_f_distribution.R | 2 R/gamma_distribution.R | 2 R/gamma_functions.R | 2 R/geometric_distribution.R | 2 R/hankel_functions.R | 2 R/holtsmark_distribution.R | 2 R/hyperexponential_distribution.R | 2 R/hypergeometric_distribution.R | 2 R/hypergeometric_functions.R | 2 R/inverse_chi_squared_distribution.R | 2 R/inverse_gamma_distribution.R | 2 R/inverse_gaussian_distribution.R | 2 R/inverse_hyperbolic_functions.R | 2 R/jacobi_elliptic_functions.R | 2 R/jacobi_theta_functions.R | 2 R/kolmogorov_smirnov_distribution.R | 2 R/lambert_w_function.R | 2 R/landau_distribution.R | 2 R/laplace_distribution.R | 2 R/logistic_distribution.R | 2 R/lognormal_distribution.R | 2 R/mapairy_distribution.R | 2 R/negative_binomial_distribution.R | 2 R/non_central_beta_distribution.R | 2 R/non_central_chi_squared_distribution.R | 2 R/non_central_t_distribution.R | 2 R/normal_distribution.R | 2 R/number_series.R | 2 R/owens_t_function.R | 2 R/pareto_distribution.R | 2 R/poisson_distribution.R | 2 R/polynomials.R | 14 - R/rayleigh_distribution.R | 2 R/rootfinding_and_minimisation.R | 2 R/saspoint5_distribution.R | 2 R/sinus_cardinal_hyperbolic_functions.R | 2 R/skew_normal_distribution.R | 2 R/students_t_distribution.R | 2 R/triangular_distribution.R | 2 R/uniform_distribution.R | 2 R/vector_functionals.R | 2 R/weibull_distribution.R | 2 inst/doc/quadrature-differentiation.Rmd | 14 - inst/doc/quadrature-differentiation.html | 14 - inst/doc/rootfinding-minimisation.Rmd | 14 - inst/doc/rootfinding-minimisation.html | 14 - inst/doc/special-functions.Rmd | 42 ++-- inst/doc/special-functions.html | 42 ++-- inst/doc/vector-functionals.Rmd | 2 inst/doc/vector-functionals.html | 2 man/airy_functions.Rd | 2 man/arcsine_distribution.Rd | 2 man/basic_functions.Rd | 2 man/bernoulli_distribution.Rd | 2 man/bessel_functions.Rd | 2 man/beta_distribution.Rd | 2 man/beta_functions.Rd | 2 man/binomial_distribution.Rd | 2 man/boostmath-package.Rd | 4 man/cauchy_distribution.Rd | 2 man/chebyshev_polynomials.Rd | 2 man/chi_squared_distribution.Rd | 2 man/elliptic_integrals.Rd | 2 man/error_functions.Rd | 2 man/exponential_distribution.Rd | 2 man/exponential_integrals.Rd | 2 man/extreme_value_distribution.Rd | 2 man/factorials_and_binomial_coefficients.Rd | 2 man/fisher_f_distribution.Rd | 2 man/gamma_distribution.Rd | 2 man/gamma_functions.Rd | 2 man/gegenbauer_polynomials.Rd | 2 man/geometric_distribution.Rd | 2 man/hankel_functions.Rd | 2 man/hermite_polynomials.Rd | 2 man/holtsmark_distribution.Rd | 2 man/hyperexponential_distribution.Rd | 2 man/hypergeometric_distribution.Rd | 2 man/hypergeometric_functions.Rd | 2 man/inverse_chi_squared_distribution.Rd | 2 man/inverse_gamma_distribution.Rd | 2 man/inverse_gaussian_distribution.Rd | 2 man/inverse_hyperbolic_functions.Rd | 2 man/jacobi_elliptic_functions.Rd | 2 man/jacobi_polynomials.Rd | 2 man/jacobi_theta_functions.Rd | 2 man/kolmogorov_smirnov_distribution.Rd | 2 man/laguerre_polynomials.Rd | 2 man/lambert_w_function.Rd | 2 man/landau_distribution.Rd | 2 man/laplace_distribution.Rd | 2 man/legendre_polynomials.Rd | 2 man/logistic_distribution.Rd | 2 man/lognormal_distribution.Rd | 2 man/mapairy_distribution.Rd | 2 man/negative_binomial_distribution.Rd | 2 man/non_central_beta_distribution.Rd | 2 man/non_central_chi_squared_distribution.Rd | 2 man/non_central_t_distribution.Rd | 2 man/normal_distribution.Rd | 2 man/number_series.Rd | 4 man/owens_t.Rd | 2 man/pareto_distribution.Rd | 2 man/poisson_distribution.Rd | 2 man/rayleigh_distribution.Rd | 2 man/rootfinding_and_minimisation.Rd | 2 man/saspoint5_distribution.Rd | 2 man/sinus_cardinal_hyperbolic_functions.Rd | 2 man/skew_normal_distribution.Rd | 2 man/spherical_harmonics.Rd | 2 man/students_t_distribution.Rd | 2 man/triangular_distribution.Rd | 2 man/uniform_distribution.Rd | 2 man/vector_functionals.Rd | 2 man/weibull_distribution.Rd | 2 src/boostmath/macros.hpp | 2 vignettes/quadrature-differentiation.Rmd | 14 - vignettes/rootfinding-minimisation.Rmd | 14 - vignettes/special-functions.Rmd | 42 ++-- vignettes/vector-functionals.Rmd | 2 139 files changed, 382 insertions(+), 383 deletions(-)
Title: Landscape Epidemiology and Evolution
Description: A stochastic, spatially-explicit, demo-genetic model simulating the spread and evolution
of a plant pathogen in a heterogeneous landscape to assess resistance deployment strategies.
It is based on a spatial geometry for describing the landscape and allocation of different cultivars,
a dispersal kernel for the dissemination of the pathogen, and a SEIR
('Susceptible-Exposed-Infectious-Removed’) structure with a discrete time step.
It provides a useful tool to assess the performance of a wide range of deployment options with
respect to their epidemiological, evolutionary and economic outcomes.
Loup Rimbaud, Julien Papaïx, Jean-François Rey, Luke G Barrett,
Peter H Thrall (2018) <doi:10.1371/journal.pcbi.1006067>.
Author: Loup Rimbaud [aut] ,
Marta Zaffaroni [aut] ,
Jean-Francois Rey [aut, cre] ,
Julien Papaix [aut],
Jean-Loup Gaussen [ctb],
Manon Couty [ctb]
Maintainer: Jean-Francois Rey <jean-francois.rey@inrae.fr>
Diff between landsepi versions 1.5.1 dated 2024-09-23 and 1.5.2 dated 2025-07-31
DESCRIPTION | 21 +- MD5 | 34 +-- R/landsepi-package.R | 4 build/vignette.rds |binary data/dispP_a40_b7.rda |binary data/landscapesTEST.rda |binary inst/doc/O1-run_simple_simul.R | 72 +++---- inst/doc/O1-run_simple_simul.html | 19 - inst/doc/O2-run_exp_design.R | 360 +++++++++++++++++------------------ inst/doc/O2-run_exp_design.html | 5 inst/doc/O3-landscape_dispersal.R | 282 +++++++++++++-------------- inst/doc/O3-landscape_dispersal.html | 5 inst/doc/O4-run_sex_repro.R | 4 inst/doc/O4-run_sex_repro.html | 5 inst/doc/landsepi_poster.pdf |binary inst/doc/list_of_parameters.pdf |binary inst/shiny-landsepi/global.R | 4 man/landsepi-package.Rd | 10 18 files changed, 415 insertions(+), 410 deletions(-)
Title: Simple Interface to 'Microsoft Graph'
Description: A simple interface to the 'Microsoft Graph' API <https://learn.microsoft.com/en-us/graph/overview>. 'Graph' is a comprehensive framework for accessing data in various online Microsoft services. This package was originally intended to provide an R interface only to the 'Azure Active Directory' part, with a view to supporting interoperability of R and 'Azure': users, groups, registered apps and service principals. However it has since been expanded into a more general tool for interacting with Graph. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureGraph versions 1.3.4 dated 2023-09-06 and 1.3.5 dated 2025-07-31
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS.md | 4 ++++ R/batch.R | 2 +- R/call_graph.R | 2 +- R/graph_login.R | 2 +- R/ms_graph.R | 2 +- man/call_batch_endpoint.Rd | 2 +- man/call_graph.Rd | 2 +- man/find_class_generator.Rd | 3 ++- man/graph_login.Rd | 2 +- man/ms_graph.Rd | 2 +- 12 files changed, 29 insertions(+), 24 deletions(-)
Title: Embedded JavaScript and WebAssembly Engine for R
Description: An R interface to V8 <https://v8.dev>: Google's open source JavaScript
and WebAssembly engine. This package can be compiled either with V8 version 6
and up or NodeJS when built as a shared library.
Author: Jeroen Ooms [aut, cre] ,
Jan Marvin Garbuszus [ctb]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between V8 versions 6.0.4 dated 2025-06-04 and 6.0.5 dated 2025-07-31
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS | 5 +++++ build/partial.rdb |binary build/vignette.rds |binary configure | 3 +-- inst/doc/npm.html | 4 ++-- inst/doc/v8_intro.html | 6 +++--- src/bindings.cpp | 4 ++++ 9 files changed, 26 insertions(+), 18 deletions(-)
Title: Lazy Search in R Packages, Task Views, CRAN, the Web. All-in-One
Download
Description: Search by keywords in R packages, task views, CRAN, the web and display the results in the console or in txt, html or pdf files. Download the package documentation (html index, README, NEWS, pdf manual, vignettes, source code, binaries) with a single instruction. Visualize the package dependencies and CRAN checks. Compare the package versions, unload and install the packages and their dependencies in a safe order. Explore CRAN archives. Use the above functions for task view maintenance. Access web search engines from the console thanks to 80+ bookmarks. All functions accept standard and non-standard evaluation.
Author: Patrice Kiener [aut, cre]
Maintainer: Patrice Kiener <rpackages@inmodelia.com>
Diff between RWsearch versions 5.2.4 dated 2025-03-13 and 5.2.6 dated 2025-07-31
DESCRIPTION | 11 ++++--- MD5 | 18 ++++++------- NEWS | 16 +++++++++++ R/funmaintext.R | 10 ++++--- build/vignette.rds |binary inst/doc/RWsearch-1-Introduction.html | 4 +- inst/doc/RWsearch-2-Display-Download-Documentation.html | 4 +- inst/doc/RWsearch-3-Package-versions-and-dependencies.html | 4 +- inst/doc/RWsearch-4-Tools-for-taskviews.html | 4 +- inst/doc/RWsearch-5-Web-search-engines.html | 4 +- 10 files changed, 47 insertions(+), 28 deletions(-)
Title: The Induced Smoothed Lasso
Description: An implementation of the induced smoothing (IS) idea to lasso regularization models to allow estimation and inference on the model coefficients (currently hypothesis testing only). Linear, logistic, Poisson and gamma regressions with several link functions are implemented. The algorithm is described in the original paper; see <doi:10.1177/0962280219842890> and discussed in a tutorial <doi:10.13140/RG.2.2.16360.11521>.
Author: Gianluca Sottile [aut, cre],
Giovanna Cilluffo [aut, ctb],
Vito MR Muggeo [aut, ctb]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between islasso versions 1.5.2 dated 2024-01-23 and 1.6.0 dated 2025-07-31
islasso-1.5.2/islasso/man/islasso-package.Rd |only islasso-1.5.2/islasso/src/dev_grad_hess.f90 |only islasso-1.5.2/islasso/src/family.f90 |only islasso-1.5.2/islasso/src/islasso2.f90 |only islasso-1.5.2/islasso/src/islasso_glm.f90 |only islasso-1.5.2/islasso/src/link.f90 |only islasso-1.5.2/islasso/src/lminfl.f |only islasso-1.5.2/islasso/src/standardize.f90 |only islasso-1.6.0/islasso/DESCRIPTION | 15 islasso-1.6.0/islasso/MD5 | 77 - islasso-1.6.0/islasso/NAMESPACE | 149 +- islasso-1.6.0/islasso/NEWS | 21 islasso-1.6.0/islasso/R/S3methods_islasso.R | 762 ++++++++---- islasso-1.6.0/islasso/R/S3methods_islasso.path.R | 1195 ++++++++++++------- islasso-1.6.0/islasso/R/auxiliary.R | 466 +++---- islasso-1.6.0/islasso/R/confint_and_auxiliary.R | 368 ++++- islasso-1.6.0/islasso/R/data-doc.R |only islasso-1.6.0/islasso/R/islasso-package.R |only islasso-1.6.0/islasso/R/islasso.R | 1205 ++++++++++++------- islasso-1.6.0/islasso/R/islasso.path.R | 1363 ++++++++++------------ islasso-1.6.0/islasso/R/zzz.R |only islasso-1.6.0/islasso/build |only islasso-1.6.0/islasso/man/GoF.islasso.path.Rd | 74 - islasso-1.6.0/islasso/man/Prostate.Rd | 62 - islasso-1.6.0/islasso/man/aic.islasso.Rd | 131 +- islasso-1.6.0/islasso/man/anova.islasso.Rd | 95 - islasso-1.6.0/islasso/man/breast.Rd | 42 islasso-1.6.0/islasso/man/confint.islasso.Rd | 61 islasso-1.6.0/islasso/man/diabetes.Rd | 50 islasso-1.6.0/islasso/man/is.control.Rd | 61 islasso-1.6.0/islasso/man/islasso-internal.Rd | 84 - islasso-1.6.0/islasso/man/islasso.Rd | 277 ++-- islasso-1.6.0/islasso/man/islasso.path.Rd | 251 +--- islasso-1.6.0/islasso/man/plot.islasso.Rd | 57 islasso-1.6.0/islasso/man/plot.islasso.path.Rd | 94 - islasso-1.6.0/islasso/man/predict.islasso.Rd | 83 - islasso-1.6.0/islasso/man/predict.islasso.path.Rd | 74 - islasso-1.6.0/islasso/man/simulXy.Rd | 77 - islasso-1.6.0/islasso/man/summary.islasso.Rd | 48 islasso-1.6.0/islasso/man/summary.islasso.path.Rd | 43 islasso-1.6.0/islasso/src/auxiliary.f90 | 306 +--- islasso-1.6.0/islasso/src/family_link.f90 |only islasso-1.6.0/islasso/src/gradient_hessian.f90 |only islasso-1.6.0/islasso/src/init.c | 55 islasso-1.6.0/islasso/src/islasso.f90 |only islasso-1.6.0/islasso/src/islasso.h | 123 - islasso-1.6.0/islasso/src/trace_islasso.c | 101 - 47 files changed, 4401 insertions(+), 3469 deletions(-)
Title: Formula Interface to the Grammar of Graphics
Description: Provides a formula interface to 'ggplot2' graphics.
Author: Daniel Kaplan [aut],
Randall Pruim [aut, cre]
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between ggformula versions 0.12.0 dated 2023-11-09 and 0.12.2 dated 2025-07-31
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Title: Create Simple Predictive Models on Bayesian Belief Networks
Description: A system to build, visualise and evaluate Bayesian belief networks. The methods are described in Stafford et al. (2015) <doi:10.12688/f1000research.5981.1>.
Author: Victoria Dominguez Almela [cre, aut] ,
Richard Stafford [cph, aut]
Maintainer: Victoria Dominguez Almela <vda1r22@soton.ac.uk>
Diff between bbnet versions 1.1.0 dated 2025-01-23 and 1.2.0 dated 2025-07-31
DESCRIPTION | 15 +- MD5 | 84 +++++++----- NEWS.md | 9 + R/bbn.predict.R | 19 ++ R/bbn.sensitivity.R | 4 README.md | 140 ++++++++++++++------ build/vignette.rds |binary inst/doc/bbnet.R | 4 inst/doc/bbnet.Rmd | 6 inst/doc/bbnet.html | 207 ++++++++++++++++++------------ man/bbn.predict.Rd | 1 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-10-2.png |binary man/figures/README-unnamed-chunk-10-3.png |binary man/figures/README-unnamed-chunk-10-4.png |binary man/figures/README-unnamed-chunk-10-5.png |only man/figures/README-unnamed-chunk-10-6.png |only man/figures/README-unnamed-chunk-10-7.png |only man/figures/README-unnamed-chunk-10-8.png |only man/figures/README-unnamed-chunk-10-9.png |only man/figures/README-unnamed-chunk-11-3.png |binary man/figures/README-unnamed-chunk-11-5.png |only man/figures/README-unnamed-chunk-11-6.png |only man/figures/README-unnamed-chunk-11-7.png |only man/figures/README-unnamed-chunk-11-8.png |only man/figures/README-unnamed-chunk-11-9.png |only man/figures/README-unnamed-chunk-12-1.png |only man/figures/README-unnamed-chunk-12-2.png |only man/figures/README-unnamed-chunk-12-3.png |only man/figures/README-unnamed-chunk-12-4.png |only man/figures/README-unnamed-chunk-12-5.png |only man/figures/README-unnamed-chunk-13-1.png |only man/figures/README-unnamed-chunk-14-1.png |only man/figures/README-unnamed-chunk-14-2.png |only man/figures/README-unnamed-chunk-14-3.png |only man/figures/README-unnamed-chunk-14-4.png |only man/figures/README-unnamed-chunk-15-1.png |only man/figures/README-unnamed-chunk-15-2.png |only man/figures/README-unnamed-chunk-15-3.png |only man/figures/README-unnamed-chunk-15-4.png |only man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-7-2.png |binary man/figures/README-unnamed-chunk-7-3.png |binary man/figures/README-unnamed-chunk-7-4.png |binary man/figures/README-unnamed-chunk-7-5.png |binary man/figures/README-unnamed-chunk-7-6.png |binary man/figures/README-unnamed-chunk-7-7.png |binary man/figures/README-unnamed-chunk-7-8.png |binary man/figures/README-unnamed-chunk-7-9.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary tests/testthat/Rplots.pdf |binary tests/testthat/test-bbn.predict.R | 1 vignettes/bbnet.Rmd | 6 55 files changed, 335 insertions(+), 161 deletions(-)
Title: Bayesian Inference for Log-Normal Data
Description: Bayesian inference under log-normality assumption must be performed very carefully. In fact, under the common priors for the variance, useful quantities in the original data scale (like mean and quantiles) do not have posterior moments that are finite (Fabrizi et al. 2012 <doi:10.1214/12-BA733>). This package allows to easily carry out a proper Bayesian inferential procedure by fixing a suitable distribution (the generalized inverse Gaussian) as prior for the variance. Functions to estimate several kind of means (unconditional, conditional and conditional under a mixed model) and quantiles (unconditional and conditional) are provided.
Author: Aldo Gardini [aut, cre] ,
Enrico Fabrizi [aut] ,
Carlo Trivisano [aut]
Maintainer: Aldo Gardini <aldo.gardini2@unibo.it>
Diff between BayesLN versions 0.2.10 dated 2023-12-04 and 0.2.12 dated 2025-07-31
DESCRIPTION | 17 ++++---- MD5 | 12 +++--- R/Hier_model.R | 6 +-- build/vignette.rds |binary inst/doc/BayesLogNormal.R | 2 - inst/doc/BayesLogNormal.html | 83 ++++++++++++++++++++++--------------------- man/LN_hierarchical.Rd | 6 +-- 7 files changed, 66 insertions(+), 60 deletions(-)
Title: Bayesian Analysis to Compare Models using Resampling Statistics
Description: Bayesian analysis used here to answer the question: "when
looking at resampling results, are the differences between models
'real'?" To answer this, a model can be created were the performance
statistic is the resampling statistics (e.g. accuracy or RMSE). These
values are explained by the model types. In doing this, we can get
parameter estimates for each model's affect on performance and make
statistical (and practical) comparisons between models. The methods
included here are similar to Benavoli et al (2017)
<https://jmlr.org/papers/v18/16-305.html>.
Author: Max Kuhn [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between tidyposterior versions 1.0.1 dated 2023-10-11 and 1.0.2 dated 2025-07-31
DESCRIPTION | 29 +-- LICENSE | 2 MD5 | 51 +++--- NAMESPACE | 3 NEWS.md | 6 R/aaa.R | 26 ++- R/contrasts.R | 38 ++-- R/dplyr-compat.R | 3 R/perf_mod.R | 170 +++++++++++++------- R/posterior_diff-compat.R | 104 ++++++++++-- R/posteriors-compat.R | 8 R/posteriors.R | 94 +++++++---- R/tidyposterior-package.R | 1 R/zzz.R | 12 + build/vignette.rds |binary inst/doc/tidyposterior.html | 243 ---------------------------- man/perf_mod.Rd | 28 +-- man/rmd/example-interfaces.Rmd | 63 ++++--- man/rmd/example-interfaces.md | 28 +-- man/tidyposterior-package.Rd | 2 tests/testthat/_snaps/contrast.md |only tests/testthat/_snaps/perf_mod.md | 202 ++++++++++++++++++++++++ tests/testthat/test_contrast.R | 19 +- tests/testthat/test_dplyr_new.R | 78 ++++++--- tests/testthat/test_perf_mod.R | 277 +++++++++++++++++++-------------- tests/testthat/test_tidy.R | 7 vignettes/articles/Getting_Started.Rmd | 159 +++++++++++------- 27 files changed, 982 insertions(+), 671 deletions(-)
More information about suRface.analytics at CRAN
Permanent link
Title: Stochastic Approximation Expectation Maximization (SAEM)
Algorithm
Description: The 'saemix' package implements the Stochastic Approximation EM algorithm for parameter estimation in (non)linear mixed effects models. It (i) computes the maximum likelihood estimator of the population parameters, without any approximation of the model (linearisation, quadrature approximation,...), using the Stochastic Approximation Expectation Maximization (SAEM) algorithm, (ii) provides standard errors for the maximum likelihood estimator (iii) estimates the conditional modes, the conditional means and the conditional standard deviations of the individual parameters, using the Hastings-Metropolis algorithm (see Comets et al. (2017) <doi:10.18637/jss.v080.i03>). Many applications of SAEM in agronomy, animal breeding and PKPD analysis have been published by members of the Monolix group. The full PDF documentation for the package including references about the algorithm and examples can be downloaded on the github of the IAME research institute for 'saemix': <https://github.co [...truncated...]
Author: Emmanuelle Comets [aut, cre],
Audrey Lavenu [aut],
Marc Lavielle [aut],
Belhal Karimi [aut],
Maud Delattre [ctb],
Alexandra Lavalley-Morelle [ctb],
Marilou Chanel [ctb],
Johannes Ranke [ctb] ,
Sofia Kaisaridi [ctb],
Lucie Fayette [ctb]
Maintainer: Emmanuelle Comets <emmanuelle.comets@inserm.fr>
Diff between saemix versions 3.3 dated 2024-03-05 and 3.4 dated 2025-07-31
CHANGES | 11 DESCRIPTION | 17 MD5 | 56 + R/SaemixData-methods.R |only R/SaemixData-methods_covariates.R |only R/SaemixData.R | 1068 -------------------------------------- R/SaemixModel.R | 4 R/SaemixObject.R | 10 R/SaemixRes.R | 4 R/func_aux.R | 2 R/func_distcond.R | 1 R/func_estimParam.R | 13 R/func_exploreData.R | 2 R/func_npde.R | 10 man/SaemixData-class.Rd | 2 man/npdeSaemix.Rd | 10 man/plot-SaemixData.Rd | 2 man/print-methods.Rd | 2 man/read-methods.Rd | 2 man/saemixData.Rd | 2 man/saemixPredictNewdata.Rd | 5 man/show-methods.Rd | 2 man/showall-methods.Rd | 2 man/subset.Rd | 2 man/summary-methods.Rd | 2 man/transform.Rd | 2 man/transformCatCov.Rd | 43 + man/transformContCov.Rd | 36 + man/validate.names.Rd | 2 man/xbinning.Rd | 2 30 files changed, 168 insertions(+), 1148 deletions(-)
Title: Query the Attentional Control Data Collection
Description: Interact with the Attentional Control Data Collection (ACDC).
Connect to the database via connect_to_db(), set filter arguments via add_argument()
and query the database via query_db().
Author: Sven Lesche [aut, cre, cph],
Julia M. Haaf [ctb, ths],
Madlen Hoffstadt [ctb]
Maintainer: Sven Lesche <sven.lesche@psychologie.uni-heidelberg.de>
Diff between acdcquery versions 1.0.1 dated 2023-10-20 and 1.1.0 dated 2025-07-31
DESCRIPTION | 8 - MD5 | 22 ++-- NEWS.md | 20 ++-- R/add_argument.R | 150 ++++++++++++++++----------------- R/add_join_paths_to_query.R | 151 +++++++++++++++++++--------------- R/connect_to_db.R | 52 +++++------ R/precompute_table_join_paths.R | 55 ++++++++++-- R/query_db.R | 7 + README.md | 21 ++-- man/discover_id_introduction_steps.Rd | 44 ++++----- man/precompute_table_join_paths.Rd | 46 +++++----- man/query_db.Rd | 1 12 files changed, 325 insertions(+), 252 deletions(-)
Title: Display and Analyze ROC Curves
Description: Tools for visualizing, smoothing and comparing receiver operating characteristic (ROC curves). (Partial) area under the curve (AUC) can be compared with statistical tests based on U-statistics or bootstrap. Confidence intervals can be computed for (p)AUC or ROC curves.
Author: Xavier Robin [cre, aut] ,
Natacha Turck [aut],
Alexandre Hainard [aut],
Natalia Tiberti [aut],
Frederique Lisacek [aut],
Jean-Charles Sanchez [aut],
Markus Mueller [aut],
Stefan Siegert [ctb] ,
Matthias Doering [ctb] ,
Zane Billings [ctb]
Maintainer: Xavier Robin <pROC-cran@xavier.robin.name>
Diff between pROC versions 1.18.5 dated 2023-11-01 and 1.19.0.1 dated 2025-07-31
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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 0.1.6 dated 2025-06-22 and 0.2.0 dated 2025-07-31
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Title: Parallel Factor Analysis Modelling of Longitudinal Microbiome
Data
Description: Creation and selection of PARAllel FACtor Analysis (PARAFAC)
models of longitudinal microbiome data. You can import your own data with
our import functions or use one of the example datasets to create your own
PARAFAC models. Selection of the optimal number of components can be done
using assessModelQuality() and assessModelStability(). The selected model can
then be plotted using plotPARAFACmodel(). The Parallel Factor
Analysis method was originally described by Caroll and Chang (1970)
<doi:10.1007/BF02310791> and Harshman (1970)
<https://www.psychology.uwo.ca/faculty/harshman/wpppfac0.pdf>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <g.r.ploeg@uva.nl>
Diff between parafac4microbiome versions 1.2.1 dated 2025-05-20 and 1.3.2 dated 2025-07-31
parafac4microbiome-1.2.1/parafac4microbiome/R/importMicrobiotaProcess.R |only parafac4microbiome-1.2.1/parafac4microbiome/R/parafac_gradient.R |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Fujita2023_analysis.R |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Fujita2023_analysis.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Fujita2023_analysis.html |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/PARAFAC_introduction.R |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/PARAFAC_introduction.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/PARAFAC_introduction.html |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Shao2019_analysis.R |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Shao2019_analysis.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/Shao2019_analysis.html |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/vanderPloeg2024_analysis.R |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/vanderPloeg2024_analysis.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/inst/doc/vanderPloeg2024_analysis.html |only parafac4microbiome-1.2.1/parafac4microbiome/man/importMicrobiotaProcess.Rd |only parafac4microbiome-1.2.1/parafac4microbiome/man/parafac_gradient.Rd |only parafac4microbiome-1.2.1/parafac4microbiome/tests/testthat/test-importMicrobiotaProcess.R |only parafac4microbiome-1.2.1/parafac4microbiome/tests/testthat/test-parafac_gradient.R |only parafac4microbiome-1.2.1/parafac4microbiome/vignettes/Fujita2023_analysis.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/vignettes/PARAFAC_introduction.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/vignettes/Shao2019_analysis.Rmd |only parafac4microbiome-1.2.1/parafac4microbiome/vignettes/vanderPloeg2024_analysis.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/DESCRIPTION | 14 parafac4microbiome-1.3.2/parafac4microbiome/MD5 | 86 - parafac4microbiome-1.3.2/parafac4microbiome/NAMESPACE | 2 parafac4microbiome-1.3.2/parafac4microbiome/NEWS.md | 16 parafac4microbiome-1.3.2/parafac4microbiome/R/assessModelQuality.R | 168 +- parafac4microbiome-1.3.2/parafac4microbiome/R/assessModelStability.R | 11 parafac4microbiome-1.3.2/parafac4microbiome/R/calculateVarExp.R | 40 parafac4microbiome-1.3.2/parafac4microbiome/R/data.R | 106 - parafac4microbiome-1.3.2/parafac4microbiome/R/parafac.R | 162 +- parafac4microbiome-1.3.2/parafac4microbiome/R/transformPARAFACloadings.R | 2 parafac4microbiome-1.3.2/parafac4microbiome/R/utils.R | 568 +++++----- parafac4microbiome-1.3.2/parafac4microbiome/README.md | 22 parafac4microbiome-1.3.2/parafac4microbiome/build/vignette.rds |binary parafac4microbiome-1.3.2/parafac4microbiome/data/vanderPloeg2024.rda |binary parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Fujita2023.R |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Fujita2023.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Fujita2023.html |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Introduction.R |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Introduction.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Introduction.html |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Shao2019.R |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Shao2019.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/Shao2019.html |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/vanderPloeg2024.R |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/vanderPloeg2024.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/inst/doc/vanderPloeg2024.html |only parafac4microbiome-1.3.2/parafac4microbiome/man/assessModelQuality.Rd | 27 parafac4microbiome-1.3.2/parafac4microbiome/man/assessModelStability.Rd | 25 parafac4microbiome-1.3.2/parafac4microbiome/man/calculateVarExp.Rd | 2 parafac4microbiome-1.3.2/parafac4microbiome/man/parafac.Rd | 20 parafac4microbiome-1.3.2/parafac4microbiome/man/reinflateFac.Rd | 2 parafac4microbiome-1.3.2/parafac4microbiome/man/transformPARAFACloadings.Rd | 2 parafac4microbiome-1.3.2/parafac4microbiome/man/vanderPloeg2024.Rd | 6 parafac4microbiome-1.3.2/parafac4microbiome/tests/testthat/test-corcondia.R | 8 parafac4microbiome-1.3.2/parafac4microbiome/tests/testthat/test-parafac.R | 269 +--- parafac4microbiome-1.3.2/parafac4microbiome/tests/testthat/test-plotPARAFACmodel.R | 70 - parafac4microbiome-1.3.2/parafac4microbiome/tests/testthat/test-transformPARAFACloadings.R | 16 parafac4microbiome-1.3.2/parafac4microbiome/vignettes/Fujita2023.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/vignettes/Introduction.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/vignettes/Shao2019.Rmd |only parafac4microbiome-1.3.2/parafac4microbiome/vignettes/vanderPloeg2024.Rmd |only 63 files changed, 706 insertions(+), 938 deletions(-)
More information about parafac4microbiome at CRAN
Permanent link
Title: N-Way Partial Least Squares Modelling of Multi-Way Data
Description: Creation and selection of N-way Partial Least Squares (NPLS) models. Selection of the optimal number of components can be done using ncrossreg(). NPLS was originally described by Rasmus Bro, see <doi:10.1002/%28SICI%291099-128X%28199601%2910%3A1%3C47%3A%3AAID-CEM400%3E3.0.CO%3B2-C>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <g.r.ploeg@uva.nl>
Diff between NPLStoolbox versions 1.0.0 dated 2025-06-10 and 1.1.0 dated 2025-07-31
NPLStoolbox-1.0.0/NPLStoolbox/inst/doc/Cornejo2025_analysis.R |only NPLStoolbox-1.0.0/NPLStoolbox/inst/doc/Cornejo2025_analysis.Rmd |only NPLStoolbox-1.0.0/NPLStoolbox/inst/doc/Cornejo2025_analysis.html |only NPLStoolbox-1.0.0/NPLStoolbox/vignettes/Cornejo2025_analysis.Rmd |only NPLStoolbox-1.1.0/NPLStoolbox/DESCRIPTION | 8 NPLStoolbox-1.1.0/NPLStoolbox/LICENSE | 4 NPLStoolbox-1.1.0/NPLStoolbox/MD5 | 48 - NPLStoolbox-1.1.0/NPLStoolbox/NAMESPACE | 10 NPLStoolbox-1.1.0/NPLStoolbox/NEWS.md | 13 NPLStoolbox-1.1.0/NPLStoolbox/R/data.R | 17 NPLStoolbox-1.1.0/NPLStoolbox/R/ncrossreg.R | 308 +++++----- NPLStoolbox-1.1.0/NPLStoolbox/R/npred.R | 86 +- NPLStoolbox-1.1.0/NPLStoolbox/R/triPLS1.R | 262 ++++---- NPLStoolbox-1.1.0/NPLStoolbox/R/utils.R | 280 ++++----- NPLStoolbox-1.1.0/NPLStoolbox/README.md | 25 NPLStoolbox-1.1.0/NPLStoolbox/build/vignette.rds |binary NPLStoolbox-1.1.0/NPLStoolbox/data/Jakobsen2025.rda |only NPLStoolbox-1.1.0/NPLStoolbox/inst/doc/Introduction.R |only NPLStoolbox-1.1.0/NPLStoolbox/inst/doc/Introduction.Rmd |only NPLStoolbox-1.1.0/NPLStoolbox/inst/doc/Introduction.html |only NPLStoolbox-1.1.0/NPLStoolbox/man/Cornejo2025.Rd | 64 +- NPLStoolbox-1.1.0/NPLStoolbox/man/Jakobsen2025.Rd |only NPLStoolbox-1.1.0/NPLStoolbox/man/ncrossreg.Rd | 74 +- NPLStoolbox-1.1.0/NPLStoolbox/man/npred.Rd | 50 - NPLStoolbox-1.1.0/NPLStoolbox/man/triPLS1.Rd | 62 +- NPLStoolbox-1.1.0/NPLStoolbox/tests/testthat.R | 24 NPLStoolbox-1.1.0/NPLStoolbox/tests/testthat/test-ncrossreg.R | 22 NPLStoolbox-1.1.0/NPLStoolbox/tests/testthat/test-npred.R | 26 NPLStoolbox-1.1.0/NPLStoolbox/tests/testthat/test-triPLS1.R | 22 NPLStoolbox-1.1.0/NPLStoolbox/vignettes/Introduction.Rmd |only 30 files changed, 723 insertions(+), 682 deletions(-)
Title: Item Response Theory Modeling and Scoring for Judgment Data
Description: Psychometric analysis and scoring of judgment data using polytomous Item-Response Theory (IRT) models, as described in Myszkowski and Storme (2019) <doi:10.1037/aca0000225> and Myszkowski (2021) <doi:10.1037/aca0000287>. A function is used to automatically compare and select models, as well as to present a variety of model-based statistics. Plotting functions are used to present category curves, as well as information, reliability and standard error functions.
Author: Nils Myszkowski [aut, cre]
Maintainer: Nils Myszkowski <nilsmyszkowskiscience@gmail.com>
Diff between jrt versions 1.1.2 dated 2023-04-13 and 1.1.3 dated 2025-07-31
DESCRIPTION | 8 MD5 | 28 - NEWS.md | 11 R/info.plot.R | 29 +- R/jrt.R | 227 ++++++++------- build/partial.rdb |binary build/vignette.rds |binary data/ratings_missing.rda |binary inst/doc/my-vignette.R | 15 - inst/doc/my-vignette.Rmd | 38 +- inst/doc/my-vignette.html | 654 +++++++++++++++++++++++----------------------- man/info.plot.Rd | 12 man/jrt.Rd | 67 ++-- man/ratings_missing.Rd | 1 vignettes/my-vignette.Rmd | 38 +- 15 files changed, 606 insertions(+), 522 deletions(-)
Title: Aids in Processing and Plotting Data from a Lemna-Tec
Scananalyzer
Description: Note that 'imageData' has been superseded by 'growthPheno'.
The package 'growthPheno' incorporates all the functionality of
'imageData' and has functionality not available in 'imageData',
but some 'imageData' functions have been renamed.
The 'imageData' package is no longer maintained, but is retained
for legacy purposes.
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between imageData versions 0.1-62 dated 2023-08-22 and 0.1.64 dated 2025-07-31
DESCRIPTION | 10 +++++----- MD5 | 31 ++++++++++++++++--------------- build/partial.rdb |binary build/vignette.rds |binary data/RiceRaw.dat.rda |binary data/exampleData.rda |binary inst/News.Rd | 8 ++++++++ inst/doc/imageData-manual.pdf |binary man/anomPlot.Rd | 2 +- man/corrPlot.Rd | 2 +- man/fitSpline.Rd | 2 +- man/imagetimesPlot.Rd | 6 +++--- man/longiPlot.Rd | 14 +++++++------- man/probeDF.Rd | 12 ++++++------ tests/testthat/testCorrPlot.r | 2 +- tests/testthat/testRice.r | 4 ++-- tests/testthat/testthat-problems.rds |only 17 files changed, 51 insertions(+), 42 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-11 0.4.7
2022-03-06 0.4.6
2022-02-05 0.4.5
2021-01-23 0.4.4
2020-03-02 0.4.3
2019-01-09 0.4.1
2018-08-03 0.4.0
2018-06-18 0.3.0
2018-04-19 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-26 1.0.4
2024-04-03 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-04-06 1.2.0
2024-02-15 1.1.0
2023-05-05 0.3.0
Title: Hybrid Stepwise Regression with Single-Split Dummy Encoding
Description: Implements 'SplitWise', a hybrid regression approach that transforms
numeric variables into either single-split (0/1) dummy variables or retains
them as continuous predictors. The transformation is followed by stepwise
selection to identify the most relevant variables. The default 'iterative'
mode adaptively explores partial synergies among variables to enhance model
performance, while an alternative 'univariate' mode applies simpler
transformations independently to each predictor. For details, see Kurbucz et al. (2025) <doi:10.48550/arXiv.2505.15423>.
Author: Marcell T. Kurbucz [aut, cre],
Nikolaos Tzivanakis [aut],
Nilufer Sari Aslam [aut],
Adam M. Sykulski [aut]
Maintainer: Marcell T. Kurbucz <m.kurbucz@ucl.ac.uk>
Diff between SplitWise versions 1.0.0 dated 2025-05-28 and 1.0.2 dated 2025-07-31
DESCRIPTION | 13 - MD5 | 42 ++-- NAMESPACE | 41 ++-- R/decide_variable_type_iterative.R | 192 +++++++++++-------- R/decide_variable_type_univariate.R | 157 +++++++++------ R/splitwise.R | 324 +++++++++++++++++++++++++++------ R/transform_features_iterative.R | 10 - R/transform_features_univariate.R | 27 +- README.md | 7 build/vignette.rds |binary inst/doc/splitwise.R | 4 inst/doc/splitwise.Rmd | 6 inst/doc/splitwise.html | 88 ++++---- man/decide_variable_type_iterative.Rd | 135 +++++++------ man/decide_variable_type_univariate.Rd | 122 +++++++----- man/splitwise.Rd | 251 +++++++++++++++---------- man/transform_features_iterative.Rd | 44 ++-- man/transform_features_univariate.Rd | 44 ++-- tests/testthat.R | 24 +- tests/testthat/test-01-splitwise.R | 19 + tests/testthat/test-02-benchmark.R | 4 vignettes/splitwise.Rmd | 6 22 files changed, 976 insertions(+), 584 deletions(-)
Title: Relationship-Based Mixed-Effects Models
Description: Fit relationship-based and customized mixed-effects models with complex variance-covariance structures using the 'lme4' machinery. The core computational algorithms are implemented using the
'Eigen' 'C++' library for numerical linear algebra and 'RcppEigen' 'glue'.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between lme4breeding versions 1.0.63 dated 2025-05-15 and 1.0.70 dated 2025-07-31
lme4breeding-1.0.63/lme4breeding/R/funs.R |only lme4breeding-1.0.63/lme4breeding/man/stackTrait.Rd |only lme4breeding-1.0.70/lme4breeding/ChangeLog | 4 lme4breeding-1.0.70/lme4breeding/DESCRIPTION | 10 lme4breeding-1.0.70/lme4breeding/MD5 | 27 lme4breeding-1.0.70/lme4breeding/NAMESPACE | 2 lme4breeding-1.0.70/lme4breeding/R/lmebreed.R |only lme4breeding-1.0.70/lme4breeding/R/utils.R | 27 lme4breeding-1.0.70/lme4breeding/inst/doc/lmebreed.gxe.html | 4 lme4breeding-1.0.70/lme4breeding/inst/doc/lmebreed.qg.R | 64 - lme4breeding-1.0.70/lme4breeding/inst/doc/lmebreed.qg.Rmd | 64 - lme4breeding-1.0.70/lme4breeding/inst/doc/lmebreed.qg.html | 603 ++++++------ lme4breeding-1.0.70/lme4breeding/man/DT_cpdata.Rd | 1 lme4breeding-1.0.70/lme4breeding/man/DT_rice.Rd | 14 lme4breeding-1.0.70/lme4breeding/man/lmebreed.Rd | 2 lme4breeding-1.0.70/lme4breeding/vignettes/lmebreed.qg.Rmd | 64 - 16 files changed, 454 insertions(+), 432 deletions(-)
Title: Global Surface Summary of the Day ('GSOD') Weather Data Client
Description: Provides automated downloading, parsing, cleaning, unit
conversion and formatting of Global Surface Summary of the Day
('GSOD') weather data from the from the USA National Centers for
Environmental Information ('NCEI'). Units are converted from from
United States Customary System ('USCS') units to International System
of Units ('SI'). Stations may be individually checked for number of
missing days defined by the user, where stations with too many missing
observations are omitted. Only stations with valid reported latitude
and longitude values are permitted in the final data. Additional
useful elements, saturation vapour pressure ('es'), actual vapour
pressure ('ea') and relative humidity ('RH') are calculated from the
original data using the improved August-Roche-Magnus approximation
(Alduchov & Eskridge 1996) and included in the final data set. The
resulting metadata include station identification information,
country, state, latitude, longitude, elevation, weather observatio [...truncated...]
Author: Adam H. Sparks [aut, cre] ,
Tomislav Hengl [aut] ,
Andrew Nelson [aut] ,
Hugh Parsonage [cph, ctb] ,
Taras Kaduk [ctb] ,
Gwenael Giboire [ctb] ,
Lukasz Pawlik [ctb] ,
Ross Darnell [ctb] ,
Tyler Widdison [ctb] ` did not
return stations in order of nea [...truncated...]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between GSODR versions 4.1.3 dated 2024-10-16 and 4.1.4 dated 2025-07-31
DESCRIPTION | 33 + MD5 | 73 +-- NEWS.md | 572 +++++++++++++++--------------- R/get_GSOD.R | 52 +- R/get_inventory.R | 18 R/get_isd_history.R | 46 +- R/get_updates.R | 36 - R/internal_functions.R | 269 +++++++------- R/nearest_stations.R | 41 +- R/process_csv.R | 294 ++++++++------- R/reformat_GSOD.R | 29 - R/update_station_list.R | 11 R/zzz.R | 1 README.md | 259 ++++--------- build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 26 - inst/doc/GSODR.Rmd | 242 +++++------- inst/doc/GSODR.html | 249 +++++-------- inst/extdata/isd_diff.rda |binary inst/extdata/isd_history.rda |binary man/GSODR-package.Rd | 4 man/get_GSOD.Rd | 8 man/get_inventory.Rd | 5 man/get_isd_history.Rd | 2 man/get_updates.Rd | 2 man/nearest_stations.Rd | 6 man/reformat_GSOD.Rd | 5 man/update_station_list.Rd | 7 tests/spelling.R | 10 tests/testthat/test-get_GSOD.R | 186 ++++----- tests/testthat/test-get_inventory.R | 9 tests/testthat/test-nearest_stations.R | 13 tests/testthat/test-reformat_GSOD.R | 59 +-- tests/testthat/test-update_station_list.R | 4 vignettes/GSODR.Rmd | 242 +++++------- vignettes/GSOD_Station_locations-1.png |binary vignettes/precompile.R | 21 + 38 files changed, 1384 insertions(+), 1450 deletions(-)