Title: Isothermal Titration Calorimetry (ITC) Data Analysis
Description: Selected functions for simulation and regression of integrated Isothermal Titration Calorimetry (ITC) data with the most commonly used one-to-one binding model.
Author: Yingyun Liu [aut, cre]
Maintainer: Yingyun Liu <yingyunliu@yahoo.com>
Diff between Ritc versions 1.0.2 dated 2016-09-11 and 1.3 dated 2025-03-24
Ritc-1.0.2/Ritc/inst/extdata |only Ritc-1.3/Ritc/DESCRIPTION | 16 +++++++++------- Ritc-1.3/Ritc/MD5 | 15 +++++++-------- Ritc-1.3/Ritc/NAMESPACE | 2 +- Ritc-1.3/Ritc/inst/citation.html |only Ritc-1.3/Ritc/man/XMt_func.Rd | 3 ++- Ritc-1.3/Ritc/man/fititcdata.Rd | 8 ++++++-- Ritc-1.3/Ritc/man/importorigin.Rd | 2 ++ Ritc-1.3/Ritc/man/itcONE11.Rd | 2 ++ 9 files changed, 29 insertions(+), 19 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between gert versions 2.1.4 dated 2024-10-14 and 2.1.5 dated 2025-03-24
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS | 2 +- build/vignette.rds |binary inst/doc/gert.R | 4 ++-- inst/doc/gert.html | 26 ++++++++++++++------------ src/Makevars.in | 6 +++--- src/Makevars.win | 15 ++++++++------- tests/testthat/test-auth.R | 12 +++--------- tools/winlibs.R | 16 ++++++++-------- 10 files changed, 51 insertions(+), 54 deletions(-)
Title: Provides a 'PySpark' Back-End for the 'sparklyr' Package
Description: It enables 'sparklyr' to integrate with 'Spark Connect', and
'Databricks Connect' by providing a wrapper over the 'PySpark' 'python'
library.
Author: Edgar Ruiz [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Edgar Ruiz <edgar@posit.co>
Diff between pysparklyr versions 0.1.6 dated 2025-02-14 and 0.1.7 dated 2025-03-24
DESCRIPTION | 10 - MD5 | 54 ++++---- NAMESPACE | 2 NEWS.md | 28 ++++ R/data-read.R | 2 R/databricks-utils.R | 175 +++++++++++++++++++++------ R/dplyr.R | 9 - R/package.R | 2 R/python-import-check.R | 59 +++++---- R/python-install.R | 10 - R/python-to-pandas-cleaned.R | 2 R/python-use-envname.R | 113 +++++++++++++++-- R/sparklyr-spark-apply.R | 39 +++++- R/sparklyr-spark-connect.R | 151 +++++++++++++++++------ R/utils.R | 16 ++ inst/udf/udf-apply-context.R |only inst/udf/udf-apply-context.py |only man/pyspark_config.Rd |only tests/testthat/_snaps/python-install.md | 11 - tests/testthat/helper-init.R | 25 +++ tests/testthat/requirements.txt |only tests/testthat/test-data-write.R | 4 tests/testthat/test-ft-scaler.R | 1 tests/testthat/test-ml-connect-model.R | 1 tests/testthat/test-ml-pipeline.R | 1 tests/testthat/test-ml-regression-logistic.R | 1 tests/testthat/test-python-install.R | 6 tests/testthat/test-python-use-envname.R | 14 +- tests/testthat/test-sparklyr-spark-apply.R | 15 +- tests/testthat/test-zzz-spark-connect.R | 1 30 files changed, 579 insertions(+), 173 deletions(-)
Title: Stan Models for Item Response Theory
Description: Streamlines the fitting of common Bayesian item response models
using Stan.
Author: Daniel C. Furr [aut, cre]
Maintainer: Daniel C. Furr <danielcfurr@berkeley.edu>
Diff between edstan versions 1.0.6 dated 2017-01-31 and 1.1.0 dated 2025-03-24
edstan-1.0.6/edstan/R/fitting_functions.R |only edstan-1.1.0/edstan/DESCRIPTION | 28 edstan-1.1.0/edstan/LICENSE | 6 edstan-1.1.0/edstan/MD5 | 68 edstan-1.1.0/edstan/NAMESPACE | 19 edstan-1.1.0/edstan/NEWS.md |only edstan-1.1.0/edstan/R/fit.R |only edstan-1.1.0/edstan/R/package.R |only edstan-1.1.0/edstan/R/prepare.R |only edstan-1.1.0/edstan/R/summarize.R |only edstan-1.1.0/edstan/build/vignette.rds |binary edstan-1.1.0/edstan/inst/doc/briefmanual.R | 161 +- edstan-1.1.0/edstan/inst/doc/briefmanual.Rmd | 654 ++++---- edstan-1.1.0/edstan/inst/doc/briefmanual.html | 1172 ++++++++++----- edstan-1.1.0/edstan/inst/extdata/2pl_latent_reg.stan | 91 - edstan-1.1.0/edstan/inst/extdata/gpcm_latent_reg.stan | 133 - edstan-1.1.0/edstan/inst/extdata/grsm_latent_reg.stan | 119 - edstan-1.1.0/edstan/inst/extdata/pcm_latent_reg.stan | 131 - edstan-1.1.0/edstan/inst/extdata/pcm_simple.stan | 67 edstan-1.1.0/edstan/inst/extdata/rasch_latent_reg.stan | 90 - edstan-1.1.0/edstan/inst/extdata/rasch_simple.stan | 38 edstan-1.1.0/edstan/inst/extdata/rsm_latent_reg.stan | 121 - edstan-1.1.0/edstan/inst/extdata/rsm_simple.stan | 75 edstan-1.1.0/edstan/man/aggression.Rd | 50 edstan-1.1.0/edstan/man/dot-long_format_covariates.Rd |only edstan-1.1.0/edstan/man/dot-validate_binary.Rd |only edstan-1.1.0/edstan/man/dot-validate_continuous.Rd |only edstan-1.1.0/edstan/man/dot-validate_regression_model.Rd |only edstan-1.1.0/edstan/man/edstan-package.Rd | 80 - edstan-1.1.0/edstan/man/edstan_model_code.Rd |only edstan-1.1.0/edstan/man/irt_data.Rd | 185 +- edstan-1.1.0/edstan/man/irt_stan.Rd | 226 +- edstan-1.1.0/edstan/man/labelled_integer.Rd | 69 edstan-1.1.0/edstan/man/print_irt_stan.Rd | 78 edstan-1.1.0/edstan/man/rescale_binary.Rd |only edstan-1.1.0/edstan/man/rescale_continuous.Rd |only edstan-1.1.0/edstan/man/spelling.Rd | 36 edstan-1.1.0/edstan/man/stan_columns_plot.Rd | 98 - edstan-1.1.0/edstan/tests |only edstan-1.1.0/edstan/vignettes/briefmanual.Rmd | 654 ++++---- 40 files changed, 2326 insertions(+), 2123 deletions(-)
Title: Weighting by Inverse Distance with Adaptive Least Squares
Description: Computationally easy modeling, interpolation, forecasting of massive temporal-spacial data.
Author: Dave Zes [aut, cre]
Maintainer: Dave Zes <zesdave@gmail.com>
Diff between widals versions 0.6.1 dated 2019-12-07 and 0.6.2 dated 2025-03-24
DESCRIPTION | 11 +-- MD5 | 84 ++++++++++++------------ R/H.Earth.solar.R | 24 ++++-- R/H.als.b.R | 116 +++++++++++++++++++++------------ R/Hals.fastcv.snow.R | 36 ++++------ R/Hals.ses.R | 15 ++-- R/Hals.snow.R | 10 +- R/Hst.sumup.R | 16 +++- R/MSS.snow.R | 53 ++++++--------- R/Z.clean.up.R | 7 +- R/applystnd.Hs.R | 11 +-- R/applystnd.Hst.ls.R | 8 +- R/create.rm.ndx.ls.R | 11 ++- R/crispify.R | 57 +++++++++------- R/distance.R | 21 +++--- R/dlog.norm.R | 5 - R/fun.load.hals.a.R | 81 ++++++----------------- R/fun.load.hals.fill.R | 100 ++++++----------------------- R/fun.load.widals.a.R | 139 ++++++++++++++-------------------------- R/fun.load.widals.fill.R | 120 ++++++++++------------------------ R/fuse.Hst.ls.R | 7 +- R/load.Hst.ls.2Zs.R | 23 +++--- R/load.Hst.ls.Z.R | 11 +-- R/rm.cols.Hst.ls.R | 7 +- R/stnd.Hs.R | 28 ++++---- R/stnd.Hst.ls.R | 35 +++++----- R/stnd.Ht.R | 11 ++- R/subsetsites.Hst.ls.R | 10 +- R/unif.mh.R | 5 - R/unload.Hst.ls.R | 11 +-- R/widals.predict.R | 73 +++++++-------------- R/widals.snow.R | 148 ++++++++++++++++--------------------------- build/vignette.rds |binary inst/doc/funwithfunload.Snw | 4 - inst/doc/funwithfunload.pdf |binary inst/doc/widals.Snw | 4 - inst/doc/widals.pdf |binary man/Hals.fastcv.snow.Rd | 2 man/Hals.snow.Rd | 2 man/fun.load.Rd | 2 man/widals.snow.Rd | 2 vignettes/funwithfunload.Snw | 4 - vignettes/widals.Snw | 4 - 43 files changed, 580 insertions(+), 738 deletions(-)
Title: Spike-and-Slab Group Lasso for Group-Regularized Generalized
Linear Models
Description: Fits group-regularized generalized linear models (GLMs) using the spike-and-slab group lasso (SSGL) prior of Bai et al. (2022) <doi:10.1080/01621459.2020.1765784> and extended to GLMs by Bai (2023) <doi:10.48550/arXiv.2007.07021>. This package supports fitting the SSGL model for the following GLMs with group sparsity: Gaussian linear regression, binary logistic regression, and Poisson regression.
Author: Ray Bai [aut, cre]
Maintainer: Ray Bai <raybaistat@gmail.com>
Diff between SSGL versions 1.0 dated 2023-06-27 and 2.0 dated 2025-03-24
SSGL-1.0/SSGL/R/cv_SSGL.R |only SSGL-1.0/SSGL/R/cv_gamma_grpreg.R |only SSGL-1.0/SSGL/R/cv_nb_grpreg.R |only SSGL-1.0/SSGL/R/gamma_grpreg.R |only SSGL-1.0/SSGL/R/nb_grpreg.R |only SSGL-1.0/SSGL/man/cv_SSGL.Rd |only SSGL-1.0/SSGL/man/cv_gamma_grpreg.Rd |only SSGL-1.0/SSGL/man/cv_nb_grpreg.Rd |only SSGL-1.0/SSGL/man/gamma_grpreg.Rd |only SSGL-1.0/SSGL/man/nb_grpreg.Rd |only SSGL-2.0/SSGL/DESCRIPTION | 19 ++++---- SSGL-2.0/SSGL/MD5 | 24 +++------- SSGL-2.0/SSGL/NAMESPACE | 20 ++++---- SSGL-2.0/SSGL/R/SSGL.R | 76 +++++++------------------------- SSGL-2.0/SSGL/R/SSGL_cv.R |only SSGL-2.0/SSGL/R/SSGL_gibbs.R |only SSGL-2.0/SSGL/R/helper_functions.R | 30 ++---------- SSGL-2.0/SSGL/man/SSGL.Rd | 82 +++++++++++++++++------------------ SSGL-2.0/SSGL/man/SSGL_cv.Rd |only SSGL-2.0/SSGL/man/SSGL_gibbs.Rd |only 20 files changed, 96 insertions(+), 155 deletions(-)
Title: Simple Features for R
Description: Support for simple feature access, a standardized way to
encode and analyze spatial vector data. Binds to 'GDAL'
<doi:10.5281/zenodo.5884351> for reading and writing data, to 'GEOS'
<doi:10.5281/zenodo.11396894> for geometrical operations,
and to 'PROJ' <doi:10.5281/zenodo.5884394> for projection
conversions and datum transformations. Uses by default the 's2'
package for geometry operations on geodetic (long/lat degree)
coordinates.
Author: Edzer Pebesma [aut, cre] ,
Roger Bivand [ctb] ,
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] ,
Kirill Mueller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [c [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.0-19 dated 2024-11-05 and 1.0-20 dated 2025-03-24
sf-1.0-19/sf/demo/bm_wkb.R |only sf-1.0-19/sf/demo/webmap.R |only sf-1.0-19/sf/vignettes/sf2.png |only sf-1.0-20/sf/DESCRIPTION | 21 sf-1.0-20/sf/MD5 | 102 ++-- sf-1.0-20/sf/NAMESPACE | 4 sf-1.0-20/sf/NEWS.md | 13 sf-1.0-20/sf/R/aggregate.R | 3 sf-1.0-20/sf/R/break_antimeridian.R | 8 sf-1.0-20/sf/R/crs.R | 3 sf-1.0-20/sf/R/geom-measures.R | 2 sf-1.0-20/sf/R/geom-transformers.R | 40 + sf-1.0-20/sf/R/plot.R | 12 sf-1.0-20/sf/R/sfc.R | 26 - sf-1.0-20/sf/R/sfg.R | 2 sf-1.0-20/sf/R/tidyverse.R | 9 sf-1.0-20/sf/build/partial.rdb |binary sf-1.0-20/sf/build/vignette.rds |binary sf-1.0-20/sf/configure | 655 ++++++++++++++++-------------- sf-1.0-20/sf/configure.ac | 62 +- sf-1.0-20/sf/demo/00Index | 2 sf-1.0-20/sf/demo/twitter.R | 32 - sf-1.0-20/sf/inst/doc/sf1.R | 40 - sf-1.0-20/sf/inst/doc/sf1.Rmd | 68 +-- sf-1.0-20/sf/inst/doc/sf1.html | 132 ++---- sf-1.0-20/sf/inst/doc/sf2.R | 78 +-- sf-1.0-20/sf/inst/doc/sf2.html | 6 sf-1.0-20/sf/inst/doc/sf3.html | 45 +- sf-1.0-20/sf/inst/doc/sf4.html | 2 sf-1.0-20/sf/inst/doc/sf5.R | 14 sf-1.0-20/sf/inst/doc/sf6.R | 4 sf-1.0-20/sf/inst/doc/sf7.R | 4 sf-1.0-20/sf/inst/doc/sf7.Rmd | 25 - sf-1.0-20/sf/inst/doc/sf7.html | 45 +- sf-1.0-20/sf/inst/docker/gdal/Dockerfile | 19 sf-1.0-20/sf/inst/docker/parquet |only sf-1.0-20/sf/man/geos_measures.Rd | 2 sf-1.0-20/sf/man/geos_unary.Rd | 15 sf-1.0-20/sf/man/sf-package.Rd | 2 sf-1.0-20/sf/man/st_break_antimeridian.Rd | 6 sf-1.0-20/sf/man/tidyverse.Rd | 6 sf-1.0-20/sf/src/gdal.cpp | 1 sf-1.0-20/sf/src/geos.cpp | 8 sf-1.0-20/sf/src/mdim.cpp | 4 sf-1.0-20/sf/src/sfc-sfg.cpp | 3 sf-1.0-20/sf/src/stars.cpp | 4 sf-1.0-20/sf/tests/full.R | 3 sf-1.0-20/sf/tests/full.Rout.save | 11 sf-1.0-20/sf/tests/gdal_geom.Rout.save | 5 sf-1.0-20/sf/tests/testthat/test-sfg.R | 5 sf-1.0-20/sf/tests/testthat/test-wkt.R | 2 sf-1.0-20/sf/vignettes/sf1.Rmd | 68 +-- sf-1.0-20/sf/vignettes/sf7.Rmd | 25 - sf-1.0-20/sf/vignettes/sf_fig.drawio |only sf-1.0-20/sf/vignettes/sf_fig.png |only 55 files changed, 888 insertions(+), 760 deletions(-)
Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models,
make surface plots, obtain the path of steepest ascent,
and do canonical analysis. A good reference on these methods
is Chapter 10 of Wu, C-F J and Hamada, M (2009)
"Experiments: Planning, Analysis, and Parameter Design Optimization"
ISBN 978-0-471-69946-0. An early version of the package is
documented in Journal of Statistical Software <doi:10.18637/jss.v032.i07>.
Author: Russell Lenth [aut, cre]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between rsm versions 2.10.5 dated 2024-06-09 and 2.10.6 dated 2025-03-24
DESCRIPTION | 12 ++++---- MD5 | 64 +++++++++++++++++++++++----------------------- R/bbd.R | 2 - R/ccd.R | 2 - R/ccd.pick.R | 2 - R/coding.R | 2 - R/contour-lm.R | 2 - R/emmeans-support.R | 2 - R/rsm.R | 2 - R/varfcn.R | 2 - R/zzz.R | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/NEWS | 5 +++ inst/doc/article-JSS.html | 40 ++++++++++++++-------------- inst/doc/illus.R | 2 + inst/doc/illus.html | 18 ++++++------ inst/doc/plots.html | 16 +++++------ man/ChemReact.Rd | 2 - man/FO.Rd | 2 - man/bbd.Rd | 2 - man/ccd.Rd | 2 - man/ccd.pick.Rd | 2 - man/codata.Rd | 2 - man/coded.data.Rd | 2 - man/contour.lm.Rd | 2 - man/djoin.Rd | 2 - man/heli.Rd | 2 - man/model.data.Rd | 2 - man/rsm-package.Rd | 2 - man/rsm.Rd | 2 - man/steepest.Rd | 2 - man/varfcn.Rd | 7 ++--- 33 files changed, 108 insertions(+), 102 deletions(-)
Title: Robust Bayesian Survival Analysis
Description: A framework for estimating ensembles of parametric survival models
with different parametric families. The RoBSA framework uses Bayesian
model-averaging to combine the competing parametric survival models into
a model ensemble, weights the posterior parameter distributions based on
posterior model probabilities and uses Bayes factors to test for the
presence or absence of the individual predictors or preference for a
parametric family (Bartoš, Aust & Haaf, 2022, <doi:10.1186/s12874-022-01676-9>).
The user can define a wide range of informative priors for all parameters
of interest. The package provides convenient functions for summary, visualizations,
fit diagnostics, and prior distribution calibration.
Author: Frantisek Bartos [aut, cre] ,
Julia M. Haaf [ths] ,
Matthew Denwood [cph] ,
Martyn Plummer [cph]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between RoBSA versions 1.0.2 dated 2023-05-30 and 1.0.3 dated 2025-03-24
DESCRIPTION | 6 MD5 | 72 +++--- NEWS.md | 4 R/utilities.R | 1 README.md | 24 +- build/partial.rdb |binary configure.ac | 2 man/RoBSA-package.Rd | 70 +++--- man/RoBSA.Rd | 330 ++++++++++++++--------------- man/RoBSA_control.Rd | 142 ++++++------ man/calibrate_meta_analytic.Rd | 82 +++---- man/calibrate_quartiles.Rd | 108 ++++----- man/check_RoBSA.Rd | 40 +-- man/check_setup.Rd | 274 ++++++++++++------------ man/contr.meandif.Rd | 68 ++--- man/contr.orthonormal.Rd | 60 ++--- man/default_prior.Rd | 78 +++--- man/diagnostics.Rd | 186 ++++++++-------- man/exp-aft.Rd | 130 +++++------ man/extract_flexsurv.Rd | 42 +-- man/figures/README-predicted_surival-1.png |binary man/gamma-aft.Rd | 134 +++++------ man/is.RoBSA.Rd | 34 +- man/llogis-aft.Rd | 134 +++++------ man/lnorm-aft.Rd | 134 +++++------ man/plot.RoBSA.Rd | 194 ++++++++--------- man/plot_models.Rd | 182 +++++++-------- man/plot_prediction.Rd | 268 +++++++++++------------ man/predict.RoBSA.Rd | 126 +++++------ man/print.RoBSA.Rd | 44 +-- man/print.summary.RoBSA.Rd | 44 +-- man/prior.Rd | 170 +++++++------- man/prior_informed.Rd | 138 ++++++------ man/prior_informed_medicine_names.Rd | 38 +-- man/prior_none.Rd | 80 +++---- man/update.RoBSA.Rd | 296 +++++++++++++------------- man/weibull-aft.Rd | 134 +++++------ 37 files changed, 1937 insertions(+), 1932 deletions(-)
Title: Multi-Layer Perceptron Neural Network with Optional Monotonicity
Constraints
Description: Train and make predictions from a multi-layer perceptron neural
network with optional partial monotonicity constraints.
Author: Alex J. Cannon [aut, cre]
Maintainer: Alex J. Cannon <alex.cannon@canada.ca>
Diff between monmlp versions 1.1.5 dated 2017-12-04 and 1.1.5-1 dated 2025-03-24
DESCRIPTION | 13 ++++++++----- MD5 | 4 ++-- man/monmlp.fit.Rd | 6 +++--- 3 files changed, 13 insertions(+), 10 deletions(-)
Title: Interface to the API 'Sede Electronica Del Catastro'
Description: Access public spatial data available under the 'INSPIRE'
directive. Tools for downloading references and addresses of
properties, as well as map images.
Author: Angel Delgado Panadero [aut, cph]
,
Inaki Ucar [ctb] ,
Diego Hernangomez [aut, cre]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between CatastRo versions 0.4.0 dated 2024-06-02 and 0.4.1 dated 2025-03-24
CatastRo-0.4.0/CatastRo/man/figures/README-wms-1.png |only CatastRo-0.4.1/CatastRo/DESCRIPTION | 11 - CatastRo-0.4.1/CatastRo/MD5 | 59 +++--- CatastRo-0.4.1/CatastRo/NEWS.md | 4 CatastRo-0.4.1/CatastRo/R/data.R | 2 CatastRo-0.4.1/CatastRo/R/wms_all.R | 4 CatastRo-0.4.1/CatastRo/README.md | 162 +++++++++++++---- CatastRo-0.4.1/CatastRo/build/vignette.rds |binary CatastRo-0.4.1/CatastRo/data/catr_srs_values.rda |binary CatastRo-0.4.1/CatastRo/inst/CITATION | 8 CatastRo-0.4.1/CatastRo/inst/COPYRIGHTS | 2 CatastRo-0.4.1/CatastRo/inst/doc/CatastRo.Rmd | 17 - CatastRo-0.4.1/CatastRo/inst/doc/CatastRo.html | 138 +++++++------- CatastRo-0.4.1/CatastRo/inst/schemaorg.json | 6 CatastRo-0.4.1/CatastRo/man/catr_atom_get_address.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_atom_get_buildings.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_atom_get_parcels.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_srs_values.Rd | 2 CatastRo-0.4.1/CatastRo/man/catr_wfs_get_address.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_wfs_get_buildings.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_wfs_get_parcels.Rd | 4 CatastRo-0.4.1/CatastRo/man/catr_wms_get_layer.Rd | 12 - CatastRo-0.4.1/CatastRo/man/chunks/atompdf.Rmd | 4 CatastRo-0.4.1/CatastRo/man/chunks/wfspdf.Rmd | 4 CatastRo-0.4.1/CatastRo/man/chunks/wmspdf.Rmd | 4 CatastRo-0.4.1/CatastRo/man/figures/README-atom-1.png |binary CatastRo-0.4.1/CatastRo/man/figures/README-wfs-1.png |binary CatastRo-0.4.1/CatastRo/vignettes/CatastRo.Rmd | 17 - CatastRo-0.4.1/CatastRo/vignettes/dviz-1.png |binary CatastRo-0.4.1/CatastRo/vignettes/minimal-1.png |binary CatastRo-0.4.1/CatastRo/vignettes/santbernabeu-1.png |binary 31 files changed, 289 insertions(+), 191 deletions(-)
Title: Strategic Selection Estimator
Description: Provides functions to estimate a strategic selection estimator. A strategic selection estimator is an agent error model in which the two random components are not assumed to be orthogonal. In addition this package provides generic functions to print and plot objects of its class as well as the necessary functions to create tables for LaTeX. There is also a function to create dyadic data sets.
Author: Lucas Leemann [aut, cre]
Maintainer: Lucas Leemann <lleemann@gmail.com>
Diff between StratSel versions 1.3 dated 2018-05-26 and 1.4 dated 2025-03-24
StratSel-1.3/StratSel/R/StratSel-internal.R |only StratSel-1.4/StratSel/DESCRIPTION | 14 +++++++++----- StratSel-1.4/StratSel/MD5 | 15 +++++++-------- StratSel-1.4/StratSel/man/StratSel-package.Rd | 12 ++++++------ StratSel-1.4/StratSel/man/StratSel.Rd | 2 +- StratSel-1.4/StratSel/man/getSummary.StratSel.Rd | 2 +- StratSel-1.4/StratSel/man/logLikStratSel.Rd | 2 +- StratSel-1.4/StratSel/man/setStratSelDefault.Rd | 2 +- StratSel-1.4/StratSel/man/war1800.Rd | 2 +- 9 files changed, 27 insertions(+), 24 deletions(-)
Title: Power and Sample Size Calculations with Hierarchical Endpoints
Description: Calculate sample size or power for hierarchical endpoints.
The package can handle any type of outcomes (binary, continuous, count, ordinal,
time-to-event) and any number of such endpoints. It allows users to calculate
sample size with a given power or to calculate power with a given sample size
for hypothesis testing based on win ratios, win odds, net benefit, or DOOR
(desirability of outcome ranking) as treatment effect between two groups for
hierarchical endpoints. The methods of this package are described further in
the paper by Barnhart, H. X. et al. (2024, <doi:10.1080/19466315.2024.2365629>).
Author: Sarah Wu [aut, cre],
Dylan Thibault [aut]
Maintainer: Sarah Wu <O2E@duke.edu>
Diff between powerHE versions 1.0.0 dated 2025-02-10 and 1.0.1 dated 2025-03-24
DESCRIPTION | 7 +++---- MD5 | 6 +++--- NAMESPACE | 1 - R/powerHE.R | 25 +++++++++++++++++++++++-- 4 files changed, 29 insertions(+), 10 deletions(-)
Title: Run a Function Iteratively While Varying Parameters
Description: Run simulations or other functions while easily varying parameters
from one iteration to the next. Some common use cases would be grid search
for machine learning algorithms, running sets of simulations (e.g.,
estimating statistical power for complex models), or bootstrapping under
various conditions. See the 'paramtest' documentation for more information
and examples.
Author: Jeffrey Hughes [aut, cre]
Maintainer: Jeffrey Hughes <jeff.hughes@gmail.com>
Diff between paramtest versions 0.1.0 dated 2017-10-24 and 0.1.1 dated 2025-03-24
DESCRIPTION | 9 MD5 | 30 NEWS.md | 20 R/run_test.R | 616 +++++++-------- R/search_funcs.R | 372 ++++----- README.md | 94 +- build/vignette.rds |binary inst/doc/Simulating-Power.R | 818 ++++++++++---------- inst/doc/Simulating-Power.html | 1628 ++++++++++++++++++++++++----------------- man/grid_search.Rd | 20 man/n.iter.Rd | 4 man/random_search.Rd | 22 man/results.Rd | 4 man/run_test.Rd | 20 man/tests.Rd | 4 man/timing.Rd | 4 16 files changed, 2036 insertions(+), 1629 deletions(-)
Title: Tools for the Continuous Convolution Trick in Nonparametric
Estimation
Description: Implements the uniform scaled beta distribution and
the continuous convolution kernel density estimator.
Author: Thomas Nagler [aut, cre]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between cctools versions 0.1.2 dated 2019-03-19 and 0.1.3 dated 2025-03-24
DESCRIPTION | 13 ++++++------- MD5 | 24 ++++++++++++------------ R/cckde.R | 2 +- R/cctools-package.R | 5 ++--- R/cont_conv.R | 2 +- R/usb.R | 2 +- README.md | 10 ++++------ man/cckde.Rd | 2 +- man/cctools-package.Rd | 2 +- man/cont_conv.Rd | 4 ++-- man/dusb.Rd | 4 ++-- man/expand_as_numeric.Rd | 2 +- src/RcppExports.cpp | 5 +++++ 13 files changed, 39 insertions(+), 38 deletions(-)
Title: R Client for the YouTube Analytics and Reporting API
Description: Get statistics and reports from YouTube. To learn more about
the YouTube Analytics and Reporting API, see <https://developers.google.com/youtube/reporting/>.
Author: Gaurav Sood [aut, cre]
Maintainer: Gaurav Sood <gsood07@gmail.com>
Diff between tubern versions 0.1.0 dated 2017-04-13 and 0.2.1 dated 2025-03-24
tubern-0.1.0/tubern/tests/testthat/token_file.rds |only tubern-0.2.1/tubern/DESCRIPTION | 18 tubern-0.2.1/tubern/LICENSE | 2 tubern-0.2.1/tubern/MD5 | 78 +- tubern-0.2.1/tubern/NAMESPACE | 50 - tubern-0.2.1/tubern/NEWS.md | 15 tubern-0.2.1/tubern/R/add_group_item.R | 48 - tubern-0.2.1/tubern/R/add_groups.R | 50 - tubern-0.2.1/tubern/R/delete_group.R | 48 - tubern-0.2.1/tubern/R/delete_group_item.R | 48 - tubern-0.2.1/tubern/R/get_report.R | 105 ++- tubern-0.2.1/tubern/R/list_group_items.R | 50 - tubern-0.2.1/tubern/R/list_groups.R | 58 - tubern-0.2.1/tubern/R/tubern.R | 223 +++---- tubern-0.2.1/tubern/R/update_group.R | 48 - tubern-0.2.1/tubern/R/yt_oauth.R | 124 ++-- tubern-0.2.1/tubern/README.md | 46 - tubern-0.2.1/tubern/build/vignette.rds |binary tubern-0.2.1/tubern/inst/CITATION | 30 - tubern-0.2.1/tubern/inst/doc/basic_tubern.R | 42 - tubern-0.2.1/tubern/inst/doc/basic_tubern.Rmd | 162 ++--- tubern-0.2.1/tubern/inst/doc/basic_tubern.html | 554 ++++++++++++++----- tubern-0.2.1/tubern/man/add_group_item.Rd | 58 - tubern-0.2.1/tubern/man/add_groups.Rd | 60 +- tubern-0.2.1/tubern/man/delete_group.Rd | 58 - tubern-0.2.1/tubern/man/delete_group_item.Rd | 58 - tubern-0.2.1/tubern/man/get_report.Rd | 127 ++-- tubern-0.2.1/tubern/man/list_group_items.Rd | 54 - tubern-0.2.1/tubern/man/list_groups.Rd | 62 +- tubern-0.2.1/tubern/man/tubern.Rd | 32 - tubern-0.2.1/tubern/man/tubern_DELETE.Rd | 46 - tubern-0.2.1/tubern/man/tubern_GET.Rd | 42 - tubern-0.2.1/tubern/man/tubern_POST.Rd | 46 - tubern-0.2.1/tubern/man/tubern_PUT.Rd | 46 - tubern-0.2.1/tubern/man/update_group.Rd | 58 - tubern-0.2.1/tubern/man/yt_check_token.Rd | 22 tubern-0.2.1/tubern/man/yt_oauth.Rd | 87 +- tubern-0.2.1/tubern/tests/testthat.R | 8 tubern-0.2.1/tubern/tests/testthat/test-get-report.R | 25 tubern-0.2.1/tubern/tests/testthat/test-pkg-style.R |only tubern-0.2.1/tubern/vignettes/basic_tubern.Rmd | 162 ++--- 41 files changed, 1596 insertions(+), 1254 deletions(-)
Title: Kernel Smoothing for Bivariate Copula Densities
Description: Provides fast implementations of kernel smoothing techniques for
bivariate copula densities, in particular density estimation and resampling,
see Nagler (2018) <doi:10.18637/jss.v084.i07>.
Author: Thomas Nagler [aut, cre],
Kuangyu Wen [ctb]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between kdecopula versions 0.9.2 dated 2018-04-09 and 0.9.3 dated 2025-03-24
DESCRIPTION | 13 +- MD5 | 58 +++++------ NAMESPACE | 1 R/bandwidths.R | 7 - R/berncop.R | 16 +++ R/eval_tt.R | 7 - R/kdecop.R | 7 - R/kdecopula-package.R | 12 -- R/plot.kdecopula.R | 4 README.md | 185 +++++++++++++++++++++++-------------- build/vignette.rds |binary inst/CITATION | 30 +++--- inst/README-unnamed-chunk-10-1.png |binary inst/README-unnamed-chunk-12-1.png |binary inst/README-unnamed-chunk-3-1.png |binary inst/README-unnamed-chunk-6-1.png |binary inst/README-unnamed-chunk-7-1.png |binary inst/README-unnamed-chunk-8-1.png |binary inst/README-unnamed-chunk-9-1.png |binary man/bw_t.Rd | 2 man/bw_tll.Rd | 2 man/bw_tt_pi.Rd | 7 - man/dkdecop.Rd | 4 man/kdecop.Rd | 18 ++- man/kdecopula.Rd | 16 ++- man/plot.kdecopula.Rd | 5 - man/predict.kdecopula.Rd | 3 man/simulate.kdecopula.Rd | 3 man/wdbc.Rd | 8 - src/RcppExports.cpp | 5 + 30 files changed, 240 insertions(+), 173 deletions(-)
Title: Confirmatory Adaptive Clinical Trial Design and Analysis
Description: Design and analysis of confirmatory adaptive clinical trials with continuous, binary, and survival endpoints according to the methods described in the monograph by Wassmer and Brannath (2016) <doi:10.1007/978-3-319-32562-0>. This includes classical group sequential as well as multi-stage adaptive hypotheses tests that are based on the combination testing principle.
Author: Gernot Wassmer [aut] ,
Friedrich Pahlke [aut, cre] ,
Till Jensen [ctb],
Daniel Sabanes Bove [ctb] ,
Stephen Schueuerhuis [ctb] ,
Tobias Muetze [ctb]
Maintainer: Friedrich Pahlke <friedrich.pahlke@rpact.com>
Diff between rpact versions 4.1.0 dated 2024-09-27 and 4.2.0 dated 2025-03-24
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Title: Least-Squares Means
Description: Obtain least-squares means for linear, generalized linear,
and mixed models. Compute contrasts or linear functions of
least-squares means, and comparisons of slopes.
Plots and compact letter displays. Least-squares means were proposed in
Harvey, W (1960) "Least-squares analysis of data with unequal subclass numbers",
Tech Report ARS-20-8, USDA National Agricultural Library, and discussed
further in Searle, Speed, and Milliken (1980) "Population marginal means
in the linear model: An alternative to least squares means",
The American Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
NOTE: lsmeans now relies primarily on code in the 'emmeans' package.
'lsmeans' will be archived in the near future.
Author: Russell Lenth [aut, cre, cph]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between lsmeans versions 2.30-0 dated 2018-11-02 and 2.30-2 dated 2025-03-24
lsmeans-2.30-0/lsmeans/data |only lsmeans-2.30-0/lsmeans/man/auto.noise.Rd |only lsmeans-2.30-2/lsmeans/DESCRIPTION | 8 - lsmeans-2.30-2/lsmeans/MD5 | 25 ++---- lsmeans-2.30-2/lsmeans/NAMESPACE | 3 lsmeans-2.30-2/lsmeans/R/S4-classes.R | 2 lsmeans-2.30-2/lsmeans/R/ref.grid.R | 12 ++ lsmeans-2.30-2/lsmeans/README.md | 16 +-- lsmeans-2.30-2/lsmeans/inst/NEWS | 7 + lsmeans-2.30-2/lsmeans/man/ref.grid-class.Rd | 2 lsmeans-2.30-2/lsmeans/man/ref.grid.Rd | 3 lsmeans-2.30-2/lsmeans/tests/lsmbasis-test.out | 104 ++++++++++++------------- 12 files changed, 94 insertions(+), 88 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-25 0.4
2016-09-05 0.3
2015-10-19 0.2
2015-09-20 0.1
Title: High Performance Algorithms for Vine Copula Modeling
Description: Provides an interface to 'vinecopulib', a C++ library for vine
copula modeling. The 'rvinecopulib' package implements the core features of the
popular 'VineCopula' package, in particular inference algorithms for both vine
copula and bivariate copula models. Advantages over 'VineCopula' are a sleeker
and more modern API, improved performances, especially in high dimensions,
nonparametric and multi-parameter families, and the ability to model discrete
variables. The 'rvinecopulib' package includes 'vinecopulib' as header-only
C++ library (currently version 0.7.2). Thus users do not need to install
'vinecopulib' itself in order to use 'rvinecopulib'. Since their initial
releases, 'vinecopulib' is licensed under the MIT License, and 'rvinecopulib'
is licensed under the GNU GPL version 3.
Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut]
Maintainer: Thomas Nagler <info@vinecopulib.org>
Diff between rvinecopulib versions 0.7.1.1.2 dated 2025-03-03 and 0.7.2.1.0 dated 2025-03-24
DESCRIPTION | 8 MD5 | 12 NEWS.md | 7 inst/include/vinecopulib/misc/implementation/tools_stats.ipp | 41 - inst/include/vinecopulib/version.hpp | 4 inst/include/vinecopulib/vinecop/implementation/class.ipp | 6 tests/testthat/Rplots.pdf | 328 +++++------ 7 files changed, 199 insertions(+), 207 deletions(-)
Title: Pearson Distribution System
Description: Implementation of the Pearson distribution system, including full
support for the (d,p,q,r)-family of functions for probability distributions
and fitting via method of moments and maximum likelihood method.
Author: Martin Becker [aut, cre] ,
Stefan Kloessner [aut] ,
Joel Heinrich [ctb]
Maintainer: Martin Becker <martin.becker@mx.uni-saarland.de>
Diff between PearsonDS versions 1.3.1 dated 2024-02-08 and 1.3.2 dated 2025-03-24
DESCRIPTION | 8 MD5 | 8 NEWS | 7 configure | 1858 ++++++++++++++++++++++++++++++++++++++--------------------- configure.ac | 4 5 files changed, 1228 insertions(+), 657 deletions(-)
Title: Convert Video Files to 'mp3' Format, Merge or Trim Audio Files
using 'FFmpeg'
Description: Converts video files to 'mp3', merges multiple audio files and trims audio files using 'FFmpeg', which is dynamically downloaded to avoid bundling any third-party binaries. Users must ensure compliance with the license terms of 'FFmpeg' when using the package. See <https://github.com/BtbN/FFmpeg-Builds/releases/download/latest/ffmpeg-master-latest-win64-gpl.zip> for details.
Author: Lijin Arakkandathil Thekkathil [aut, cre]
Maintainer: Lijin Arakkandathil Thekkathil <lijin5673@gmail.com>
Diff between LJmp3converter versions 1.0.5 dated 2025-03-20 and 1.0.7 dated 2025-03-24
DESCRIPTION | 11 +++--- MD5 | 17 ++++++--- NAMESPACE | 2 + NEWS.md | 56 ++++++++++++++++++++++++-------- R/MergeMp3.R |only R/Trim_Audio.R |only README.md | 27 +++++++++------ man/LJmp3converter-package.Rd | 4 +- man/merge_mp3.Rd |only man/trim_audio.Rd |only tests/testthat/test-merge_mp3.R |only tests/testthat/test-run_converter_app.R |only tests/testthat/test-trim_audio.R |only 13 files changed, 81 insertions(+), 36 deletions(-)
More information about LJmp3converter at CRAN
Permanent link
Title: Fast, Dependency-Free Geodesic Distance Calculations
Description: Dependency-free, ultra fast calculation of geodesic
distances. Includes the reference nanometre-accuracy geodesic
distances of Karney (2013) <doi:10.1007/s00190-012-0578-z>, as used by
the 'sf' package, as well as Haversine and Vincenty distances. Default
distance measure is the "Mapbox cheap ruler" which is generally more
accurate than Haversine or Vincenty for distances out to a few hundred
kilometres, and is considerably faster. The main function accepts one
or two inputs in almost any generic rectangular form, and returns
either matrices of pairwise distances, or vectors of sequential
distances.
Author: Mark Padgham [aut, cre],
Michael D. Sumner [aut],
Charles F.F Karney [cph]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between geodist versions 0.1.0 dated 2024-05-23 and 0.1.1 dated 2025-03-24
DESCRIPTION | 8 - MD5 | 57 ++++++--- NEWS.md | 6 + R/1 |only R/geodist-min.R | 2 R/geodist-vec.R | 2 R/geodist.R | 2 R/georange.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/geodist.R | 288 +++++++++++++++++++++++++------------------------- inst/doc/geodist.html | 4 man/geodist.Rd | 2 man/geodist_min.Rd | 2 man/geodist_vec.Rd | 2 man/georange.Rd | 2 src/geodesic.c | 128 +++++++++++----------- src/geodesic.h | 2 19 files changed, 275 insertions(+), 235 deletions(-)
Title: EMF Graphics Output Device
Description: Output graphics to EMF+/EMF.
Author: Philip Johnson [aut, cre]
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between devEMF versions 4.5 dated 2024-07-26 and 4.5-1 dated 2025-03-24
DESCRIPTION | 17 +++++++++++------ MD5 | 8 ++++---- NEWS | 3 +++ configure | 20 ++++++++++---------- configure.ac | 12 ++++++------ 5 files changed, 34 insertions(+), 26 deletions(-)
Title: Datetimes with Optional UTC Offsets and/or Heterogeneous Time
Zones
Description: Supports import/export for a number of datetime string standards
and R datetime classes often including
lossless re-export of
any original reduced precision including 'ISO 8601' <https://en.wikipedia.org/wiki/ISO_8601> and
'pdfmark' <https://opensource.adobe.com/dc-acrobat-sdk-docs/library/pdfmark/> datetime strings.
Supports local/global datetimes with optional UTC offsets and/or (possibly heterogeneous) time zones
with up to nanosecond precision.
Author: Trevor L. Davis [aut, cre]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between datetimeoffset versions 0.4.1 dated 2025-01-11 and 1.0.0 dated 2025-03-24
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 5 +++++ build/vignette.rds |binary tests/testthat/test-as_datetimeoffset.r | 3 +++ tests/testthat/test-from-datetimeoffset.r | 8 +++++++- tests/testthat/test-invalid.r | 2 ++ 7 files changed, 27 insertions(+), 11 deletions(-)
More information about datetimeoffset at CRAN
Permanent link
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data
analysis workflow: (1) wrangling the raw data to get it in the needed form,
(2) applying preprocessing steps and statistical transformations, and
(3) compute statistical summaries of data properties and distributions.
It is also the data wrangling backend for packages in 'easystats' ecosystem.
References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] ,
Etienne Bacher [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Remi Theriault [ctb] ,
Thomas J. Faulkenberry [rev],
Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>
Diff between datawizard versions 1.0.1 dated 2025-03-07 and 1.0.2 dated 2025-03-24
DESCRIPTION | 6 MD5 | 8 NEWS.md | 1867 +++++++++++++++++++++---------------------- inst/WORDLIST | 255 ++--- tests/testthat/test-adjust.R | 3 5 files changed, 1074 insertions(+), 1065 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-30 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-22 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-17 0.15
2017-05-03 0.11
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-16 0.1.1
2017-11-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-12 0.4.2
2020-10-09 0.4.0
2019-08-05 0.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-15 0.1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-13 1.0-3
2015-07-24 1.0-2
2014-01-28 1.0-1
2014-01-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-05 0.3.4
2018-10-30 0.3.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-20 1.1.0
2015-12-02 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-19 1.0.2
2018-01-30 1.0.1
2018-01-17 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-27 1.3.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-26 0.1.4
2016-08-05 0.0.1
2016-06-16 0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-09 2.0.4
2017-07-21 2.0.3
2016-07-30 2.0.2
2015-06-15 2.0.1
2015-03-18 2.0
2013-03-11 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-03 1.1
2014-11-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-02 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-28 0.2-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-06 1.0.2
2017-04-11 1.0.1
2017-03-17 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-18 0.1-8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-26 1.1.1
2016-07-13 1.1.0
Title: Bayesian Graphical Models using MCMC
Description: Interface to the JAGS MCMC library.
Author: Martyn Plummer [aut, cre],
Alexey Stukalov [ctb],
Matt Denwood [ctb]
Maintainer: Martyn Plummer <martyn.plummer@gmail.com>
Diff between rjags versions 4-16 dated 2024-08-19 and 4-17 dated 2025-03-24
DESCRIPTION | 8 MD5 | 6 configure | 807 ++++++++++++++++++++++++++++++++--------------------------- configure.ac | 2 4 files changed, 447 insertions(+), 376 deletions(-)
Title: Piece-Wise Exponential Additive Mixed Modeling Tools for
Survival Analysis
Description: The Piece-wise exponential (Additive Mixed) Model
(PAMM; Bender and others (2018) <doi: 10.1177/1471082X17748083>) is a
powerful model class for the analysis of survival (or time-to-event) data,
based on Generalized Additive (Mixed) Models (GA(M)Ms).
It offers intuitive specification and robust estimation of complex survival
models with stratified baseline hazards, random effects, time-varying effects,
time-dependent covariates and cumulative effects (Bender and others (2019)),
as well as support for left-truncated data as well as competing risks,
recurrent events and multi-state settings.
pammtools provides tidy workflow for survival analysis with PAMMs,
including data simulation, transformation and other functions for data
preprocessing and model post-processing as well as visualization.
Author: Andreas Bender [aut, cre] ,
Fabian Scheipl [aut] ,
Johannes Piller [aut] ,
Philipp Kopper [aut] ,
Lukas Burk [ctb]
Maintainer: Andreas Bender <andreas.bender@stat.uni-muenchen.de>
Diff between pammtools versions 0.5.93 dated 2024-02-25 and 0.7.3 dated 2025-03-24
DESCRIPTION | 30 +- MD5 | 63 +++-- NAMESPACE | 3 R/add-functions.R | 338 ++++++++++++++++++++++++++++++-- R/as-ped.R | 9 R/get-cut-points.R | 27 ++ R/ggplot-extensions.R | 34 +-- R/interval-information.R | 20 + R/make-newdata.R | 120 ++++++++++- R/multi-state-helpers.R |only R/pammtools.R | 10 R/penalized-lag-lead.R |only R/split-data.R | 33 +-- R/viz-elra.R | 2 R/warnings.R | 16 - README.md | 29 -- man/add_cif.Rd | 4 man/add_counterfactual_transitions.Rd |only man/add_trans_ci.Rd |only man/add_trans_prob.Rd |only man/dplyr_verbs.Rd | 4 man/from_to_pairs.Rd |only man/geom_hazard.Rd | 65 ++++-- man/geom_stepribbon.Rd | 66 ++++-- man/get_cif.Rd | 2 man/get_cut.Rd | 11 + man/get_sim_cumu.Rd |only man/get_term.Rd | 7 man/make_X.Rd |only man/make_X.scam.Rd |only man/pammtools.Rd | 31 ++ man/rpexp.Rd | 7 man/smooth.construct.fdl.smooth.spec.Rd |only man/warn_about_new_time_points.glm.Rd |only tests/testthat/test-add-functions.R | 62 +++++ tests/testthat/test-as-ped.R | 52 ++++ tests/testthat/test-cumulative-effect.R | 8 tests/testthat/test-newdata.R | 19 + 38 files changed, 872 insertions(+), 200 deletions(-)
Title: Estimation and Testing for a Lognormal-Pareto Mixture
Description: Estimates a lognormal-Pareto mixture by maximizing the profile likelihood function. A likelihood ratio test for discriminating between lognormal and Pareto tail is also implemented. See Bee, M. (2022) <doi:10.1007/s11634-022-00497-4>.
Author: Marco Bee [aut, cre]
Maintainer: Marco Bee <marco.bee@unitn.it>
Diff between LNPar versions 0.1.0 dated 2023-06-30 and 1.1.0 dated 2025-03-24
LNPar-0.1.0/LNPar/R/LPfit.R |only LNPar-0.1.0/LNPar/R/MLEBoot.R |only LNPar-0.1.0/LNPar/man/LPfit.Rd |only LNPar-0.1.0/LNPar/man/MLEBoot.Rd |only LNPar-1.1.0/LNPar/DESCRIPTION | 8 LNPar-1.1.0/LNPar/LICENSE | 4 LNPar-1.1.0/LNPar/MD5 | 60 LNPar-1.1.0/LNPar/NAMESPACE | 31 LNPar-1.1.0/LNPar/NEWS.md | 4 LNPar-1.1.0/LNPar/R/ECMEBoot.R |only LNPar-1.1.0/LNPar/R/LPfitEM.R |only LNPar-1.1.0/LNPar/R/LPfitProf.R |only LNPar-1.1.0/LNPar/R/LPtest.R | 9 LNPar-1.1.0/LNPar/R/LPtestEM.R |only LNPar-1.1.0/LNPar/R/ParallelTest.R | 8 LNPar-1.1.0/LNPar/R/ParallelTestEM.R |only LNPar-1.1.0/LNPar/R/ProfBoot.R |only LNPar-1.1.0/LNPar/R/dpareto.r | 15 LNPar-1.1.0/LNPar/R/ll_lnormparmix.R |only LNPar-1.1.0/LNPar/R/par_logn_mix_known.r | 2 LNPar-1.1.0/LNPar/R/rLnormParMix.R | 54 LNPar-1.1.0/LNPar/R/rpareto.r | 34 LNPar-1.1.0/LNPar/README.md | 4 LNPar-1.1.0/LNPar/build/partial.rdb |binary LNPar-1.1.0/LNPar/inst/REFERENCES.bib | 1811 ++++++++++++++-------------- LNPar-1.1.0/LNPar/man/ECMEBoot.Rd |only LNPar-1.1.0/LNPar/man/LPfitEM.Rd |only LNPar-1.1.0/LNPar/man/LPfitProf.Rd |only LNPar-1.1.0/LNPar/man/LPtest.Rd | 91 - LNPar-1.1.0/LNPar/man/LPtestEM.Rd |only LNPar-1.1.0/LNPar/man/ParallelTest.Rd | 85 - LNPar-1.1.0/LNPar/man/ParallelTestEM.Rd |only LNPar-1.1.0/LNPar/man/ProfBoot.Rd |only LNPar-1.1.0/LNPar/man/TN2016.Rd | 40 LNPar-1.1.0/LNPar/man/dLnormParMix.Rd | 62 LNPar-1.1.0/LNPar/man/dpareto.Rd | 50 LNPar-1.1.0/LNPar/man/ll_lnormparmix.Rd |only LNPar-1.1.0/LNPar/man/par_logn_mix_known.Rd | 92 - LNPar-1.1.0/LNPar/man/rLnormParMix.Rd | 62 LNPar-1.1.0/LNPar/man/rpareto.Rd | 54 40 files changed, 1294 insertions(+), 1286 deletions(-)
Title: Fits Toxicokinetic Models to In Vivo PK Data Sets
Description: Takes in vivo toxicokinetic concentration-time data and fits
parameters of 1-compartment and 2-compartment models for each
chemical. These methods are described in detail in "Informatics for Toxicokinetics" (submitted).
Author: John Wambaugh [aut, cre] ,
Caroline Ring [aut] ,
Gilberto Padilla Mercado [aut]
,
Chris Cook [aut]
Maintainer: John Wambaugh <wambaugh.john@epa.gov>
Diff between invivoPKfit versions 2.0.0 dated 2025-01-09 and 2.0.1 dated 2025-03-24
invivoPKfit-2.0.0/invivoPKfit/inst/doc/manuscript2023.R |only invivoPKfit-2.0.0/invivoPKfit/inst/doc/manuscript2023.Rmd |only invivoPKfit-2.0.0/invivoPKfit/inst/doc/manuscript2023.html |only invivoPKfit-2.0.0/invivoPKfit/vignettes/manuscript2023.Rmd |only invivoPKfit-2.0.1/invivoPKfit/DESCRIPTION | 10 invivoPKfit-2.0.1/invivoPKfit/MD5 | 51 invivoPKfit-2.0.1/invivoPKfit/NEWS.md | 25 invivoPKfit-2.0.1/invivoPKfit/R/get_starts_1comp_cl.R | 1 invivoPKfit-2.0.1/invivoPKfit/R/get_starts_1comp_fup.R | 1 invivoPKfit-2.0.1/invivoPKfit/R/log_likelihood.R | 46 invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_AIC.R | 3 invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_BIC.R | 1 invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_eval_tkstats.R | 27 invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_get_fit.R | 90 invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_logLik.R | 490 - invivoPKfit-2.0.1/invivoPKfit/R/pk_methods_plot.R | 12 invivoPKfit-2.0.1/invivoPKfit/README.md |only invivoPKfit-2.0.1/invivoPKfit/build/vignette.rds |binary invivoPKfit-2.0.1/invivoPKfit/inst/doc/main_vignette.R | 610 - invivoPKfit-2.0.1/invivoPKfit/inst/doc/main_vignette.html | 2 invivoPKfit-2.0.1/invivoPKfit/inst/doc/mainfit.R | 40 invivoPKfit-2.0.1/invivoPKfit/inst/doc/mainfit.html | 6 invivoPKfit-2.0.1/invivoPKfit/inst/doc/manuscript2024_final.R | 4769 +++++----- invivoPKfit-2.0.1/invivoPKfit/inst/doc/manuscript2024_final.Rmd | 822 + invivoPKfit-2.0.1/invivoPKfit/inst/doc/manuscript2024_final.html | 2401 +++-- invivoPKfit-2.0.1/invivoPKfit/man/eval_tkstats.pk.Rd | 5 invivoPKfit-2.0.1/invivoPKfit/man/log_likelihood.Rd | 3 invivoPKfit-2.0.1/invivoPKfit/man/plot.pk.Rd | 2 invivoPKfit-2.0.1/invivoPKfit/vignettes/manuscript2024_final.Rmd | 822 + 29 files changed, 6271 insertions(+), 3968 deletions(-)
Title: Bayesian Reliability Estimation
Description: Functionality for reliability estimates. For 'unidimensional' tests:
Coefficient alpha, 'Guttman's' lambda-2/-4/-6, the Greatest lower
bound and coefficient omega_u ('unidimensional') in a Bayesian and a frequentist version.
For multidimensional tests: omega_t (total) and omega_h (hierarchical).
The results include confidence and credible intervals, the
probability of a coefficient being larger than a cutoff,
and a check for the factor models, necessary for the omega coefficients.
The method for the Bayesian 'unidimensional' estimates, except for omega_u,
is sampling from the posterior inverse 'Wishart' for the
covariance matrix based measures (see 'Murphy', 2007,
<https://groups.seas.harvard.edu/courses/cs281/papers/murphy-2007.pdf>.
The Bayesian omegas (u, t, and h) are obtained by
'Gibbs' sampling from the conditional posterior distributions of
(1) the single factor model, (2) the second-order factor model, (3) the bi-factor model,
(4) the correlated factor model
('Lee', 2007, [...truncated...]
Author: Julius M. Pfadt [aut, cre] ,
Don van den Bergh [aut] ,
Joris Goosen [aut]
Maintainer: Julius M. Pfadt <julius.pfadt@gmail.com>
Diff between Bayesrel versions 0.7.7 dated 2023-08-09 and 0.7.8 dated 2025-03-24
Bayesrel-0.7.7/Bayesrel/R/glbFuns.R |only Bayesrel-0.7.7/Bayesrel/cleanup |only Bayesrel-0.7.7/Bayesrel/configure |only Bayesrel-0.7.7/Bayesrel/configure.ac |only Bayesrel-0.7.7/Bayesrel/src/BayesrelCpp.cpp |only Bayesrel-0.7.7/Bayesrel/src/Csdp |only Bayesrel-0.7.7/Bayesrel/src/Makevars.in |only Bayesrel-0.7.7/Bayesrel/src/convertCpp.cpp |only Bayesrel-0.7.7/Bayesrel/src/customsdp.h |only Bayesrel-0.7.7/Bayesrel/src/customsdpCpp.cpp |only Bayesrel-0.7.7/Bayesrel/src/initArma.cpp |only Bayesrel-0.7.8/Bayesrel/DESCRIPTION | 12 - Bayesrel-0.7.8/Bayesrel/MD5 | 127 +--------------- Bayesrel-0.7.8/Bayesrel/R/RcppExports.R | 4 Bayesrel-0.7.8/Bayesrel/R/bootApplyFunctions.R | 24 ++- Bayesrel-0.7.8/Bayesrel/R/freqNonParametric.R | 6 Bayesrel-0.7.8/Bayesrel/R/freqParametric.R | 6 Bayesrel-0.7.8/Bayesrel/R/helpFunsOmegas.R | 159 ++++++++------------- Bayesrel-0.7.8/Bayesrel/R/omegasMultiLavaan.R | 4 Bayesrel-0.7.8/Bayesrel/R/samplePrior.R | 2 Bayesrel-0.7.8/Bayesrel/R/uniGibbsOut.R | 5 Bayesrel-0.7.8/Bayesrel/README.md | 2 Bayesrel-0.7.8/Bayesrel/build/partial.rdb |binary Bayesrel-0.7.8/Bayesrel/inst/tinytest/test_strel.R | 15 + Bayesrel-0.7.8/Bayesrel/src/Makevars |only Bayesrel-0.7.8/Bayesrel/src/Makevars.win | 9 - Bayesrel-0.7.8/Bayesrel/src/RcppExports.cpp | 22 -- 27 files changed, 130 insertions(+), 267 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-18 0.4.1
2017-09-15 0.4.0
2017-07-30 0.3.0
2017-07-24 0.2.0
2017-07-14 0.1
Title: Ukrainian to Latin Transliteration
Description: Provides a robust and user-friendly solution for transliterating Ukrainian strings into Latin symbols.
Author: Kyrylo Zakharov [aut, cre]
Maintainer: Kyrylo Zakharov <kirillzakharov13@gmail.com>
Diff between translit.uk versions 1.0.0 dated 2024-07-08 and 1.0.2 dated 2025-03-24
DESCRIPTION | 6 MD5 | 14 - R/trasnlit.R | 242 ++++++++++++++++++------------ build/vignette.rds |binary inst/doc/introduction.R | 28 +-- inst/doc/introduction.Rmd | 136 ++++++++-------- inst/doc/introduction.html | 363 +++++++++++++++++++++++++++++++++++---------- vignettes/introduction.Rmd | 136 ++++++++-------- 8 files changed, 589 insertions(+), 336 deletions(-)
Title: Find Tools Needed to Build R Packages
Description: Provides functions used to build R packages. Locates
compilers needed to build R packages on various platforms and ensures
the PATH is configured appropriately so R can use them.
Author: Hadley Wickham [aut],
Jim Hester [aut],
Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgbuild versions 1.4.6 dated 2025-01-16 and 1.4.7 dated 2025-03-24
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 8 ++++++++ R/build-bg.R | 8 ++++---- R/build-tools.R | 21 ++++++++++++++++----- R/pkgbuild-package.R | 19 +++++++++++++++++++ R/rtools-metadata.R | 15 +++++++++++++-- R/rtools.R | 33 ++++++++++++++++++++++++++++++--- tests/testthat/test-build.R | 10 +++++----- 9 files changed, 106 insertions(+), 30 deletions(-)
Title: Functions to Efficiently Simulate and Evaluate NFL Seasons
Description: A set of functions to simulate National Football League
seasons including the sophisticated tie-breaking procedures.
Author: Sebastian Carl [cre, aut, cph],
Lee Sharpe [aut]
Maintainer: Sebastian Carl <mrcaseb@gmail.com>
Diff between nflseedR versions 1.2.0 dated 2023-01-05 and 2.0.0 dated 2025-03-24
nflseedR-1.2.0/nflseedR/man/load_schedules.Rd |only nflseedR-1.2.0/nflseedR/tests/testthat/test-sharpe_games.R |only nflseedR-2.0.0/nflseedR/DESCRIPTION | 23 - nflseedR-2.0.0/nflseedR/MD5 | 103 +++-- nflseedR-2.0.0/nflseedR/NAMESPACE | 35 + nflseedR-2.0.0/nflseedR/NEWS.md | 25 + nflseedR-2.0.0/nflseedR/R/compute_conference_seeds.R | 46 +- nflseedR-2.0.0/nflseedR/R/compute_division_ranks.R | 92 ++-- nflseedR-2.0.0/nflseedR/R/compute_draft_order.R | 107 ++--- nflseedR-2.0.0/nflseedR/R/conference_tiebreaker.R | 116 ++--- nflseedR-2.0.0/nflseedR/R/data_doc.R | 61 ++- nflseedR-2.0.0/nflseedR/R/division_tiebreaker.R | 110 ++--- nflseedR-2.0.0/nflseedR/R/draft_tiebreaker.R | 122 +++--- nflseedR-2.0.0/nflseedR/R/fmt_pct_special.R | 4 nflseedR-2.0.0/nflseedR/R/load_sharpe_games.R | 37 + nflseedR-2.0.0/nflseedR/R/nflseedR-package.R | 17 nflseedR-2.0.0/nflseedR/R/silence_tidy_eval_notes.R | 199 ++++++---- nflseedR-2.0.0/nflseedR/R/sim_helper.R | 137 +++--- nflseedR-2.0.0/nflseedR/R/simulate_nfl.R | 96 ++-- nflseedR-2.0.0/nflseedR/R/simulations.R |only nflseedR-2.0.0/nflseedR/R/simulations_simulate_chunks.R |only nflseedR-2.0.0/nflseedR/R/simulations_utils.R |only nflseedR-2.0.0/nflseedR/R/simulations_verify_fct.R |only nflseedR-2.0.0/nflseedR/R/standings.R |only nflseedR-2.0.0/nflseedR/R/standings_add_conf_ranks.R |only nflseedR-2.0.0/nflseedR/R/standings_add_div_ranks.R |only nflseedR-2.0.0/nflseedR/R/standings_add_draft_ranks.R |only nflseedR-2.0.0/nflseedR/R/standings_init.R |only nflseedR-2.0.0/nflseedR/R/standings_prettify.R |only nflseedR-2.0.0/nflseedR/R/standings_utils.R |only nflseedR-2.0.0/nflseedR/R/summary_nflseedR.R | 121 ++---- nflseedR-2.0.0/nflseedR/R/sysdata.rda |binary nflseedR-2.0.0/nflseedR/R/utils.R | 65 ++- nflseedR-2.0.0/nflseedR/README.md | 31 - nflseedR-2.0.0/nflseedR/data/dictionary_game_summary.rda |only nflseedR-2.0.0/nflseedR/data/dictionary_games.rda |only nflseedR-2.0.0/nflseedR/data/dictionary_overall.rda |only nflseedR-2.0.0/nflseedR/data/dictionary_standings.rda |only nflseedR-2.0.0/nflseedR/data/dictionary_team_wins.rda |only nflseedR-2.0.0/nflseedR/data/sims_games_example.rda |only nflseedR-2.0.0/nflseedR/data/sims_teams_example.rda |only nflseedR-2.0.0/nflseedR/man/compute_conference_seeds.Rd | 10 nflseedR-2.0.0/nflseedR/man/compute_division_ranks.Rd | 8 nflseedR-2.0.0/nflseedR/man/compute_draft_order.Rd | 11 nflseedR-2.0.0/nflseedR/man/dictionary_game_summary.Rd |only nflseedR-2.0.0/nflseedR/man/dictionary_games.Rd |only nflseedR-2.0.0/nflseedR/man/dictionary_overall.Rd |only nflseedR-2.0.0/nflseedR/man/dictionary_standings.Rd |only nflseedR-2.0.0/nflseedR/man/dictionary_team_wins.Rd |only nflseedR-2.0.0/nflseedR/man/divisions.Rd | 4 nflseedR-2.0.0/nflseedR/man/figures/lifecycle-deprecated.svg |only nflseedR-2.0.0/nflseedR/man/figures/lifecycle-experimental.svg |only nflseedR-2.0.0/nflseedR/man/figures/lifecycle-stable.svg |only nflseedR-2.0.0/nflseedR/man/figures/lifecycle-superseded.svg |only nflseedR-2.0.0/nflseedR/man/figures/standings_tbl1.png |only nflseedR-2.0.0/nflseedR/man/figures/standings_tbl2.png |only nflseedR-2.0.0/nflseedR/man/load_sharpe_games.Rd |only nflseedR-2.0.0/nflseedR/man/nfl_simulations.Rd |only nflseedR-2.0.0/nflseedR/man/nfl_standings.Rd |only nflseedR-2.0.0/nflseedR/man/nfl_standings_prettify.Rd |only nflseedR-2.0.0/nflseedR/man/nflseedR-package.Rd | 4 nflseedR-2.0.0/nflseedR/man/nflseedR_compute_results.Rd |only nflseedR-2.0.0/nflseedR/man/reexports.Rd |only nflseedR-2.0.0/nflseedR/man/sims_games_example.Rd |only nflseedR-2.0.0/nflseedR/man/sims_teams_example.Rd |only nflseedR-2.0.0/nflseedR/man/simulate_nfl.Rd | 4 nflseedR-2.0.0/nflseedR/man/simulations_verify_fct.Rd |only nflseedR-2.0.0/nflseedR/tests/testthat/_snaps |only nflseedR-2.0.0/nflseedR/tests/testthat/helpers.R | 5 nflseedR-2.0.0/nflseedR/tests/testthat/test-ranks_seeds_draftorder.R | 24 - nflseedR-2.0.0/nflseedR/tests/testthat/test-simulate_nfl.R | 7 nflseedR-2.0.0/nflseedR/tests/testthat/test-simulations.R |only nflseedR-2.0.0/nflseedR/tests/testthat/test-simulations_verify_fct.R |only nflseedR-2.0.0/nflseedR/tests/testthat/test-standings.R |only 74 files changed, 937 insertions(+), 687 deletions(-)
Title: The Gauss Hypergeometric Function
Description: The Gaussian hypergeometric function for complex numbers.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between hypergeo versions 1.2-13 dated 2016-04-07 and 1.2-14 dated 2025-03-24
DESCRIPTION | 9 +++++---- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/hypergeometric.Rnw | 2 +- inst/doc/hypergeometric.pdf |binary man/hypergeo_contfrac.Rd | 2 +- man/residue.Rd | 1 + man/wolfram.Rd | 2 +- vignettes/hypergeometric.Rnw | 2 +- 9 files changed, 18 insertions(+), 16 deletions(-)
Title: Genetic Association Analysis
Description: It gathers information, meta-data and scripts in a two-part Henry-Stewart talk by
Zhao (2009, <doi:10.69645/DCRY5578>), which showcases analysis in aspects such as testing of polymorphic
variant(s) for Hardy-Weinberg equilibrium, association with trait using genetic and statistical models
as well as Bayesian implementation, power calculation in study design and genetic annotation. It also
covers R integration with the Linux environment, GitHub, package creation and web applications.
Author: Jing Hua Zhao [aut, cre] ,
Benjamin Altmann [ctb],
Brian Ripley [ctb]
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between gaawr2 versions 0.0.2 dated 2025-02-21 and 0.0.3 dated 2025-03-24
gaawr2-0.0.2/gaawr2/vignettes/nature-genetics.csl |only gaawr2-0.0.3/gaawr2/DESCRIPTION | 22 ++-- gaawr2-0.0.3/gaawr2/MD5 | 71 +++++++------- gaawr2-0.0.3/gaawr2/NEWS.md | 15 ++- gaawr2-0.0.3/gaawr2/README.md | 11 +- gaawr2-0.0.3/gaawr2/build/partial.rdb |binary gaawr2-0.0.3/gaawr2/build/vignette.rds |binary gaawr2-0.0.3/gaawr2/data/DiaHealth.rda |binary gaawr2-0.0.3/gaawr2/data/diabetes.rda |binary gaawr2-0.0.3/gaawr2/inst/csl |only gaawr2-0.0.3/gaawr2/inst/doc/gaawr2.R | 10 +- gaawr2-0.0.3/gaawr2/inst/doc/gaawr2.Rmd | 46 +++------ gaawr2-0.0.3/gaawr2/inst/doc/gaawr2.html | 41 ++------ gaawr2-0.0.3/gaawr2/inst/doc/web.R | 34 ++++++- gaawr2-0.0.3/gaawr2/inst/doc/web.Rmd | 43 ++++++++- gaawr2-0.0.3/gaawr2/inst/doc/web.html | 65 ++++++++++--- gaawr2-0.0.3/gaawr2/inst/scripts/GMMAT.R | 57 ++++++----- gaawr2-0.0.3/gaawr2/inst/scripts/HardyWeinberg.R | 35 ++++--- gaawr2-0.0.3/gaawr2/inst/scripts/OpenTargets.R | 91 +++++++++---------- gaawr2-0.0.3/gaawr2/inst/scripts/README.md | 3 gaawr2-0.0.3/gaawr2/inst/scripts/SNPassoc.R | 73 ++++++++------- gaawr2-0.0.3/gaawr2/inst/scripts/biomaRt.R | 31 +++--- gaawr2-0.0.3/gaawr2/inst/scripts/cran.sh | 2 gaawr2-0.0.3/gaawr2/inst/scripts/docs.sh | 8 + gaawr2-0.0.3/gaawr2/inst/scripts/ens.R | 62 ++++++------ gaawr2-0.0.3/gaawr2/inst/scripts/gaawr2.R | 18 ++- gaawr2-0.0.3/gaawr2/inst/scripts/h2.jags.R | 67 +++++++------- gaawr2-0.0.3/gaawr2/inst/scripts/haplo.stats.R | 105 +++++++++++----------- gaawr2-0.0.3/gaawr2/inst/scripts/lz.R | 105 +++++++++++----------- gaawr2-0.0.3/gaawr2/inst/scripts/ontologyIndex.R | 49 +++++----- gaawr2-0.0.3/gaawr2/inst/scripts/pkgdown.sh | 3 gaawr2-0.0.3/gaawr2/inst/scripts/powerEQTL.R | 35 +++---- gaawr2-0.0.3/gaawr2/inst/scripts/rentrez.R | 55 ++++++----- gaawr2-0.0.3/gaawr2/inst/scripts/tabix.sh | 1 gaawr2-0.0.3/gaawr2/vignettes/gaawr2.Rmd | 46 +++------ gaawr2-0.0.3/gaawr2/vignettes/web.Rmd | 43 ++++++++- 36 files changed, 716 insertions(+), 531 deletions(-)
Title: Tools for Pre-Processing Emission-Excitation-Matrix (EEM)
Fluorescence Data
Description: Provides various tools for preprocessing Emission-Excitation-Matrix (EEM) for Parallel Factor Analysis (PARAFAC). Different
methods are also provided to calculate common metrics such as humification index and fluorescence index.
Author: Philippe Massicotte [aut, cre]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>
Diff between eemR versions 1.0.1 dated 2019-06-26 and 1.0.2 dated 2025-03-24
eemR-1.0.1/eemR/R/eem_correction.R |only eemR-1.0.1/eemR/R/importers.R |only eemR-1.0.2/eemR/DESCRIPTION | 12 eemR-1.0.2/eemR/MD5 | 114 eemR-1.0.2/eemR/NAMESPACE | 70 eemR-1.0.2/eemR/NEWS.md | 64 eemR-1.0.2/eemR/R/absorbance.R | 48 eemR-1.0.2/eemR/R/eem.R |only eemR-1.0.2/eemR/R/eemR-package.R | 16 eemR-1.0.2/eemR/R/eem_export.R | 273 +- eemR-1.0.2/eemR/R/eem_import.R | 95 eemR-1.0.2/eemR/R/eem_inner_filter_effect.R |only eemR-1.0.2/eemR/R/eem_lapply.R |only eemR-1.0.2/eemR/R/eem_metrics.R | 67 eemR-1.0.2/eemR/R/eem_raman_normalisation.R |only eemR-1.0.2/eemR/R/eem_read.R | 150 - eemR-1.0.2/eemR/R/eem_read_aqualog.R |only eemR-1.0.2/eemR/R/eem_read_cary.R |only eemR-1.0.2/eemR/R/eem_read_fluoromax4.R |only eemR-1.0.2/eemR/R/eem_read_shimadzu.R |only eemR-1.0.2/eemR/R/eem_remove_blank.R |only eemR-1.0.2/eemR/R/eem_remove_scattering.R |only eemR-1.0.2/eemR/R/eem_utils.R | 102 eemR-1.0.2/eemR/R/zzz.R |only eemR-1.0.2/eemR/README.md | 27 eemR-1.0.2/eemR/build/partial.rdb |only eemR-1.0.2/eemR/build/vignette.rds |binary eemR-1.0.2/eemR/inst/doc/custom-import-function.R | 14 eemR-1.0.2/eemR/inst/doc/custom-import-function.Rmd | 248 +- eemR-1.0.2/eemR/inst/doc/custom-import-function.html | 410 ++- eemR-1.0.2/eemR/inst/doc/introduction.R | 175 - eemR-1.0.2/eemR/inst/doc/introduction.Rmd | 988 ++++---- eemR-1.0.2/eemR/inst/doc/introduction.html | 981 ++++++-- eemR-1.0.2/eemR/man/absorbance.Rd | 64 eemR-1.0.2/eemR/man/eem.Rd | 48 eemR-1.0.2/eemR/man/eemR-package.Rd | 48 eemR-1.0.2/eemR/man/eem_bind.Rd | 48 eemR-1.0.2/eemR/man/eem_biological_index.Rd | 103 eemR-1.0.2/eemR/man/eem_coble_peaks.Rd | 131 - eemR-1.0.2/eemR/man/eem_cut.Rd | 88 eemR-1.0.2/eemR/man/eem_export_matlab.Rd | 96 eemR-1.0.2/eemR/man/eem_extract.Rd | 117 - eemR-1.0.2/eemR/man/eem_extract_blank.Rd | 38 eemR-1.0.2/eemR/man/eem_fluorescence_index.Rd | 89 eemR-1.0.2/eemR/man/eem_humification_index.Rd | 111 eemR-1.0.2/eemR/man/eem_inner_filter_effect.Rd | 162 - eemR-1.0.2/eemR/man/eem_names-set.Rd | 56 eemR-1.0.2/eemR/man/eem_names.Rd | 50 eemR-1.0.2/eemR/man/eem_peaks.Rd | 93 eemR-1.0.2/eemR/man/eem_raman_normalisation.Rd | 176 - eemR-1.0.2/eemR/man/eem_read.Rd | 90 eemR-1.0.2/eemR/man/eem_remove_blank.Rd | 218 - eemR-1.0.2/eemR/man/eem_remove_scattering.Rd | 96 eemR-1.0.2/eemR/man/eem_set_wavelengths.Rd | 64 eemR-1.0.2/eemR/man/plot.eemlist.Rd | 59 eemR-1.0.2/eemR/man/print.eemlist.Rd | 72 eemR-1.0.2/eemR/man/summary.eemlist.Rd | 72 eemR-1.0.2/eemR/tests/testthat.R | 8 eemR-1.0.2/eemR/tests/testthat/test-blank-correction.R | 66 eemR-1.0.2/eemR/tests/testthat/test-eem_correction.R |only eemR-1.0.2/eemR/tests/testthat/test-eem_export.R |only eemR-1.0.2/eemR/tests/testthat/test-metrics.R | 72 eemR-1.0.2/eemR/vignettes/biblio.bib | 1952 ++++++++--------- eemR-1.0.2/eemR/vignettes/custom-import-function.Rmd | 248 +- eemR-1.0.2/eemR/vignettes/introduction.Rmd | 988 ++++---- eemR-1.0.2/eemR/vignettes/matrix.svg | 1650 +++++++------- 66 files changed, 5766 insertions(+), 5261 deletions(-)
Title: Sequence Symmetry Analysis Using the Observational Medical
Outcomes Partnership Common Data Model
Description: Calculating crude sequence ratio, adjusted sequence ratio and
confidence intervals using data mapped to the Observational Medical
Outcomes Partnership Common Data Model.
Author: Xihang Chen [aut, cre] ,
Tyman Stanford [aut] ,
Berta Raventos [aut] ,
Nicole Pratt [aut] ,
Ed Burn [aut] ,
Marti Catala [aut] ,
Danielle Newby [aut] ,
Nuria Mercade-Besora [aut] ,
Mike Du [aut] ,
Yuchen Guo [aut] ,
Kim Lopez [aut] ,
Marta Alcalde-He [...truncated...]
Maintainer: Xihang Chen <xihang.chen@ndorms.ox.ac.uk>
Diff between CohortSymmetry versions 0.2.3 dated 2025-03-01 and 0.2.4 dated 2025-03-24
CohortSymmetry-0.2.3/CohortSymmetry/R/tableSequenceRatios.R |only CohortSymmetry-0.2.4/CohortSymmetry/DESCRIPTION | 16 CohortSymmetry-0.2.4/CohortSymmetry/MD5 | 100 - CohortSymmetry-0.2.4/CohortSymmetry/R/CohortSymmetry-package.R | 22 CohortSymmetry-0.2.4/CohortSymmetry/R/generateSequenceCohortSet.R | 770 +++++----- CohortSymmetry-0.2.4/CohortSymmetry/R/getConfidenceInterval.R | 78 - CohortSymmetry-0.2.4/CohortSymmetry/R/getSummarisedResult.R | 134 - CohortSymmetry-0.2.4/CohortSymmetry/R/helpers.R | 334 ++-- CohortSymmetry-0.2.4/CohortSymmetry/R/mockCohortSymmetry.R | 178 +- CohortSymmetry-0.2.4/CohortSymmetry/R/plotSequenceRatios.R | 4 CohortSymmetry-0.2.4/CohortSymmetry/R/plotTemporalSymmetry.R | 4 CohortSymmetry-0.2.4/CohortSymmetry/R/summariseSequenceRatios.R | 79 - CohortSymmetry-0.2.4/CohortSymmetry/R/summariseTemporalSymmetry.R | 16 CohortSymmetry-0.2.4/CohortSymmetry/R/tableSequenceratios.R |only CohortSymmetry-0.2.4/CohortSymmetry/R/tableTemporalSymmetry.R | 5 CohortSymmetry-0.2.4/CohortSymmetry/build/vignette.rds |binary CohortSymmetry-0.2.4/CohortSymmetry/inst/WORDLIST | 132 - CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a01_Introduction.html | 16 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a02_Generate_a_sequence_cohort.R | 100 - CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a02_Generate_a_sequence_cohort.Rmd | 562 +++---- CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a02_Generate_a_sequence_cohort.html | 16 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a03_Summarise_sequence_ratios.R | 2 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a03_Summarise_sequence_ratios.Rmd | 174 +- CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a03_Summarise_sequence_ratios.html | 10 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a04_Visualise_sequence_ratios.R | 2 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a04_Visualise_sequence_ratios.Rmd | 260 +-- CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a05_Summarise_temporal_symmetry.R | 2 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a05_Summarise_temporal_symmetry.Rmd | 224 +- CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a05_Summarise_temporal_symmetry.html | 16 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a06_Visualise_temporal_symmetry.R | 2 CohortSymmetry-0.2.4/CohortSymmetry/inst/doc/a06_Visualise_temporal_symmetry.Rmd | 190 +- CohortSymmetry-0.2.4/CohortSymmetry/man/mockCohortSymmetry.Rd | 2 CohortSymmetry-0.2.4/CohortSymmetry/man/plotSequenceRatios.Rd | 3 CohortSymmetry-0.2.4/CohortSymmetry/man/plotTemporalSymmetry.Rd | 3 CohortSymmetry-0.2.4/CohortSymmetry/man/summariseSequenceRatios.Rd | 12 CohortSymmetry-0.2.4/CohortSymmetry/man/summariseTemporalSymmetry.Rd | 12 CohortSymmetry-0.2.4/CohortSymmetry/man/tableSequenceRatios.Rd | 2 CohortSymmetry-0.2.4/CohortSymmetry/man/tableTemporalSymmetry.Rd | 2 CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-dbs.R | 182 +- CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-eunomia.R | 138 - CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-generateSequenceCohortSet.R | 2 CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-plotSequenceRatio.R | 3 CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-plotTemporalSymmetry.R | 4 CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-summariseSequenceRatios.R | 122 - CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-summariseTemporalSymmetry.R | 14 CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-tableSequenceRatios.R | 238 +-- CohortSymmetry-0.2.4/CohortSymmetry/tests/testthat/test-tableTemporalSymmetry.R | 238 +-- CohortSymmetry-0.2.4/CohortSymmetry/vignettes/a02_Generate_a_sequence_cohort.Rmd | 562 +++---- CohortSymmetry-0.2.4/CohortSymmetry/vignettes/a03_Summarise_sequence_ratios.Rmd | 174 +- CohortSymmetry-0.2.4/CohortSymmetry/vignettes/a04_Visualise_sequence_ratios.Rmd | 260 +-- CohortSymmetry-0.2.4/CohortSymmetry/vignettes/a05_Summarise_temporal_symmetry.Rmd | 224 +- CohortSymmetry-0.2.4/CohortSymmetry/vignettes/a06_Visualise_temporal_symmetry.Rmd | 190 +- 52 files changed, 2827 insertions(+), 3008 deletions(-)
More information about CohortSymmetry at CRAN
Permanent link
Title: Canonical Correlations and Tests of Independence
Description: A simple interface for multivariate correlation analysis that unifies various classical
statistical procedures including t-tests, tests in univariate and multivariate linear models,
parametric and nonparametric tests for correlation, Kruskal-Wallis tests, common approximate
versions of Wilcoxon rank-sum and signed rank tests, chi-squared tests of independence, score
tests of particular hypotheses in generalized linear models, canonical correlation analysis and
linear discriminant analysis.
Author: Robert Schlicht [aut, cre]
Maintainer: Robert Schlicht <robert.schlicht@tu-dresden.de>
Diff between cctest versions 1.2.1 dated 2025-03-06 and 2.0.0 dated 2025-03-24
DESCRIPTION | 6 +- MD5 | 8 +- NAMESPACE | 2 R/cctest.R | 119 +++++++++++++++++++++++++++++++++--------- man/cctest.Rd | 161 +++++++++++++++++++++++++++++++++------------------------- 5 files changed, 194 insertions(+), 102 deletions(-)
Title: Penalised Maximum Likelihood for Survival Analysis Models
Description: Estimate the regression coefficients and the baseline hazard
of proportional hazard Cox models with left, right or interval censored survival data
using maximum penalised likelihood. A 'non-parametric' smooth estimate of the baseline hazard
function is provided.
Author: Dominique-Laurent Couturier [aut, cre]
,
Jun Ma [aut],
Stephane Heritier [aut],
Maurizio Manuguerra [aut],
Serigne Lo [aut]
Maintainer: Dominique-Laurent Couturier <dominique.couturier@mrc-bsu.cam.ac.uk>
Diff between survivalMPL versions 0.2-3 dated 2022-11-21 and 0.2-4 dated 2025-03-24
DESCRIPTION | 26 ++++++++++++++++++++------ MD5 | 6 +++--- NEWS | 7 +++++++ man/predict.coxph_mpl.Rd | 2 +- 4 files changed, 31 insertions(+), 10 deletions(-)
More information about shinyproxyLogs at CRAN
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More information about positron.tutorials at CRAN
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Title: A few Useful Functions for Statisticians
Description: Various useful functions for statisticians: describe data, plot Kaplan-Meier curves with numbers of subjects at risk, compare data sets, display spaghetti-plot, build multi-contingency tables...
Author: Hugo Varet [aut, cre]
Maintainer: Hugo Varet <varethugo@gmail.com>
Diff between packHV versions 2.2 dated 2019-03-04 and 2.4 dated 2025-03-24
DESCRIPTION | 12 +++++++----- MD5 | 38 +++++++++++++++++++------------------- R/cut_quanti.r | 2 +- R/hist_boxplot.r | 13 ++++++++----- R/multi.table.r | 2 +- R/packHV-package.r | 3 +-- R/plot_km.r | 4 ++-- R/plot_mm.r | 2 +- R/plot_multi.table.r | 2 +- R/plot_reg.r | 4 ++-- README.md | 3 +-- man/cut_quanti.Rd | 2 +- man/desc.Rd | 20 ++++++++++++++++---- man/hist_boxplot.Rd | 21 +++++++++++++++++---- man/multi.table.Rd | 2 +- man/packHV-package.Rd | 1 + man/plot_km.Rd | 29 ++++++++++++++++++++++------- man/plot_mm.Rd | 19 +++++++++++++++---- man/plot_multi.table.Rd | 2 +- man/plot_reg.Rd | 4 ++-- 20 files changed, 120 insertions(+), 65 deletions(-)
Title: Statistical Inference of Vine Copulas
Description: Provides tools for the statistical analysis of regular vine copula
models, see Aas et al. (2009) <doi:10.1016/j.insmatheco.2007.02.001> and
Dissman et al. (2013) <doi:10.1016/j.csda.2012.08.010>.
The package includes tools for parameter estimation, model selection,
simulation, goodness-of-fit tests, and visualization. Tools for estimation,
selection and exploratory data analysis of bivariate copula models are also
provided.
Author: Thomas Nagler [aut, cre],
Ulf Schepsmeier [aut],
Jakob Stoeber [aut],
Eike Christian Brechmann [aut],
Benedikt Graeler [aut],
Tobias Erhardt [aut],
Carlos Almeida [ctb],
Aleksey Min [ctb, ths],
Claudia Czado [ctb, ths],
Mathias Hofmann [ctb],
Matthia [...truncated...]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between VineCopula versions 2.6.0 dated 2024-12-16 and 2.6.1 dated 2025-03-24
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NEWS.md | 11 +++++++++++ R/BiCopEst.R | 2 +- R/BiCopSelect.R | 2 +- R/BiCopTau2Par.R | 6 +----- R/RVineCopSelect.R | 2 +- R/RVineSeqEst.R | 2 +- R/RVineStructureSelect.R | 2 +- build/partial.rdb |binary inst/include/VineCopula/vine.h | 2 -- man/BiCopEst.Rd | 2 +- man/BiCopSelect.Rd | 2 +- man/RVineCopSelect.Rd | 2 +- man/RVineSeqEst.Rd | 2 +- man/RVineStructureSelect.Rd | 2 +- 16 files changed, 41 insertions(+), 36 deletions(-)
Title: Hierarchical Partitioning of Marginal R2 for Generalized
Mixed-Effect Models
Description: Conducts hierarchical partitioning to calculate individual contributions of each predictor (fixed effects) towards marginal R2 for generalized linear mixed-effect model (including lm, glm and glmm) based on output of r.squaredGLMM() in 'MuMIn', applying the algorithm of Lai J.,Zou Y., Zhang S.,Zhang X.,Mao L.(2022)glmm.hp: an R package for computing individual effect of predictors in generalized linear mixed models.Journal of Plant Ecology,15(6)1302-1307<doi:10.1093/jpe/rtac096>.
Author: Jiangshan Lai [aut, cre] ,
Kim Nimon [aut],
Yao Liu [aut]
Maintainer: Jiangshan Lai <lai@njfu.edu.cn>
Diff between glmm.hp versions 0.1-7 dated 2024-12-10 and 0.1-8 dated 2025-03-24
DESCRIPTION | 13 ++--- MD5 | 4 - R/glmm.hp.r | 142 ++++++++++++++++++++++++++++++------------------------------ 3 files changed, 81 insertions(+), 78 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-06 0.9-8
2017-04-26 0.9-7
2016-04-28 0.9-6
2015-07-03 0.9-5
2014-05-30 0.9-4
2014-05-29 0.9-3
2012-08-10 0.9-2
Title: Serialize R Objects to JSON, JavaScript Object Notation
Description: This is a package that allows conversion to and from
data in Javascript object notation (JSON) format.
This allows R objects to be inserted into Javascript/ECMAScript/ActionScript code
and allows R programmers to read and convert JSON content to R objects.
This is an alternative to rjson package. Originally, that was too slow for converting large R objects to JSON
and was not extensible. rjson's performance is now similar to this package, and perhaps slightly faster in some cases.
This package uses methods and is readily extensible by defining methods for different classes,
vectorized operations, and C code and callbacks to R functions for deserializing JSON objects to R.
The two packages intentionally share the same basic interface. This package (RJSONIO) has many additional
options to allow customizing the generation and processing of JSON content.
This package uses libjson rather than implementing yet another JSON parser. The aim is to support
other general projects by building on [...truncated...]
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Jonathan Wallace [aut]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between RJSONIO versions 1.3-1.9 dated 2023-11-27 and 1.3-1.10 dated 2025-03-24
RJSONIO-1.3-1.10/RJSONIO/DESCRIPTION | 6 +++--- RJSONIO-1.3-1.10/RJSONIO/MD5 | 22 ++++------------------ RJSONIO-1.3-1.10/RJSONIO/src/ConvertUTF.c | 5 ++++- RJSONIO-1.3-1.10/RJSONIO/src/JSON_parser.c | 4 +++- RJSONIO-1.3-1.10/RJSONIO/src/RJSON.c | 2 +- RJSONIO-1.3-1.9/RJSONIO/inst/doc |only 6 files changed, 15 insertions(+), 24 deletions(-)
Title: Enhancing the 'parallel' Package
Description: Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.
Author: Henrik Bengtsson [aut, cre, cph]
,
Mike Cheng [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between parallelly versions 1.42.0 dated 2025-01-30 and 1.43.0 dated 2025-03-24
parallelly-1.42.0/parallelly/tests/as.cluster.R |only parallelly-1.42.0/parallelly/tests/availableCores.R |only parallelly-1.42.0/parallelly/tests/availableWorkers.R |only parallelly-1.42.0/parallelly/tests/cgroups.R |only parallelly-1.42.0/parallelly/tests/cpuLoad.R |only parallelly-1.42.0/parallelly/tests/freeCores.R |only parallelly-1.42.0/parallelly/tests/freePort.R |only parallelly-1.42.0/parallelly/tests/incl |only parallelly-1.42.0/parallelly/tests/isConnectionValid.R |only parallelly-1.42.0/parallelly/tests/isForkedChild.R |only parallelly-1.42.0/parallelly/tests/killNode.R |only parallelly-1.42.0/parallelly/tests/makeClusterMPI.R |only parallelly-1.42.0/parallelly/tests/makeClusterPSOCK.R |only parallelly-1.42.0/parallelly/tests/makeClusterSequential.R |only parallelly-1.42.0/parallelly/tests/options-and-envvars.R |only parallelly-1.42.0/parallelly/tests/r_bug18119.R |only parallelly-1.42.0/parallelly/tests/startup.R |only parallelly-1.42.0/parallelly/tests/utils,cluster.R |only parallelly-1.42.0/parallelly/tests/utils.R |only parallelly-1.43.0/parallelly/DESCRIPTION | 6 parallelly-1.43.0/parallelly/MD5 | 146 +-- parallelly-1.43.0/parallelly/NAMESPACE | 4 parallelly-1.43.0/parallelly/NEWS.md | 42 parallelly-1.43.0/parallelly/R/000.import.R | 2 parallelly-1.43.0/parallelly/R/as.cluster.R | 2 parallelly-1.43.0/parallelly/R/autoStopCluster.R | 6 parallelly-1.43.0/parallelly/R/availableCores.R | 265 +++-- parallelly-1.43.0/parallelly/R/availableWorkers.R | 14 parallelly-1.43.0/parallelly/R/cgroups.R | 448 ++++++---- parallelly-1.43.0/parallelly/R/cloneNode.R | 10 parallelly-1.43.0/parallelly/R/cpuLoad.R | 2 parallelly-1.43.0/parallelly/R/detectCores.R | 25 parallelly-1.43.0/parallelly/R/getOptionOrEnvVar.R | 6 parallelly-1.43.0/parallelly/R/isNodeAlive.R | 32 parallelly-1.43.0/parallelly/R/killNode.R | 34 parallelly-1.43.0/parallelly/R/launchNodePSOCK.R | 6 parallelly-1.43.0/parallelly/R/makeClusterMPI.R | 23 parallelly-1.43.0/parallelly/R/makeClusterPSOCK.R | 99 +- parallelly-1.43.0/parallelly/R/makeNodePSOCK.R | 10 parallelly-1.43.0/parallelly/R/options.R | 16 parallelly-1.43.0/parallelly/R/registerClusterTypes.R | 16 parallelly-1.43.0/parallelly/R/supportsMulticore.R | 2 parallelly-1.43.0/parallelly/R/testme.R |only parallelly-1.43.0/parallelly/R/utils,cluster.R | 10 parallelly-1.43.0/parallelly/R/utils,pid.R | 108 +- parallelly-1.43.0/parallelly/R/utils-debug.R |only parallelly-1.43.0/parallelly/R/utils.R | 35 parallelly-1.43.0/parallelly/R/zzz.R | 2 parallelly-1.43.0/parallelly/build/vignette.rds |binary parallelly-1.43.0/parallelly/inst/testme |only parallelly-1.43.0/parallelly/man/as.cluster.Rd | 6 parallelly-1.43.0/parallelly/man/availableCores.Rd | 11 parallelly-1.43.0/parallelly/man/availableWorkers.Rd | 12 parallelly-1.43.0/parallelly/man/cpuLoad.Rd | 2 parallelly-1.43.0/parallelly/man/killNode.Rd | 2 parallelly-1.43.0/parallelly/man/makeClusterMPI.Rd | 12 parallelly-1.43.0/parallelly/man/makeClusterPSOCK.Rd | 39 parallelly-1.43.0/parallelly/man/parallelly.options.Rd | 2 parallelly-1.43.0/parallelly/man/pid_exists.Rd | 2 parallelly-1.43.0/parallelly/man/supportsMulticore.Rd | 2 parallelly-1.43.0/parallelly/tests/test-as.cluster.R |only parallelly-1.43.0/parallelly/tests/test-availableCores.R |only parallelly-1.43.0/parallelly/tests/test-availableWorkers.R |only parallelly-1.43.0/parallelly/tests/test-cgroups.R |only parallelly-1.43.0/parallelly/tests/test-cpuLoad.R |only parallelly-1.43.0/parallelly/tests/test-freeCores.R |only parallelly-1.43.0/parallelly/tests/test-freePort.R |only parallelly-1.43.0/parallelly/tests/test-isConnectionValid.R |only parallelly-1.43.0/parallelly/tests/test-isForkedChild.R |only parallelly-1.43.0/parallelly/tests/test-killNode.R |only parallelly-1.43.0/parallelly/tests/test-makeClusterMPI.R |only parallelly-1.43.0/parallelly/tests/test-makeClusterPSOCK.R |only parallelly-1.43.0/parallelly/tests/test-makeClusterSequential.R |only parallelly-1.43.0/parallelly/tests/test-options-and-envvars.R |only parallelly-1.43.0/parallelly/tests/test-r_bug18119.R |only parallelly-1.43.0/parallelly/tests/test-startup.R |only parallelly-1.43.0/parallelly/tests/test-utils,cluster.R |only parallelly-1.43.0/parallelly/tests/test-utils.R |only 78 files changed, 839 insertions(+), 622 deletions(-)
Title: Parametric G-Formula
Description: Implements the non-iterative conditional expectation (NICE)
algorithm of the g-formula algorithm (Robins (1986)
<doi:10.1016/0270-0255(86)90088-6>, Hernán and Robins (2024, ISBN:9781420076165)).
The g-formula can estimate an outcome's counterfactual mean or risk under
hypothetical treatment strategies (interventions) when there is sufficient
information on time-varying treatments and confounders.
This package can be used for discrete or continuous time-varying treatments
and for failure time outcomes or continuous/binary end of follow-up
outcomes. The package can handle a random measurement/visit process and a
priori knowledge of the data structure, as well as censoring (e.g., by loss
to follow-up) and two options for handling competing events for failure time
outcomes. Interventions can be flexibly specified, both as interventions on
a single treatment or as joint interventions on multiple treatments.
See McGrath et al. (2020) <doi:10.1016/j.patter.2020.100008> for a guide [...truncated...]
Author: Victoria Lin [aut] ,
Sean McGrath [aut, cre] ,
Zilu Zhang [aut],
Roger W. Logan [aut],
Lucia C. Petito [aut],
Jing Li [aut],
McGee Emma [aut] ,
Cheng Carrie [aut],
Jessica G. Young [aut] ,
Miguel A. Hernan [aut] ,
2019 The President and Fellows of Ha [...truncated...]
Maintainer: Sean McGrath <sean.mcgrath514@gmail.com>
Diff between gfoRmula versions 1.1.0 dated 2024-10-01 and 1.1.1 dated 2025-03-24
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 5 +++++ R/simulate.R | 4 ++-- inst/doc/Custom-Outcome-Models.html | 2 +- inst/doc/Intervention-Specification.html | 2 +- 6 files changed, 19 insertions(+), 14 deletions(-)
Title: A Modern and Flexible Web Client for R
Description: Bindings to 'libcurl' <https://curl.se/libcurl/> for performing fully
configurable HTTP/FTP requests where responses can be processed in memory, on
disk, or streaming via the callback or connection interfaces. Some knowledge
of 'libcurl' is recommended; for a more-user-friendly web client see the
'httr2' package which builds on this package with http specific tools and logic.
Author: Jeroen Ooms [aut, cre] ,
Hadley Wickham [ctb],
Posit Software, PBC [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between curl versions 6.2.1 dated 2025-02-19 and 6.2.2 dated 2025-03-24
DESCRIPTION | 6 +-- MD5 | 24 ++++++------ NEWS | 4 ++ build/vignette.rds |binary inst/doc/intro.R | 14 +++++++ inst/doc/intro.Rmd | 4 +- inst/doc/intro.html | 80 +++++++++++++++++++++---------------------- src/Makevars.in | 6 +-- src/Makevars.win | 15 ++++---- src/multi.c | 7 +++ tests/testthat/test-handle.R | 15 ++++---- tools/winlibs.R | 9 ++-- vignettes/intro.Rmd | 4 +- 13 files changed, 107 insertions(+), 81 deletions(-)
Title: Regular Expression Removal, Extraction, and Replacement Tools
Description: A collection of regular expression tools associated with
the 'qdap' package that may be useful outside of the context of
discourse analysis. Tools include
removal/extraction/replacement of abbreviations, dates, dollar
amounts, email addresses, hash tags, numbers, percentages,
citations, person tags, phone numbers, times, and zip codes.
Author: Jason Gray [ctb],
Tyler Rinker [aut, cre]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between qdapRegex versions 0.7.8 dated 2023-10-17 and 0.7.10 dated 2025-03-24
DESCRIPTION | 8 ++-- MD5 | 74 +++++++++++++++++++++--------------------- R/cheat.R | 18 +++++----- R/qdapRegex-package.R | 6 +-- man/qdapRegex.Rd | 18 ++++++++++ man/regex_supplement.Rd | 6 +-- man/rm_abbreviation.Rd | 6 +-- man/rm_between.Rd | 6 +-- man/rm_bracket.Rd | 6 +-- man/rm_caps.Rd | 4 +- man/rm_caps_phrase.Rd | 4 +- man/rm_citation.Rd | 4 +- man/rm_citation_tex.Rd | 4 +- man/rm_city_state.Rd | 4 +- man/rm_city_state_zip.Rd | 4 +- man/rm_date.Rd | 6 +-- man/rm_default.Rd | 6 +-- man/rm_dollar.Rd | 6 +-- man/rm_email.Rd | 6 +-- man/rm_emoticon.Rd | 6 +-- man/rm_endmark.Rd | 6 +-- man/rm_hash.Rd | 6 +-- man/rm_nchar_words.Rd | 6 +-- man/rm_non_ascii.Rd | 6 +-- man/rm_non_words.Rd | 6 +-- man/rm_number.Rd | 6 +-- man/rm_percent.Rd | 6 +-- man/rm_phone.Rd | 6 +-- man/rm_postal_code.Rd | 6 +-- man/rm_repeated_characters.Rd | 6 +-- man/rm_repeated_phrases.Rd | 6 +-- man/rm_repeated_words.Rd | 6 +-- man/rm_tag.Rd | 6 +-- man/rm_time.Rd | 12 +++--- man/rm_title_name.Rd | 6 +-- man/rm_url.Rd | 6 +-- man/rm_white.Rd | 6 +-- man/rm_zip.Rd | 6 +-- 38 files changed, 167 insertions(+), 149 deletions(-)
Title: Multicountry Term Structure of Interest Rates Models
Description: Estimation routines for several classes of affine term structure of interest rates models. All the models are based on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014, JF) <doi:10.1111/jofi.12131>. Multicountry extensions such as the ones of Jotikasthira, Le, and Lundblad (2015, JFE) <doi:10.1016/j.jfineco.2014.09.004>, Candelon and Moura (2023, EM) <doi:10.1016/j.econmod.2023.106453>, and Candelon and Moura (Forthcoming, JFEC) <doi:10.1093/jjfinec/nbae008> are also available.
Author: Rubens Moura [aut, cre]
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>
Diff between MultiATSM versions 1.2.0 dated 2025-01-27 and 1.3.0 dated 2025-03-24
MultiATSM-1.2.0/MultiATSM/man/Get_Sigama_JLL.Rd |only MultiATSM-1.2.0/MultiATSM/man/RMSEjoint.Rd |only MultiATSM-1.2.0/MultiATSM/man/RMSEsep.Rd |only MultiATSM-1.2.0/MultiATSM/man/Remove_at.Rd |only MultiATSM-1.2.0/MultiATSM/man/SpannedFactorsSepQ.Rd |only MultiATSM-1.2.0/MultiATSM/man/SpannedFactorsjointQ.Rd |only MultiATSM-1.2.0/MultiATSM/man/YieldsFitAllJoint.Rd |only MultiATSM-1.2.0/MultiATSM/man/YieldsFitAllSep.Rd |only MultiATSM-1.2.0/MultiATSM/man/contain.Rd |only MultiATSM-1.2.0/MultiATSM/man/getpara.Rd |only MultiATSM-1.2.0/MultiATSM/man/logdet.Rd |only MultiATSM-1.2.0/MultiATSM/man/mult__inv.Rd |only MultiATSM-1.2.0/MultiATSM/man/mult_inv_large.Rd |only MultiATSM-1.2.0/MultiATSM/man/mult_inv_small.Rd |only MultiATSM-1.2.0/MultiATSM/man/mult_logabsdet.Rd |only MultiATSM-1.2.0/MultiATSM/man/multiprod_2terms.Rd |only MultiATSM-1.3.0/MultiATSM/DESCRIPTION | 15 MultiATSM-1.3.0/MultiATSM/MD5 | 242 - MultiATSM-1.3.0/MultiATSM/NAMESPACE | 87 MultiATSM-1.3.0/MultiATSM/R/BiasCorrection.R | 232 - MultiATSM-1.3.0/MultiATSM/R/Bootstrap.R | 1049 +++---- MultiATSM-1.3.0/MultiATSM/R/Buildx_xvec.R | 262 - MultiATSM-1.3.0/MultiATSM/R/CM_DomMacroFactors.R | 6 MultiATSM-1.3.0/MultiATSM/R/CM_Factors.R | 6 MultiATSM-1.3.0/MultiATSM/R/CM_Factors_GVAR.R | 6 MultiATSM-1.3.0/MultiATSM/R/CM_GlobalMacroFactors.R | 6 MultiATSM-1.3.0/MultiATSM/R/CM_Trade.R | 6 MultiATSM-1.3.0/MultiATSM/R/CM_Yields.R | 4 MultiATSM-1.3.0/MultiATSM/R/Classes_Methods_All.R |only MultiATSM-1.3.0/MultiATSM/R/ConfidenceBoundsBootstrap.R | 1322 +++++---- MultiATSM-1.3.0/MultiATSM/R/DataForEstimation.R | 64 MultiATSM-1.3.0/MultiATSM/R/FMN__Rotate.R | 134 MultiATSM-1.3.0/MultiATSM/R/ForecastYields.R | 437 +-- MultiATSM-1.3.0/MultiATSM/R/Functionf_vectorized.R | 490 +-- MultiATSM-1.3.0/MultiATSM/R/GVAR.R | 429 +-- MultiATSM-1.3.0/MultiATSM/R/GraphicalOutputs.R | 1846 ++++++------- MultiATSM-1.3.0/MultiATSM/R/InputsForOpt.R | 313 +- MultiATSM-1.3.0/MultiATSM/R/InputsForOutputs.R | 88 MultiATSM-1.3.0/MultiATSM/R/JLL.R | 889 +++--- MultiATSM-1.3.0/MultiATSM/R/LabFac.R | 94 MultiATSM-1.3.0/MultiATSM/R/MLEdensity.R | 1254 ++------ MultiATSM-1.3.0/MultiATSM/R/MinorOptimizationFunctions.R | 31 MultiATSM-1.3.0/MultiATSM/R/NumOutputs.R | 1219 ++++---- MultiATSM-1.3.0/MultiATSM/R/NumOutputsBootstrap.R | 391 +- MultiATSM-1.3.0/MultiATSM/R/Optimization.R | 319 +- MultiATSM-1.3.0/MultiATSM/R/Out_Examples.R |only MultiATSM-1.3.0/MultiATSM/R/Reg_K1Q.R | 23 MultiATSM-1.3.0/MultiATSM/R/Spanned_Factors.R | 32 MultiATSM-1.3.0/MultiATSM/R/Transition_Matrix.R | 125 MultiATSM-1.3.0/MultiATSM/R/VAR.R | 111 MultiATSM-1.3.0/MultiATSM/R/pca_weights_one_country.R | 20 MultiATSM-1.3.0/MultiATSM/data/BR_jps_gro_R3.rda |binary MultiATSM-1.3.0/MultiATSM/data/Out_Example.rda |only MultiATSM-1.3.0/MultiATSM/inst/doc/Guidelines.R | 32 MultiATSM-1.3.0/MultiATSM/inst/doc/Guidelines.Rmd | 121 MultiATSM-1.3.0/MultiATSM/inst/doc/Guidelines.html | 382 +- MultiATSM-1.3.0/MultiATSM/inst/doc/Paper-Replications.R | 10 MultiATSM-1.3.0/MultiATSM/inst/doc/Paper-Replications.Rmd | 12 MultiATSM-1.3.0/MultiATSM/inst/doc/Paper-Replications.html | 120 MultiATSM-1.3.0/MultiATSM/man/AdjustOptm_BS.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/BUnspannedAdapSep.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/Bias_Correc_VAR.Rd | 3 MultiATSM-1.3.0/MultiATSM/man/Bootstrap.Rd | 8 MultiATSM-1.3.0/MultiATSM/man/BuildRiskFactors_BS.Rd | 17 MultiATSM-1.3.0/MultiATSM/man/BuildYields_BS.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/ChecksOOS.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/ComputeGIRFs.Rd | 3 MultiATSM-1.3.0/MultiATSM/man/DataForEstimation.Rd | 3 MultiATSM-1.3.0/MultiATSM/man/DataSet_BS.Rd | 17 MultiATSM-1.3.0/MultiATSM/man/DomesticMacroVar.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/FEVDandGFEVD_BS.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/FactorsGVAR.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/FeedbackMat_BS.Rd | 15 MultiATSM-1.3.0/MultiATSM/man/ForecastYields.Rd | 8 MultiATSM-1.3.0/MultiATSM/man/GVAR.Rd | 5 MultiATSM-1.3.0/MultiATSM/man/Gather_Forecasts.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/GaussianDensity.Rd | 5 MultiATSM-1.3.0/MultiATSM/man/Gen_Artificial_Series.Rd | 19 MultiATSM-1.3.0/MultiATSM/man/Gen_Forecast_Yields.Rd | 10 MultiATSM-1.3.0/MultiATSM/man/GetLabels_sepQ.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/GetPdynPara.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/GetYields_AllCountries.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/Get_As.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/Get_BFull.Rd | 8 MultiATSM-1.3.0/MultiATSM/man/Get_Bs.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/Get_Gy1.Rd | 4 MultiATSM-1.3.0/MultiATSM/man/Get_SigmaYields.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/Get_Sigma_JLL.Rd |only MultiATSM-1.3.0/MultiATSM/man/Get_Unspanned.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/Get_r0.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/GlobalMacroVar.Rd | 6 MultiATSM-1.3.0/MultiATSM/man/IdxAllSpanned.Rd | 2 MultiATSM-1.3.0/MultiATSM/man/Idx_UnspanFact.Rd | 6 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Title: Fast Library for Number Theory
Description: An R interface to 'FLINT' <https://flintlib.org/>, a C library for
number theory. 'FLINT' extends GNU 'MPFR' <https://www.mpfr.org/>
and GNU 'MP' <https://gmplib.org/> with support for operations on
standard rings (the integers, the integers modulo n, finite fields,
the rational, p-adic, real, and complex numbers) as well as matrices
and polynomials over rings. 'FLINT' implements midpoint-radius
interval arithmetic, also known as ball arithmetic, in the real and
complex numbers, enabling computation in arbitrary precision with
rigorous propagation of rounding errors; see Johansson (2017)
<doi:10.1109/TC.2017.2690633>. Finally, 'FLINT' provides ball
arithmetic implementations of many special mathematical functions,
with high coverage of reference works such as the NIST Digital
Library of Mathematical Functions <https://dlmf.nist.gov/>. The R
interface defines S4 classes, generic functions, and methods for
representation and basic operations as well as p [...truncated...]
Author: Mikael Jagan [aut, cre]
Maintainer: Mikael Jagan <jaganmn@mcmaster.ca>
Diff between flint versions 0.0.3 dated 2025-02-23 and 0.0.4 dated 2025-03-24
flint-0.0.3/flint/man/slong-class.Rd |only flint-0.0.3/flint/tests/acb_hypgeom_2f1.R |only flint-0.0.4/flint/DESCRIPTION | 22 +- flint-0.0.4/flint/MD5 | 44 ++-- flint-0.0.4/flint/NAMESPACE | 10 - flint-0.0.4/flint/R/acb_special.R | 34 +++ flint-0.0.4/flint/R/arb_special.R | 34 +++ flint-0.0.4/flint/R/random.R |only flint-0.0.4/flint/configure | 22 +- flint-0.0.4/flint/configure.ac | 14 - flint-0.0.4/flint/inst/NEWS.Rd | 31 +++ flint-0.0.4/flint/man/arb_dirichlet_zeta.Rd | 30 +-- flint-0.0.4/flint/man/arb_hypgeom_2f1.Rd | 30 +-- flint-0.0.4/flint/man/arb_hypgeom_gamma.Rd | 23 +- flint-0.0.4/flint/man/arb_hypgeom_gamma_lower.Rd |only flint-0.0.4/flint/man/flint-class.Rd | 6 flint-0.0.4/flint/man/ulong-class.Rd |only flint-0.0.4/flint/src/acb_special.c | 36 +-- flint-0.0.4/flint/src/acb_template.c | 210 +++++++++++++++++++++++ flint-0.0.4/flint/src/acb_template.h | 19 ++ flint-0.0.4/flint/src/arb_special.c | 54 +---- flint-0.0.4/flint/src/arb_template.c | 194 +++++++++++++++++++++ flint-0.0.4/flint/src/arb_template.h | 17 + flint-0.0.4/flint/src/flint.h | 24 +- flint-0.0.4/flint/src/init.c | 15 + flint-0.0.4/flint/tests/hypgeom.R |only 26 files changed, 713 insertions(+), 156 deletions(-)
Title: Fast Approximation of Time-Varying Infectious Disease
Transmission Rates
Description: A fast method for approximating time-varying infectious disease
transmission rates from disease incidence time series and other
data, based on a discrete time approximation of an SEIR model, as
analyzed in Jagan et al. (2020) <doi:10.1371/journal.pcbi.1008124>.
Author: Mikael Jagan [aut, cre]
Maintainer: Mikael Jagan <jaganmn@mcmaster.ca>
Diff between fastbeta versions 0.3.1 dated 2024-11-22 and 0.3.2 dated 2025-03-24
DESCRIPTION | 8 - MD5 | 28 +++-- NAMESPACE | 3 R/deconvolve.R | 4 R/fastbeta.R | 14 +- R/lambertW.R |only R/ptpi.R | 2 R/seir.R | 241 ++++++++++++++++++++++++++++++++++++++++++++++---- build/partial.rdb |binary inst/NEWS.Rd | 182 ++++++++++++++++++++++++------------- man/deconvolve.Rd | 4 man/seir.Rd | 7 + man/seir.canonical.Rd |only tests/fastbeta.R | 2 tests/ptpi.R | 2 tests/seir.R | 2 16 files changed, 383 insertions(+), 116 deletions(-)