Title: Local Association Measures
Description: Implements the estimation of local (and global) association measures: Ducher's Z, pointwise mutual information, normalized pointwise mutual information and chi-squared residuals. The significance of local (and global) association is accessed using p-values estimated by permutations. Finally, using local association subgroup analysis, it identifies if the association between variables is dependent on the value of another variable.
Author: Olivier M. F. Martin [aut, cre],
Michel Ducher [aut]
Maintainer: Olivier M. F. Martin <oliviermfmartin@tutanota.com>
Diff between zebu versions 0.1.2 dated 2017-10-24 and 0.1.3.0 dated 2020-10-05
DESCRIPTION | 24 - MD5 | 50 +- NAMESPACE | 1 NEWS.md | 6 R/lassie.R | 15 R/local_association.R | 32 + R/make_trial_dataset.R | 2 R/misc.R | 4 R/permtest.R | 9 R/preprocess.R | 2 README.md | 14 build/vignette.rds |binary inst/doc/zebu.R | 34 + inst/doc/zebu.Rmd | 135 ++++--- inst/doc/zebu.html | 852 +++++++++++++++++++++++++---------------------- man/format.lassie.Rd | 3 man/lassie.Rd | 11 man/local_association.Rd | 8 man/permtest.Rd | 16 man/plot.lassie.Rd | 17 man/print.lassie.Rd | 3 man/subgroups.Rd | 13 man/trial.Rd | 6 man/write.lassie.Rd | 12 man/zebu.Rd | 1 vignettes/zebu.Rmd | 135 ++++--- 26 files changed, 825 insertions(+), 580 deletions(-)
Title: One-Sided Dynamic Principal Components
Description: Functions to compute the one-sided dynamic
principal components ('odpc') introduced in Peña, Smucler and Yohai (2019)
<DOI:10.1080/01621459.2018.1520117>. 'odpc' is a novel dimension
reduction technique for multivariate time series, that is useful
for forecasting. These dynamic principal components are defined as
the linear combinations of the present and past values of the series
that minimize the reconstruction mean squared error.
Author: Daniel Peña <daniel.pena@uc3m.es>,
Ezequiel Smucler <ezequiels.90@gmail.com>,
Victor Yohai <vyohai@dm.uba.ar>
Maintainer: Ezequiel Smucler <ezequiels.90@gmail.com>
Diff between odpc versions 2.0.3 dated 2020-06-30 and 2.0.4 dated 2020-10-05
DESCRIPTION | 12 +++--- MD5 | 33 +++++++++++------- NAMESPACE | 6 +-- NEWS | 6 +++ R/RcppExports.R | 12 ++++++ R/mainODPC.R | 2 - R/methodsODPC.R | 27 ++++----------- R/sparseODPC.R |only man/crit.sparse_odpc.Rd |only src/RcppExports.cpp | 55 +++++++++++++++++++++++++++++++ src/getMatrices.cpp | 18 ++++++++++ src/getMatrices.h | 3 + src/miscAux.cpp |only src/miscAux.h |only src/odpc.cpp | 22 +----------- src/odpcSparse.cpp |only src/sparseAux.cpp |only src/sparseAux.h |only src/updateFunctions.cpp | 26 ++++++++++---- src/updateFunctions.h | 1 tests/testthat/test_old_ver.R | 73 ++++++++++++++++++++++++++++++++++++++++++ 21 files changed, 226 insertions(+), 70 deletions(-)
Title: Simultaneous Penalized Linear Mixed Effects Models
Description: Contains functions that fit linear mixed-effects models
for high-dimensional data (p>>n) with penalty for both the fixed effects and random effects for variable selection.
The details of the algorithm can be found in Luoying Yang PhD thesis (available soon). The algorithm implementation
is based on the R package 'lmmlasso'.
Author: Luoying Yang, Tong Tong Wu
Maintainer: Luoying Yang <lyang19@u.rochester.edu>
Diff between splmm versions 1.0 dated 2020-09-21 and 1.1.1 dated 2020-10-05
DESCRIPTION | 8 +-- MD5 | 30 +++++++------- R/RcppExports.R | 46 +++++++++++----------- R/methods.R | 106 +++++++++++++++++++++++++++++++++++++++------------ R/splmm.R | 7 ++- R/splmmTuning.R | 46 ++++++++++++++++++++-- build/partial.rdb |binary data/cognitive.rda |binary man/cognitive.Rd | 10 ++-- man/plot.splmm.Rd | 9 ++-- man/plot3D.splmm.Rd | 16 ++++--- man/print.splmm.Rd | 11 ++--- man/splmm.Rd | 16 ++++--- man/splmmTuning.Rd | 23 +++++++---- man/summary.splmm.Rd | 2 src/splmm_rcpp.cpp | 12 ++--- 16 files changed, 230 insertions(+), 112 deletions(-)
Title: Patient Rule Induction Method (PRIM)
Description: Patient Rule Induction Method (PRIM) for bump hunting in high-dimensional data.
Author: Tarn Duong <tarn.duong@gmail.com>
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between prim versions 1.0.17 dated 2020-03-17 and 1.0.18 dated 2020-10-05
prim-1.0.17/prim/inst/doc/prim-2d.Rnw |only prim-1.0.17/prim/inst/doc/prim-2d.pdf |only prim-1.0.17/prim/inst/doc/prim-3d.Rnw |only prim-1.0.17/prim/inst/doc/prim-3d.pdf |only prim-1.0.17/prim/vignettes/prim-2d.Rnw |only prim-1.0.17/prim/vignettes/prim-3d.Rnw |only prim-1.0.18/prim/DESCRIPTION | 15 ++++--- prim-1.0.18/prim/MD5 | 26 ++++++------- prim-1.0.18/prim/R/prim.R | 14 +++---- prim-1.0.18/prim/build/vignette.rds |binary prim-1.0.18/prim/inst/doc/prim-2d.R | 61 ++++++-------------------------- prim-1.0.18/prim/inst/doc/prim-2d.Rmd |only prim-1.0.18/prim/inst/doc/prim-2d.html |only prim-1.0.18/prim/inst/doc/prim-3d.R | 62 ++++++++------------------------- prim-1.0.18/prim/inst/doc/prim-3d.Rmd |only prim-1.0.18/prim/inst/doc/prim-3d.html |only prim-1.0.18/prim/man/plot.prim.Rd | 2 - prim-1.0.18/prim/man/prim.box.Rd | 2 - prim-1.0.18/prim/vignettes/prim-2d.Rmd |only prim-1.0.18/prim/vignettes/prim-3d.Rmd |only 20 files changed, 58 insertions(+), 124 deletions(-)
Title: Mosquito Gene Drive Explorer
Description: Provides a model designed to be a reliable testbed where various gene
drive interventions for mosquito-borne diseases control. It is being developed to
accommodate the use of various mosquito-specific gene drive systems within a
population dynamics framework that allows migration of individuals between patches
in landscape. Previous work developing the population dynamics can be found in Deredec et al.
(2001) <doi:10.1073/pnas.1110717108> and Hancock & Godfray (2007) <doi:10.1186/1475-2875-6-98>,
and extensions to accommodate CRISPR homing dynamics in Marshall et al. (2017)
<doi:10.1038/s41598-017-02744-7>.
Author: Héctor Manuel Sánchez Castellanos [aut, cre],
Jared Bennett [aut],
Sean Wu [aut],
John M. Marshall [aut]
Maintainer: Héctor Manuel Sánchez Castellanos <sanchez.hmsc@berkeley.edu>
Diff between MGDrivE versions 1.5.0 dated 2020-01-29 and 1.6.0 dated 2020-10-05
MGDrivE-1.5.0/MGDrivE/man/get_batchLocRow_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_batchProbs_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_batchSex_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_femaleMigration_Patch.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_maleMigration_Patch.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_migrationFemaleRow_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_migrationMaleRow_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/get_moveVar_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/oneDay_Migration_Network.Rd |only MGDrivE-1.5.0/MGDrivE/man/oneDay_migrationOut_deterministic_Patch.Rd |only MGDrivE-1.5.0/MGDrivE/man/oneDay_migrationOut_stochastic_Patch.Rd |only MGDrivE-1.6.0/MGDrivE/DESCRIPTION | 10 MGDrivE-1.6.0/MGDrivE/MD5 | 150 - MGDrivE-1.6.0/MGDrivE/NAMESPACE | 4 MGDrivE-1.6.0/MGDrivE/NEWS.md | 21 MGDrivE-1.6.0/MGDrivE/R/Cube-1LocusTA.R | 2 MGDrivE-1.6.0/MGDrivE/R/Cube-Auxiliary.R | 4 MGDrivE-1.6.0/MGDrivE/R/Cube-CRISPR1RA.R | 2 MGDrivE-1.6.0/MGDrivE/R/Cube-CRISPR2MF.R | 4 MGDrivE-1.6.0/MGDrivE/R/Cube-ClvR.R |only MGDrivE-1.6.0/MGDrivE/R/Cube-ClvR2.R |only MGDrivE-1.6.0/MGDrivE/R/Cube-ECHACR.R |only MGDrivE-1.6.0/MGDrivE/R/Cube-ECHACRX.R |only MGDrivE-1.6.0/MGDrivE/R/Cube-RIDL.R | 2 MGDrivE-1.6.0/MGDrivE/R/Cube-SMendelian.R | 2 MGDrivE-1.6.0/MGDrivE/R/Cube-SplitDrive.R | 886 ++++++---- MGDrivE-1.6.0/MGDrivE/R/Cube-Wolbachia.R | 2 MGDrivE-1.6.0/MGDrivE/R/Cube-tGD.R | 16 MGDrivE-1.6.0/MGDrivE/R/Cube-tGDX.R | 2 MGDrivE-1.6.0/MGDrivE/R/MGDrivE-Releases.R | 10 MGDrivE-1.6.0/MGDrivE/R/MGDrivE-Setup.R | 14 MGDrivE-1.6.0/MGDrivE/R/MGDrivE.R | 4 MGDrivE-1.6.0/MGDrivE/R/Network-Class.R | 78 MGDrivE-1.6.0/MGDrivE/R/Network-Migration.R |only MGDrivE-1.6.0/MGDrivE/R/Network-Parameters.R | 5 MGDrivE-1.6.0/MGDrivE/R/Network-Simulation.R | 38 MGDrivE-1.6.0/MGDrivE/R/Patch-Class.R | 35 MGDrivE-1.6.0/MGDrivE/R/Patch-Methods.R | 4 MGDrivE-1.6.0/MGDrivE/R/Patch-Migration.R | 114 - MGDrivE-1.6.0/MGDrivE/R/Patch-Simulation.R | 18 MGDrivE-1.6.0/MGDrivE/R/RcppExports.R | 2 MGDrivE-1.6.0/MGDrivE/build/partial.rdb |binary MGDrivE-1.6.0/MGDrivE/build/vignette.rds |binary MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_examples.R | 12 MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_examples.Rmd | 16 MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_examples.html | 36 MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_math.Rmd | 33 MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_math.html | 32 MGDrivE-1.6.0/MGDrivE/inst/doc/mgdrive_run.html | 66 MGDrivE-1.6.0/MGDrivE/man/MGDrivE-Cube.Rd | 4 MGDrivE-1.6.0/MGDrivE/man/MGDrivE-Model.Rd | 7 MGDrivE-1.6.0/MGDrivE/man/Network.Rd | 12 MGDrivE-1.6.0/MGDrivE/man/Patch.Rd | 11 MGDrivE-1.6.0/MGDrivE/man/basicBatchMigration.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/calcGammaKernel.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/calcLarvalDist.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/cubeClvR.Rd |only MGDrivE-1.6.0/MGDrivE/man/cubeClvR2.Rd |only MGDrivE-1.6.0/MGDrivE/man/cubeECHACR.Rd |only MGDrivE-1.6.0/MGDrivE/man/cubeECHACRX.Rd |only MGDrivE-1.6.0/MGDrivE/man/cubeHomingDrive.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/cubeSplitDrive.Rd | 50 MGDrivE-1.6.0/MGDrivE/man/get_femalePop_Patch.Rd |only MGDrivE-1.6.0/MGDrivE/man/get_malePop_Patch.Rd |only MGDrivE-1.6.0/MGDrivE/man/kernels.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatAll2.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatCascade3.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatDiag.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatDiagOneCity.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatDie.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatIndependent3.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatMixedSpil.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatTaleOfTwoCities.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatTriDiagonal.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/moveMatTriple.Rd | 6 MGDrivE-1.6.0/MGDrivE/man/oneDay_Migration_Deterministic_Network.Rd |only MGDrivE-1.6.0/MGDrivE/man/oneDay_Migration_Stochastic_Network.Rd |only MGDrivE-1.6.0/MGDrivE/man/oneDay_PopDynamics_Patch.Rd | 1 MGDrivE-1.6.0/MGDrivE/man/oneDay_adultDeath_deterministic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/oneDay_eggDM_deterministic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/oneDay_eggDM_stochastic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/oneDay_mating_deterministic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/oneDay_oviposit_deterministic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/oneDay_pupation_deterministic_Patch.Rd | 2 MGDrivE-1.6.0/MGDrivE/man/parameterizeMGDrivE.Rd | 5 MGDrivE-1.6.0/MGDrivE/src/MGDrivE-Kernels.cpp | 2 MGDrivE-1.6.0/MGDrivE/vignettes/mgdrive_examples.Rmd | 16 MGDrivE-1.6.0/MGDrivE/vignettes/mgdrive_math.Rmd | 33 88 files changed, 983 insertions(+), 868 deletions(-)
Title: Visualizations for 'mlr3'
Description: Provides visualizations for 'mlr3' objects such as
tasks, predictions, resample results or benchmark results via the
autoplot() generic of 'ggplot2'. The returned 'ggplot' objects are
intended to provide sensible defaults, yet can easily be customized to
create camera-ready figures. Visualizations include barplots,
boxplots, histograms, ROC curves, and Precision-Recall curves.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>),
Raphael Sonabend [aut] (<https://orcid.org/0000-0001-9225-4654>),
Damir Pulatov [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3viz versions 0.3.0 dated 2020-09-25 and 0.4.0 dated 2020-10-05
DESCRIPTION | 20 ++++--- MD5 | 67 ++++++++++++++----------- NAMESPACE | 17 ++++++ NEWS.md | 6 ++ R/BenchmarkResult.R | 11 +++- R/Filter.R | 9 +++ R/LearnerClasssifRpart.R | 9 +++ R/LearnerClustHierarchical.R |only R/LearnerRegrRpart.R | 8 ++ R/PredictionClassif.R | 9 +++ R/PredictionClust.R |only R/PredictionRegr.R | 9 +++ R/ResampleResult.R | 9 +++ R/TaskClassif.R | 9 +++ R/TaskClust.R |only R/TaskDens.R | 9 +++ R/TaskRegr.R | 9 +++ R/TaskSurv.R | 9 +++ README.md | 57 +++++++++------------ man/autoplot.BenchmarkResult.Rd | 6 ++ man/autoplot.Filter.Rd | 6 ++ man/autoplot.LearnerClassifRpart.Rd | 9 +++ man/autoplot.LearnerClustHierarchical.Rd |only man/autoplot.PredictionClassif.Rd | 6 ++ man/autoplot.PredictionClust.Rd |only man/autoplot.PredictionRegr.Rd | 6 ++ man/autoplot.ResampleResult.Rd | 6 ++ man/autoplot.TaskClassif.Rd | 6 ++ man/autoplot.TaskClust.Rd |only man/autoplot.TaskDens.Rd | 6 ++ man/autoplot.TaskRegr.Rd | 6 ++ man/autoplot.TaskSurv.Rd | 6 ++ man/figures/README-demo-1.png |binary man/figures/README-demo-2.png |binary man/figures/README-demo-3.png |binary man/mlr3viz-package.Rd | 5 + tests/testthat/test_LearnerClustHierarchical.R |only tests/testthat/test_PredictionClust.R |only tests/testthat/test_TaskClust.R |only 39 files changed, 266 insertions(+), 69 deletions(-)
Title: Colour Schemes for Scientific Data Visualization
Description: An implementation of Paul Tol's colour schemes for
use with 'graphics' or 'ggplot2'. These schemes are ready for each
type of data (qualitative, diverging or sequential), with colours that
are distinct for all people, including colour-blind readers. This
package provides tools to simulate colour-blindness and to test how
well the colours of any palette are identifiable. Several scientific
thematic schemes (geologic timescale, land cover, FAO soils, etc.) are
also implemented.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>),
Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>),
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-2042-7063>)
Maintainer: Nicolas Frerebeau
<nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between khroma versions 1.3.0 dated 2019-10-26 and 1.4.0 dated 2020-10-05
khroma-1.3.0/khroma/R/ggplot2-science.R |only khroma-1.3.0/khroma/R/ggplot2-tol.R |only khroma-1.3.0/khroma/man/figures/logo.svg |only khroma-1.3.0/khroma/tests/figs/plot/scheme-bright-falsefalse.svg |only khroma-1.3.0/khroma/tests/figs/plot/scheme-bright-falsetrue.svg |only khroma-1.3.0/khroma/tests/figs/plot/scheme-bright-truefalse.svg |only khroma-1.3.0/khroma/tests/figs/plot/scheme-bright-truetrue.svg |only khroma-1.4.0/khroma/DESCRIPTION | 39 +- khroma-1.4.0/khroma/MD5 | 106 +++--- khroma-1.4.0/khroma/NAMESPACE | 21 + khroma-1.4.0/khroma/R/anomalize.R | 35 -- khroma-1.4.0/khroma/R/colour.R | 132 +++++--- khroma-1.4.0/khroma/R/compare.R |only khroma-1.4.0/khroma/R/convert.R |only khroma-1.4.0/khroma/R/ggplot2.R | 79 ++-- khroma-1.4.0/khroma/R/khroma-package.R | 12 khroma-1.4.0/khroma/R/plot.R | 95 +++++ khroma-1.4.0/khroma/R/scale_colour_okabeito.R |only khroma-1.4.0/khroma/R/scale_colour_science.R |only khroma-1.4.0/khroma/R/scale_colour_tol.R |only khroma-1.4.0/khroma/R/sysdata.rda |binary khroma-1.4.0/khroma/README.md | 139 +++++--- khroma-1.4.0/khroma/build/vignette.rds |binary khroma-1.4.0/khroma/inst/CITATION | 4 khroma-1.4.0/khroma/inst/doc/tol.R | 50 +-- khroma-1.4.0/khroma/inst/doc/tol.Rmd | 30 - khroma-1.4.0/khroma/inst/doc/tol.html | 164 +++++----- khroma-1.4.0/khroma/inst/examples/ex-compare.R |only khroma-1.4.0/khroma/inst/examples/ex-okabeito-discrete.R |only khroma-1.4.0/khroma/inst/examples/ex-palettes.R | 8 khroma-1.4.0/khroma/inst/examples/ex-plot.R | 6 khroma-1.4.0/khroma/inst/examples/ex-tol-diverging.R | 4 khroma-1.4.0/khroma/inst/examples/ex-tol-sequential.R | 6 khroma-1.4.0/khroma/man/colour.Rd | 44 ++ khroma-1.4.0/khroma/man/compare.Rd |only khroma-1.4.0/khroma/man/convert.Rd | 4 khroma-1.4.0/khroma/man/figures/README-crayon.png |only khroma-1.4.0/khroma/man/figures/README-show-1.png |binary khroma-1.4.0/khroma/man/figures/README-usage-colourblind-1.png |binary khroma-1.4.0/khroma/man/figures/README-usage-colourblind1-1.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind2-1.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind2-2.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind2-3.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind2-4.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind3-1.png |only khroma-1.4.0/khroma/man/figures/README-usage-colourblind3-2.png |only khroma-1.4.0/khroma/man/figures/README-usage-ggplot2-1.png |binary khroma-1.4.0/khroma/man/figures/logo.png |binary khroma-1.4.0/khroma/man/khroma-package.Rd | 13 khroma-1.4.0/khroma/man/plot.Rd | 31 + khroma-1.4.0/khroma/man/scale_land.Rd | 26 + khroma-1.4.0/khroma/man/scale_okabeito_discrete.Rd |only khroma-1.4.0/khroma/man/scale_soil.Rd | 26 + khroma-1.4.0/khroma/man/scale_stratigraphy.Rd | 26 + khroma-1.4.0/khroma/man/scale_tol_discrete.Rd | 20 + khroma-1.4.0/khroma/man/scale_tol_diverging.Rd | 118 +++++-- khroma-1.4.0/khroma/man/scale_tol_sequential.Rd | 119 +++++-- khroma-1.4.0/khroma/tests/figs/deps.txt | 2 khroma-1.4.0/khroma/tests/figs/plot/plot-range.svg |only khroma-1.4.0/khroma/tests/figs/plot/scheme-colourblind.svg |only khroma-1.4.0/khroma/tests/figs/plot/scheme-muted-falsefalse.svg |only khroma-1.4.0/khroma/tests/figs/plot/scheme-muted-falsetrue.svg |only khroma-1.4.0/khroma/tests/figs/plot/scheme-muted-truefalse.svg |only khroma-1.4.0/khroma/tests/figs/plot/scheme-muted-truetrue.svg |only khroma-1.4.0/khroma/tests/testthat/test-colour.R | 61 ++- khroma-1.4.0/khroma/tests/testthat/test-convert.R |only khroma-1.4.0/khroma/tests/testthat/test-ggplot2-okabeito.R |only khroma-1.4.0/khroma/tests/testthat/test-ggplot2-tol.R | 8 khroma-1.4.0/khroma/tests/testthat/test-plot.R | 40 +- khroma-1.4.0/khroma/vignettes/tol.Rmd | 30 - 70 files changed, 1017 insertions(+), 481 deletions(-)
Title: Estimate Gaussian Mixture Vector Autoregressive Model
Description: Unconstrained and constrained maximum likelihood estimation of structural and reduced form
Gaussian mixture vector autoregressive (GMVAR) model, quantile residual tests, graphical diagnostics,
simulations, forecasting, and estimation of generalized impulse response function.
Leena Kalliovirta, Mika Meitz, Pentti Saikkonen (2016) <doi:10.1016/j.jeconom.2016.02.012>,
Savi Virolainen (2020) <arXiv:2007.04713>.
Author: Savi Virolainen [aut, cre]
Maintainer: Savi Virolainen <savi.virolainen@helsinki.fi>
Diff between gmvarkit versions 1.2.1 dated 2020-08-28 and 1.2.2 dated 2020-10-05
DESCRIPTION | 6 +-- MD5 | 56 +++++++++++++++++---------------- NAMESPACE | 1 NEWS.md | 11 ++++++ R/GIRF.R | 17 ++-------- R/GMVARconstruction.R | 9 ++++- R/MAINest.R | 2 - R/WaldAndLR.R | 4 +- R/diagnosticPlot.R | 66 ++++++++++++++++++++++++++++++++-------- R/geneticAlgorithm.R | 1 R/matcal.R | 1 R/morePlots.R |only R/parameterReforms.R | 3 + R/plotMethods.R | 40 +++++++++++++++++++++++- R/quantileResidualTests.R | 2 - R/simulateGMVAR.R | 4 +- inst/doc/intro-to-gmvarkit.Rmd | 2 - inst/doc/intro-to-gmvarkit.html | 6 +-- man/GIRF.Rd | 6 +-- man/GMVAR.Rd | 5 +++ man/LR_test.Rd | 2 - man/Wald_test.Rd | 2 - man/alt_gmvar.Rd | 5 +++ man/cond_moment_plot.Rd |only man/diagnostic_plot.Rd | 15 +++++++-- man/fitGMVAR.Rd | 2 - man/profile_logliks.Rd | 2 - man/quantile_residual_tests.Rd | 2 - tests/testthat/test_GIRF.R | 8 ++-- vignettes/intro-to-gmvarkit.Rmd | 2 - 30 files changed, 196 insertions(+), 86 deletions(-)
Title: Diffs for R Objects
Description: Generate a colorized diff of two R objects for an intuitive
visualization of their differences.
Author: Brodie Gaslam [aut, cre],
Michael B. Allen [ctb, cph] (Original C implementation of Myers Diff
Algorithm)
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between diffobj versions 0.3.0 dated 2020-05-11 and 0.3.2 dated 2020-10-05
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 12 ++++++++---- R/set.R | 7 +++++-- README.md | 24 +++++++++++++++--------- build/vignette.rds |binary inst/doc/metacomp.Rmd | 11 +++++++++-- inst/doc/metacomp.html | 3 +++ tests/run.R | 5 +++-- tests/testthat/testthat.pager.R | 27 ++++++++------------------- vignettes/metacomp.Rmd | 11 +++++++++-- 11 files changed, 73 insertions(+), 53 deletions(-)
Title: Rank Normal Transformation Omnibus Test
Description: Inverse normal transformation (INT) based genetic association testing. These tests are recommend for continuous traits with non-normally distributed residuals. INT-based tests robustly control the type I error in settings where standard linear regression does not, as when the residual distribution exhibits excess skew or kurtosis. Moreover, INT-based tests dominate standard linear regression in terms of power. These tests may be classified into two types. In direct INT (D-INT), the phenotype is itself transformed. In indirect INT (I-INT), phenotypic residuals are transformed. The omnibus test (O-INT) adaptively combines D-INT and I-INT into a single robust and statistically powerful approach. See McCaw ZR, Lane JM, Saxena R, Redline S, Lin X. "Operating characteristics of the rank-based inverse normal transformation for quantitative trait analysis in genome-wide association studies" <doi:10.1111/biom.13214>.
Author: Zachary McCaw [aut, cre] (<https://orcid.org/0000-0002-2006-9828>)
Maintainer: Zachary McCaw <zmccaw@alumni.harvard.edu>
Diff between RNOmni versions 0.7.1 dated 2019-04-28 and 1.0.0 dated 2020-10-05
RNOmni-0.7.1/RNOmni/inst/doc/RNOmni.R |only RNOmni-0.7.1/RNOmni/inst/doc/RNOmni.Rmd |only RNOmni-0.7.1/RNOmni/man/OINTp.Rd |only RNOmni-0.7.1/RNOmni/man/cov.Rd |only RNOmni-0.7.1/RNOmni/man/rankNorm.Rd |only RNOmni-0.7.1/RNOmni/src/Covariance.cpp |only RNOmni-0.7.1/RNOmni/src/Regression.cpp |only RNOmni-0.7.1/RNOmni/vignettes/RNOmni.Rmd |only RNOmni-1.0.0/RNOmni/DESCRIPTION | 31 RNOmni-1.0.0/RNOmni/MD5 | 66 + RNOmni-1.0.0/RNOmni/NAMESPACE | 6 RNOmni-1.0.0/RNOmni/R/BAT.R | 459 ++++++++----- RNOmni-1.0.0/RNOmni/R/DINT.R | 90 +- RNOmni-1.0.0/RNOmni/R/IINT.R | 182 ++--- RNOmni-1.0.0/RNOmni/R/OINT.R | 228 ++++-- RNOmni-1.0.0/RNOmni/R/PackageHelp.R | 22 RNOmni-1.0.0/RNOmni/R/RN.R | 61 + RNOmni-1.0.0/RNOmni/R/RcppExports.R | 53 - RNOmni-1.0.0/RNOmni/build/vignette.rds |binary RNOmni-1.0.0/RNOmni/inst/doc/RNOmni.html | 851 ++++++++++++++----------- RNOmni-1.0.0/RNOmni/inst/doc/RNOmni.html.asis |only RNOmni-1.0.0/RNOmni/man/BAT.Rd | 32 RNOmni-1.0.0/RNOmni/man/BAT.ScoreTest.Rd |only RNOmni-1.0.0/RNOmni/man/BAT.WaldTest.Rd |only RNOmni-1.0.0/RNOmni/man/BasicInputChecks.Rd |only RNOmni-1.0.0/RNOmni/man/CauchyToP.Rd |only RNOmni-1.0.0/RNOmni/man/DINT.Rd | 38 - RNOmni-1.0.0/RNOmni/man/IINT.Rd | 35 - RNOmni-1.0.0/RNOmni/man/IINT.ScoreTest.Rd |only RNOmni-1.0.0/RNOmni/man/OINT.Rd | 35 - RNOmni-1.0.0/RNOmni/man/OmniP.Rd |only RNOmni-1.0.0/RNOmni/man/PartitionData.Rd |only RNOmni-1.0.0/RNOmni/man/PtoCauchy.Rd |only RNOmni-1.0.0/RNOmni/man/RNOmni-help.Rd | 15 RNOmni-1.0.0/RNOmni/man/RankNorm.Rd |only RNOmni-1.0.0/RNOmni/man/ScoreStat.Rd |only RNOmni-1.0.0/RNOmni/man/WaldStat.Rd |only RNOmni-1.0.0/RNOmni/man/fitOLS.Rd | 6 RNOmni-1.0.0/RNOmni/man/matIP.Rd | 2 RNOmni-1.0.0/RNOmni/man/matInv.Rd | 2 RNOmni-1.0.0/RNOmni/src/LinReg.cpp |only RNOmni-1.0.0/RNOmni/src/Makevars |only RNOmni-1.0.0/RNOmni/src/Makevars.win |only RNOmni-1.0.0/RNOmni/src/MatrixOps.cpp | 33 RNOmni-1.0.0/RNOmni/src/RcppExports.cpp | 48 - RNOmni-1.0.0/RNOmni/vignettes/RNOmni.html.asis |only 46 files changed, 1295 insertions(+), 1000 deletions(-)
Title: Comparison of Trees using a Tree Defining Polynomial
Description: Provides functionality for creation and comparison of polynomials that uniquely
describe trees as introduced in Liu (2019, <arXiv:1904.03332>). The core method
converts rooted unlabeled phylo objects from 'ape' to the tree defining polynomials
described with coefficient matrices. Additionally, a conversion for rooted binary trees
with binary trait labels is also provided. Once the polynomials of trees are calculated
there are functions to calculate distances, distance matrices and plot different distance
trees from a target tree. Manipulation and conversion to the tree defining polynomials is
implemented in C++ with 'Rcpp' and 'RcppArmadillo'. Furthermore, parallel programming with
'RcppThread' is used to improve performance converting to polynomials and calculating distances.
Author: Matthew Gould [aut, cre],
Pengyu Liu [ctb],
Caroline Colijn [ctb]
Maintainer: Matthew Gould <mgould@sfu.ca>
Diff between treenomial versions 1.1.2 dated 2020-02-13 and 1.1.3 dated 2020-10-05
DESCRIPTION | 8 +-- MD5 | 26 ++++++------ NEWS.md | 4 + R/distFunctions.R | 44 +++++++++++++-------- man/plotExtremeTrees.Rd | 5 +- man/polyDist.Rd | 10 +++- man/polyToDistMat.Rd | 5 +- man/treeDist.Rd | 5 +- man/treeToDistMat.Rd | 5 +- src/Makevars | 4 + src/Makevars.win | 4 + src/distFunctions.cpp | 71 +++++++++++++++++++++++++++++++++- tests/testthat/Rplots.pdf |binary tests/testthat/test-coeff-distances.R | 22 ++++++++++ 14 files changed, 167 insertions(+), 46 deletions(-)
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Functions for simulating and testing particular item and test structures are included. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, factor analysis and structural equation models are created using basic graphics. Some of the functions are written to support a book on psychometric theory as well as publications in personality research. For more information, see the <https://personality-project.org/r/> web page.
Author: William Revelle [aut, cre] (<https://orcid.org/0000-0003-4880-9610>)
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.0.8 dated 2020-09-04 and 2.0.9 dated 2020-10-05
psych-2.0.8/psych/inst/doc/omega.R |only psych-2.0.8/psych/inst/doc/omega.Rnw |only psych-2.0.8/psych/inst/doc/omega.pdf |only psych-2.0.8/psych/vignettes/omega.Rnw |only psych-2.0.9/psych/DESCRIPTION | 8 - psych-2.0.9/psych/MD5 | 46 ++++----- psych-2.0.9/psych/R/cluster.plot.R | 3 psych-2.0.9/psych/R/crossValidation.r | 13 +- psych-2.0.9/psych/R/error.bars.by.R | 3 psych-2.0.9/psych/R/geometric.mean.R | 2 psych-2.0.9/psych/R/mediate.r | 5 - psych-2.0.9/psych/R/misc.R | 8 - psych-2.0.9/psych/R/scatter.hist.R | 140 +++++++++++++++++++++++++--- psych-2.0.9/psych/R/score.multiple.choice.R | 6 - psych-2.0.9/psych/build/vignette.rds |binary psych-2.0.9/psych/inst/CITATION | 4 psych-2.0.9/psych/inst/News.Rd | 30 +++++- psych-2.0.9/psych/inst/doc/intro.pdf |binary psych-2.0.9/psych/inst/doc/scoring.R |only psych-2.0.9/psych/inst/doc/scoring.Rnw |only psych-2.0.9/psych/inst/doc/scoring.pdf |only psych-2.0.9/psych/man/cluster.plot.Rd | 3 psych-2.0.9/psych/man/fa.Rd | 2 psych-2.0.9/psych/man/mediate.Rd | 2 psych-2.0.9/psych/man/misc.Rd | 5 - psych-2.0.9/psych/man/scatter.hist.Rd | 34 ++++-- psych-2.0.9/psych/man/spengler.Rd | 4 psych-2.0.9/psych/vignettes/scoring.Rnw |only 28 files changed, 239 insertions(+), 79 deletions(-)
Title: Performance Measures for 'mlr3'
Description: Implements multiple performance measures for
supervised learning. Includes over 40 measures for regression and
classification. Additionally, meta information about the performance
measures can be queried, e.g. what the best and worst possible
performances scores are.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Martin Binder [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3measures versions 0.2.0 dated 2020-06-27 and 0.3.0 dated 2020-10-05
mlr3measures-0.2.0/mlr3measures/inst |only mlr3measures-0.3.0/mlr3measures/DESCRIPTION | 39 +++++---- mlr3measures-0.3.0/mlr3measures/MD5 | 84 ++++++++++----------- mlr3measures-0.3.0/mlr3measures/NAMESPACE | 2 mlr3measures-0.3.0/mlr3measures/NEWS.md | 8 +- mlr3measures-0.3.0/mlr3measures/R/bibentries.R |only mlr3measures-0.3.0/mlr3measures/R/binary_auc.R | 2 mlr3measures-0.3.0/mlr3measures/R/binary_bbrier.R | 2 mlr3measures-0.3.0/mlr3measures/R/binary_fbeta.R | 4 - mlr3measures-0.3.0/mlr3measures/R/binary_mcc.R | 2 mlr3measures-0.3.0/mlr3measures/R/binary_prauc.R |only mlr3measures-0.3.0/mlr3measures/R/classif_auc.R | 6 - mlr3measures-0.3.0/mlr3measures/R/classif_bacc.R | 4 - mlr3measures-0.3.0/mlr3measures/R/classif_mbrier.R | 2 mlr3measures-0.3.0/mlr3measures/R/helper.R | 26 ------ mlr3measures-0.3.0/mlr3measures/R/regr_ktau.R | 2 mlr3measures-0.3.0/mlr3measures/R/regr_mape.R | 2 mlr3measures-0.3.0/mlr3measures/R/regr_srho.R | 2 mlr3measures-0.3.0/mlr3measures/README.md | 7 - mlr3measures-0.3.0/mlr3measures/build/partial.rdb |binary mlr3measures-0.3.0/mlr3measures/man/auc.Rd | 6 + mlr3measures-0.3.0/mlr3measures/man/bacc.Rd | 11 ++ mlr3measures-0.3.0/mlr3measures/man/bbrier.Rd | 6 + mlr3measures-0.3.0/mlr3measures/man/dor.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fbeta.Rd | 12 ++- mlr3measures-0.3.0/mlr3measures/man/fdr.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fn.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fnr.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fomr.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fp.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/fpr.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/ktau.Rd | 5 + mlr3measures-0.3.0/mlr3measures/man/mape.Rd | 5 + mlr3measures-0.3.0/mlr3measures/man/mauc_aunu.Rd | 16 ++-- mlr3measures-0.3.0/mlr3measures/man/mbrier.Rd | 5 + mlr3measures-0.3.0/mlr3measures/man/mcc.Rd | 6 + mlr3measures-0.3.0/mlr3measures/man/measures.Rd | 2 mlr3measures-0.3.0/mlr3measures/man/npv.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/ppv.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/prauc.Rd |only mlr3measures-0.3.0/mlr3measures/man/srho.Rd | 5 + mlr3measures-0.3.0/mlr3measures/man/tn.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/tnr.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/tp.Rd | 1 mlr3measures-0.3.0/mlr3measures/man/tpr.Rd | 1 45 files changed, 158 insertions(+), 128 deletions(-)
Title: An Interface to Google's 'BigQuery' 'API'
Description: Easily talk to Google's 'BigQuery' database from R.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut] (<https://orcid.org/0000-0002-6983-2759>),
Kungliga Tekniska Högskolan [ctb] (strptime implementation),
The NetBSD Foundation, Inc. [ctb] (gmtime implementation),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between bigrquery versions 1.3.1 dated 2020-05-15 and 1.3.2 dated 2020-10-05
DESCRIPTION | 16 ++-- MD5 | 127 +++++++++++++++++------------------ NAMESPACE | 1 NEWS.md | 19 +++++ R/bq-auth.R | 2 R/bq-dataset.R | 8 +- R/bq-download.R | 10 +- R/bq-field.R | 2 R/bq-job.R | 2 R/bq-perform.R | 35 +++++++++ R/bq-projects.R | 2 R/bq-table.R | 6 - R/dplyr.R | 5 + R/old-job-extract.R | 2 R/old-job-query.R | 8 +- R/old-job-upload.R | 18 +++- R/old-job.R | 4 - R/old-query.R | 4 - R/old-tabledata.R | 2 R/utils.R | 10 ++ R/zzz.R | 4 + README.md | 79 ++++++++++----------- man/api-dataset.Rd | 8 +- man/api-job.Rd | 2 man/api-perform.Rd | 10 ++ man/api-table.Rd | 6 - man/bigquery.Rd | 2 man/bigrquery-package.Rd | 4 - man/bq_auth.Rd | 17 +--- man/bq_auth_configure.Rd | 2 man/bq_projects.Rd | 2 man/bq_table_download.Rd | 4 - man/bq_token.Rd | 2 man/bq_user.Rd | 4 - man/get_job.Rd | 4 - man/insert_extract_job.Rd | 2 man/insert_query_job.Rd | 8 +- man/insert_upload_job.Rd | 6 - man/list_tabledata.Rd | 2 man/query_exec.Rd | 8 +- src/BqField.cpp | 59 ++++++++++++++-- src/base64.c |only src/base64.h |only tests/testthat.R | 4 - tests/testthat/test-bq-dataset.R | 2 tests/testthat/test-bq-download.R | 38 +++++++++- tests/testthat/test-bq-field.R | 2 tests/testthat/test-bq-job.R | 2 tests/testthat/test-bq-param.R | 2 tests/testthat/test-bq-parse.R | 25 ++++++ tests/testthat/test-bq-perform.R | 10 ++ tests/testthat/test-bq-project-api.R | 4 - tests/testthat/test-bq-projects.r | 2 tests/testthat/test-bq-refs.R | 2 tests/testthat/test-bq-request.R | 2 tests/testthat/test-bq-table.R | 32 +++++++- tests/testthat/test-bq-test.R | 2 tests/testthat/test-camelCase.R | 2 tests/testthat/test-dbi-connection.R | 2 tests/testthat/test-dbi-driver.R | 2 tests/testthat/test-dbi-result.R | 2 tests/testthat/test-dplyr.R | 8 +- tests/testthat/test-gs-object.R | 2 tests/testthat/test-request.r | 2 tests/testthat/test-test.R | 2 tests/testthat/test-utils.R |only 66 files changed, 434 insertions(+), 235 deletions(-)
Title: Run Predictions Inside the Database
Description: It parses a fitted 'R' model object, and returns a formula
in 'Tidy Eval' code that calculates the predictions.
It works with several databases back-ends because it leverages 'dplyr'
and 'dbplyr' for the final 'SQL' translation of the algorithm. It currently
supports lm(), glm(), randomForest(), ranger(), earth(), xgb.Booster.complete(),
cubist(), and ctree() models.
Author: Max Kuhn [aut, cre]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tidypredict versions 0.4.6 dated 2020-07-23 and 0.4.7 dated 2020-10-05
DESCRIPTION | 17 ++-- MD5 | 38 +++++------ NAMESPACE | 2 NEWS.md | 4 + R/acceptable.R | 5 - R/model-earth.R | 148 ++++++++++++++++++++++++++++--------------- R/parsemodel.R | 6 - R/predict-column.R | 10 +- R/predict-interval.R | 6 - R/test-predictions.R | 6 - R/tidypredict.R | 12 ++- README.md | 3 build/vignette.rds |binary inst/doc/mars.html | 73 ++++++++++----------- inst/doc/xgboost.html | 10 ++ man/acceptable_formula.Rd | 2 man/parse_model.Rd | 6 - man/tidypredict_interval.Rd | 6 - man/tidypredict_test.Rd | 6 - man/tidypredict_to_column.Rd | 10 +- 20 files changed, 221 insertions(+), 149 deletions(-)
Title: Expressions with Statistical Details
Description: Statistical processing backend for 'ggstatsplot',
this package creates expressions with details from statistical tests.
Currently, it supports only the most common types of statistical
tests: parametric, nonparametric, robust, and Bayesian versions of
t-test/ANOVA, correlation analyses, contingency table analysis, and
meta-analysis.
Author: Indrajeet Patil [cre, aut, cph]
(<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between statsExpressions versions 0.5.0 dated 2020-09-12 and 0.5.1 dated 2020-10-05
DESCRIPTION | 12 MD5 | 63 +- NAMESPACE | 1 NEWS.md | 15 R/helpers_corr_test_expressions.R | 14 R/helpers_meta_analysis_expressions.R | 20 R/helpers_t_onesample_expressions.R | 2 R/helpers_t_test_expressions.R | 5 README.md | 576 +++++++++++++------------ inst/doc/stats_details.html | 13 man/expr_corr_test.Rd | 2 man/expr_t_robust.Rd | 3 man/figures/README-anova_parametric1-1.png |binary man/figures/README-anova_rob1-1.png |binary man/figures/README-cont_tabs1-1.png |binary man/figures/README-corr-1.png |binary man/figures/README-corr2-1.png |only man/figures/README-ggpubr_anova-1.png |binary man/figures/README-gof-1.png |binary man/figures/README-metaanalysis-1.png |binary man/figures/README-t_ggiraphExtra-1.png |binary man/figures/README-t_two_ggpubr-1.png |binary tests/testthat/test-expr_anova_nonparametric.R | 6 tests/testthat/test-expr_anova_parametric.R | 4 tests/testthat/test-expr_anova_robust.R | 4 tests/testthat/test-expr_contingency_tab.R | 31 - tests/testthat/test-expr_corr_test.R | 18 tests/testthat/test-expr_meta_parametric.R | 2 tests/testthat/test-expr_meta_robust.R | 2 tests/testthat/test-expr_t_nonparametric.R | 4 tests/testthat/test-expr_t_onesample.R | 2 tests/testthat/test-expr_t_parametric.R | 8 tests/testthat/test-expr_t_robust.R | 4 33 files changed, 436 insertions(+), 375 deletions(-)
More information about statsExpressions at CRAN
Permanent link
Title: Inference Tools in Time Series Based on Record Statistics
Description: Statistical tools based on probabilistic properties of the occurrence of
records in a sequence (Xt) of independent and identically distributed random variables.
In particular, tools to pre-process a time series as well as distribution-free
tests for trend in location and plots to visualize the behavior of the records.
Author: Jorge Castillo-Mateo [aut, cre, cph]
(<https://orcid.org/0000-0003-3859-0248>),
Ana C. Cebrián [aut],
Jesús Asín [dtc]
Maintainer: Jorge Castillo-Mateo <jorgecastillomateo@gmail.com>
Diff between RecordTest versions 0.1.2 dated 2020-02-09 and 1.0.1 dated 2020-10-05
RecordTest-0.1.2/RecordTest/NEWS |only RecordTest-0.1.2/RecordTest/R/DaySeries.fun.R |only RecordTest-0.1.2/RecordTest/R/I.rec.R |only RecordTest-0.1.2/RecordTest/R/L.rec.R |only RecordTest-0.1.2/RecordTest/R/L_MC.test.R |only RecordTest-0.1.2/RecordTest/R/M.rec.R |only RecordTest-0.1.2/RecordTest/R/N.rec.R |only RecordTest-0.1.2/RecordTest/R/N_joint.plot.R |only RecordTest-0.1.2/RecordTest/R/N_joint.test.R |only RecordTest-0.1.2/RecordTest/R/Nmean.rec.R |only RecordTest-0.1.2/RecordTest/R/dailymean.fun.R |only RecordTest-0.1.2/RecordTest/R/dailysd.fun.R |only RecordTest-0.1.2/RecordTest/R/double.fun.R |only RecordTest-0.1.2/RecordTest/R/mintime.cor.test.R |only RecordTest-0.1.2/RecordTest/R/std.fun.R |only RecordTest-0.1.2/RecordTest/R/value.rec.R |only RecordTest-0.1.2/RecordTest/man/DaySeries.fun.Rd |only RecordTest-0.1.2/RecordTest/man/I.rec.Rd |only RecordTest-0.1.2/RecordTest/man/L.rec.Rd |only RecordTest-0.1.2/RecordTest/man/L_MC.test.Rd |only RecordTest-0.1.2/RecordTest/man/M.rec.Rd |only RecordTest-0.1.2/RecordTest/man/N.rec.Rd |only RecordTest-0.1.2/RecordTest/man/N_joint.plot.Rd |only RecordTest-0.1.2/RecordTest/man/N_joint.test.Rd |only RecordTest-0.1.2/RecordTest/man/Nmean.rec.Rd |only RecordTest-0.1.2/RecordTest/man/dailymean.fun.Rd |only RecordTest-0.1.2/RecordTest/man/dailysd.fun.Rd |only RecordTest-0.1.2/RecordTest/man/double.fun.Rd |only RecordTest-0.1.2/RecordTest/man/mintime.cor.test.Rd |only RecordTest-0.1.2/RecordTest/man/std.fun.Rd |only RecordTest-0.1.2/RecordTest/man/value.rec.Rd |only RecordTest-1.0.1/RecordTest/DESCRIPTION | 38 +- RecordTest-1.0.1/RecordTest/MD5 | 121 +++--- RecordTest-1.0.1/RecordTest/NAMESPACE | 76 ++-- RecordTest-1.0.1/RecordTest/R/I.record.R |only RecordTest-1.0.1/RecordTest/R/L.plot.R | 118 ++++-- RecordTest-1.0.1/RecordTest/R/L.record.R |only RecordTest-1.0.1/RecordTest/R/L_global.test.R |only RecordTest-1.0.1/RecordTest/R/L_lm.test.R |only RecordTest-1.0.1/RecordTest/R/L_lr.test.R | 206 ++++++++--- RecordTest-1.0.1/RecordTest/R/M.record.R |only RecordTest-1.0.1/RecordTest/R/MonteCarlo.R |only RecordTest-1.0.1/RecordTest/R/N.plot.R | 241 +++++++----- RecordTest-1.0.1/RecordTest/R/N.record.R |only RecordTest-1.0.1/RecordTest/R/N_normal.test.R | 161 +++++--- RecordTest-1.0.1/RecordTest/R/P_chisq.test.R | 156 ++++++-- RecordTest-1.0.1/RecordTest/R/P_exactPB.test.R | 337 +++++++++++++----- RecordTest-1.0.1/RecordTest/R/P_regression.plot.R | 205 ++++++---- RecordTest-1.0.1/RecordTest/R/P_regression.test.R | 119 +++--- RecordTest-1.0.1/RecordTest/R/RecordTest.R | 96 +++-- RecordTest-1.0.1/RecordTest/R/TX_Zaragoza-data.R | 21 - RecordTest-1.0.1/RecordTest/R/ZaragozaSeries-data.R | 9 RecordTest-1.0.1/RecordTest/R/foster.plot.R |only RecordTest-1.0.1/RecordTest/R/foster.test.R |only RecordTest-1.0.1/RecordTest/R/records.R |only RecordTest-1.0.1/RecordTest/R/series_double.R |only RecordTest-1.0.1/RecordTest/R/series_rev.R |only RecordTest-1.0.1/RecordTest/R/series_split.R |only RecordTest-1.0.1/RecordTest/R/series_uncor.R |only RecordTest-1.0.1/RecordTest/R/series_untie.R |only RecordTest-1.0.1/RecordTest/README.md |only RecordTest-1.0.1/RecordTest/build |only RecordTest-1.0.1/RecordTest/data/TX_Zaragoza.RData |binary RecordTest-1.0.1/RecordTest/data/ZaragozaSeries.RData |binary RecordTest-1.0.1/RecordTest/inst |only RecordTest-1.0.1/RecordTest/man/I.record.Rd |only RecordTest-1.0.1/RecordTest/man/L.plot.Rd | 46 +- RecordTest-1.0.1/RecordTest/man/L.record.Rd |only RecordTest-1.0.1/RecordTest/man/L_global.test.Rd |only RecordTest-1.0.1/RecordTest/man/L_lm.test.Rd |only RecordTest-1.0.1/RecordTest/man/L_lr.test.Rd | 96 ++++- RecordTest-1.0.1/RecordTest/man/M.record.Rd |only RecordTest-1.0.1/RecordTest/man/MonteCarlo.Rd |only RecordTest-1.0.1/RecordTest/man/N.plot.Rd | 77 ++-- RecordTest-1.0.1/RecordTest/man/N.record.Rd |only RecordTest-1.0.1/RecordTest/man/N_normal.test.Rd | 83 +++- RecordTest-1.0.1/RecordTest/man/P_chisq.test.Rd | 51 +- RecordTest-1.0.1/RecordTest/man/P_exactPB.test.Rd | 84 +++- RecordTest-1.0.1/RecordTest/man/P_regression.plot.Rd | 82 ++-- RecordTest-1.0.1/RecordTest/man/P_regression.test.Rd | 54 +- RecordTest-1.0.1/RecordTest/man/RecordTest-package.Rd | 98 +++-- RecordTest-1.0.1/RecordTest/man/TX_Zaragoza.Rd | 22 - RecordTest-1.0.1/RecordTest/man/ZaragozaSeries.Rd | 11 RecordTest-1.0.1/RecordTest/man/figures |only RecordTest-1.0.1/RecordTest/man/foster.plot.Rd |only RecordTest-1.0.1/RecordTest/man/foster.test.Rd |only RecordTest-1.0.1/RecordTest/man/records.Rd |only RecordTest-1.0.1/RecordTest/man/series_double.Rd |only RecordTest-1.0.1/RecordTest/man/series_rev.Rd |only RecordTest-1.0.1/RecordTest/man/series_split.Rd |only RecordTest-1.0.1/RecordTest/man/series_uncor.Rd |only RecordTest-1.0.1/RecordTest/man/series_untie.Rd |only RecordTest-1.0.1/RecordTest/vignettes |only 93 files changed, 1721 insertions(+), 887 deletions(-)
Title: Propensity Score Weighting for Causal Inference with
Observational Studies and Randomized Trials
Description: Supports propensity score weighting analysis of observational studies and randomized trials. Enables the estimation and inference of average causal effects with binary and multiple treatments using overlap weights (ATO), inverse probability of treatment weights (ATE), average treatment effect among the treated weights (ATT), matching weights (ATM) and entropy weights (ATEN), with and without propensity score trimming. These weights are members of the family of balancing weights introduced in Li, Morgan and Zaslavsky (2018) <doi:10.1080/01621459.2016.1260466> and Li and Li (2019) <doi:10.1214/19-AOAS1282>.
Author: Tianhui Zhou [aut, cre],
Guangyu Tong [aut],
Fan Li [aut],
Laine Thomas [aut],
Fan Li [aut]
Maintainer: Tianhui Zhou <tianhui.zhou@duke.edu>
Diff between PSweight versions 1.1.1 dated 2020-10-02 and 1.1.2 dated 2020-10-05
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 1 + R/summary_PSweight.R | 37 ++++++++++++++++++++++++++++++++++--- 4 files changed, 42 insertions(+), 10 deletions(-)
Title: Connector Between 'mlr3' and 'OpenML'
Description: Provides an interface to 'OpenML.org' to list and
download machine learning data and tasks. Data and tasks can be
automatically converted to 'mlr3' tasks. For a more sophisticated
interface which also allows uploading experiments, see the 'OpenML'
package.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3oml versions 0.2.0 dated 2020-08-24 and 0.3.0 dated 2020-10-05
mlr3oml-0.2.0/mlr3oml/inst |only mlr3oml-0.3.0/mlr3oml/DESCRIPTION | 9 ++---- mlr3oml-0.3.0/mlr3oml/MD5 | 34 +++++++++++------------ mlr3oml-0.3.0/mlr3oml/NAMESPACE | 1 mlr3oml-0.3.0/mlr3oml/NEWS.md | 8 +++++ mlr3oml-0.3.0/mlr3oml/R/OMLData.R | 8 +++-- mlr3oml-0.3.0/mlr3oml/R/OMLResamplingConnector.R | 2 - mlr3oml-0.3.0/mlr3oml/R/OMLTask.R | 6 ++-- mlr3oml-0.3.0/mlr3oml/R/OMLTaskConnector.R | 2 - mlr3oml-0.3.0/mlr3oml/R/bibentries.R |only mlr3oml-0.3.0/mlr3oml/R/helper_convert.R | 20 +++++++++++++ mlr3oml-0.3.0/mlr3oml/R/list_oml_data_sets.R | 4 -- mlr3oml-0.3.0/mlr3oml/R/list_oml_tasks.R | 4 -- mlr3oml-0.3.0/mlr3oml/README.md | 6 ++-- mlr3oml-0.3.0/mlr3oml/build/partial.rdb |binary mlr3oml-0.3.0/mlr3oml/man/OMLData.Rd | 7 ++++ mlr3oml-0.3.0/mlr3oml/man/OMLTask.Rd | 5 ++- mlr3oml-0.3.0/mlr3oml/man/list_oml_data_sets.Rd | 11 +++++-- mlr3oml-0.3.0/mlr3oml/man/list_oml_tasks.Rd | 11 +++++-- 19 files changed, 91 insertions(+), 47 deletions(-)
Title: Access the 'Google Tag Manager' API using R
Description: Interact with the 'Google Tag Manager' API <https://developers.google.com/tag-manager/api/v2>, enabling scripted deployments and updates across multiple tags, triggers, variables and containers.
Author: James Cottrill [aut, cre, cph],
Mark Edmondson [ctb],
Manos Parzakonis [ctb]
Maintainer: James Cottrill <r@jamescottrill.co.uk>
Diff between googleTagManageR versions 0.1.5 dated 2020-09-09 and 0.1.6 dated 2020-10-05
DESCRIPTION | 10 +++++----- MD5 | 15 ++++++++------- R/options.R |only R/quotas_errors.R | 4 ++-- R/variables.R | 34 +++++++++++++++++----------------- R/zones.R | 24 ++++++++++++++++++++++++ man/gtm_variables_create.Rd | 14 +++++++------- man/gtm_variables_update.Rd | 20 ++++++++++---------- man/gtm_zones_create.Rd | 25 +++++++++++++++++++++++++ 9 files changed, 98 insertions(+), 48 deletions(-)
More information about googleTagManageR at CRAN
Permanent link
More information about FunWithNumbers at CRAN
Permanent link
Title: Breast Cancer Survival and Therapy Benefits
Description: Calculate Overall Survival or Recurrence-Free Survival for breast cancer patients, using 'NHS Predict'.
The time interval for the estimation can be set up to 15 years, with default at 10.
Incremental therapy benefits are estimated for hormone therapy, chemotherapy, trastuzumab, and bisphosphonates.
An additional function, suited for SCAN audits, features a more user-friendly version of the code, with fewer inputs, but necessitates
the correct standardised inputs.
This work is not affiliated with the development of 'NHS Predict' and its underlying statistical model.
Details on 'NHS Predict' can be found at: <doi:10.1186/bcr2464>.
The web version of 'NHS Predict': <https://breast.predict.nhs.uk/>.
A small dataset of 50 fictional patient observations is provided for the purpose of running examples with the main two functions,
and an additional dataset is provided for running example with the dedicated SCAN function.
Author: Giovanni Tramonti
Maintainer: Giovanni Tramonti <giovanni.tramonti@ed.ac.uk>
Diff between nhs.predict versions 1.2.0 dated 2020-06-09 and 1.4.0 dated 2020-10-05
nhs.predict-1.2.0/nhs.predict/man/data.Rd |only nhs.predict-1.4.0/nhs.predict/DESCRIPTION | 11 +++++--- nhs.predict-1.4.0/nhs.predict/MD5 | 20 +++++++++------ nhs.predict-1.4.0/nhs.predict/NAMESPACE | 2 + nhs.predict-1.4.0/nhs.predict/R/predict.os.R | 13 ++++----- nhs.predict-1.4.0/nhs.predict/R/predict.rfs.R | 18 ++++++------- nhs.predict-1.4.0/nhs.predict/R/predict.scan.R |only nhs.predict-1.4.0/nhs.predict/data/example_data.rda |binary nhs.predict-1.4.0/nhs.predict/data/scan_example_data.rda |only nhs.predict-1.4.0/nhs.predict/man/example_data.Rd |only nhs.predict-1.4.0/nhs.predict/man/os.predict.Rd | 12 ++++----- nhs.predict-1.4.0/nhs.predict/man/rfs.predict.Rd | 16 ++++++------ nhs.predict-1.4.0/nhs.predict/man/scan.predict.Rd |only nhs.predict-1.4.0/nhs.predict/man/scan_example_data.Rd |only 14 files changed, 49 insertions(+), 43 deletions(-)
Title: Scoring Rules for Parametric and Simulated Distribution
Forecasts
Description: Dictionary-like reference for computing scoring rules in a wide
range of situations. Covers both parametric forecast distributions (such as
mixtures of Gaussians) and distributions generated via simulation.
Author: Alexander Jordan, Fabian Krueger, Sebastian Lerch
Maintainer: Fabian Krueger <Fabian.Krueger83@gmail.com>
Diff between scoringRules versions 1.0.0 dated 2019-08-20 and 1.0.1 dated 2020-10-05
DESCRIPTION | 10 MD5 | 53 ++-- R/crps.numeric.R | 9 R/header_replication.R | 34 +- R/helper_Hessian.R | 2 R/scores.R | 4 R/scores_moments.R | 4 R/scores_pois.R | 9 R/scores_sample_multiv.R | 10 R/scores_sample_univ.R | 8 build/partial.rdb |only build/vignette.rds |binary inst/doc/article.pdf |binary inst/doc/gettingstarted.R | 8 inst/doc/gettingstarted.html | 518 +++++++++++++++++-------------------------- man/ar_ms.Rd | 31 +- man/crps.numeric.Rd | 11 man/gdp_mcmc.Rd | 8 man/plot.casestudy.Rd | 4 man/plot.mcstudy.Rd | 4 man/run_casestudy.Rd | 21 + man/run_mcstudy.Rd | 20 + man/scores.Rd | 4 man/scores_hyper.Rd | 3 man/scores_lnorm.Rd | 9 man/scores_moments.Rd | 4 man/scores_sample_multiv.Rd | 10 man/scores_sample_univ.Rd | 19 - 28 files changed, 381 insertions(+), 436 deletions(-)
Title: Machine Learning in R
Description: Interface to a large number of classification and
regression techniques, including machine-readable parameter
descriptions. There is also an experimental extension for survival
analysis, clustering and general, example-specific cost-sensitive
learning. Generic resampling, including cross-validation,
bootstrapping and subsampling. Hyperparameter tuning with modern
optimization techniques, for single- and multi-objective problems.
Filter and wrapper methods for feature selection. Extension of basic
learners with additional operations common in machine learning, also
allowing for easy nested resampling. Most operations can be
parallelized.
Author: Bernd Bischl [aut] (<https://orcid.org/0000-0001-6002-6980>),
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Lars Kotthoff [aut],
Patrick Schratz [aut, cre] (<https://orcid.org/0000-0003-0748-6624>),
Julia Schiffner [aut],
Jakob Richter [aut],
Zachary Jones [aut],
Giuseppe Casalicchio [aut] (<https://orcid.org/0000-0001-5324-5966>),
Mason Gallo [aut],
Jakob Bossek [ctb] (<https://orcid.org/0000-0002-4121-4668>),
Erich Studerus [ctb] (<https://orcid.org/0000-0003-4233-0182>),
Leonard Judt [ctb],
Tobias Kuehn [ctb],
Pascal Kerschke [ctb] (<https://orcid.org/0000-0003-2862-1418>),
Florian Fendt [ctb],
Philipp Probst [ctb] (<https://orcid.org/0000-0001-8402-6790>),
Xudong Sun [ctb] (<https://orcid.org/0000-0003-3269-2307>),
Janek Thomas [ctb] (<https://orcid.org/0000-0003-4511-6245>),
Bruno Vieira [ctb],
Laura Beggel [ctb] (<https://orcid.org/0000-0002-8872-8535>),
Quay Au [ctb] (<https://orcid.org/0000-0002-5252-8902>),
Martin Binder [ctb],
Florian Pfisterer [ctb],
Stefan Coors [ctb],
Steve Bronder [ctb],
Alexander Engelhardt [ctb],
Christoph Molnar [ctb],
Annette Spooner [ctb]
Maintainer: Patrick Schratz <patrick.schratz@gmail.com>
Diff between mlr versions 2.17.1 dated 2020-03-24 and 2.18.0 dated 2020-10-05
mlr-2.17.1/mlr/data/datalist |only mlr-2.18.0/mlr/DESCRIPTION | 28 mlr-2.18.0/mlr/MD5 | 273 - mlr-2.18.0/mlr/NAMESPACE | 2468 +++++----- mlr-2.18.0/mlr/NEWS.md | 1351 +++-- mlr-2.18.0/mlr/R/CostSensWeightedPairsWrapper.R | 9 mlr-2.18.0/mlr/R/FeatSelWrapper.R | 158 mlr-2.18.0/mlr/R/Filter.R | 12 mlr-2.18.0/mlr/R/Measure.R | 316 - mlr-2.18.0/mlr/R/Measure_custom_resampled.R | 154 mlr-2.18.0/mlr/R/ModelMultiplexer.R | 284 - mlr-2.18.0/mlr/R/MulticlassWrapper.R | 8 mlr-2.18.0/mlr/R/RLearner_classif_fdausc.knn.R | 116 mlr-2.18.0/mlr/R/RLearner_classif_glmnet.R | 196 mlr-2.18.0/mlr/R/RLearner_classif_mda.R | 98 mlr-2.18.0/mlr/R/RLearner_classif_xgboost.R | 9 mlr-2.18.0/mlr/R/RLearner_regr_glmnet.R | 162 mlr-2.18.0/mlr/R/RLearner_regr_mob.R | 136 mlr-2.18.0/mlr/R/RLearner_regr_xgboost.R | 4 mlr-2.18.0/mlr/R/ResampleInstance.R | 5 mlr-2.18.0/mlr/R/ResampleResult_operators.R | 378 - mlr-2.18.0/mlr/R/StackedLearner.R | 1514 +++--- mlr-2.18.0/mlr/R/TuneControlIrace.R | 118 mlr-2.18.0/mlr/R/aggregations.R | 600 +- mlr-2.18.0/mlr/R/batchmark.R | 298 - mlr-2.18.0/mlr/R/createSpatialResamplingPlots.R | 472 - mlr-2.18.0/mlr/R/extractFDAFeaturesMethods.R | 1088 ++-- mlr-2.18.0/mlr/R/friedmanPostHocTestBMR.R | 180 mlr-2.18.0/mlr/R/generateHyperParsEffect.R | 2 mlr-2.18.0/mlr/R/generateLearningCurve.R | 312 - mlr-2.18.0/mlr/R/getFunctionalFeatures.R | 70 mlr-2.18.0/mlr/R/getNestedTuneResults.R | 113 mlr-2.18.0/mlr/R/getResamplingIndices.R | 130 mlr-2.18.0/mlr/R/hasFunctionalFeatures.R | 44 mlr-2.18.0/mlr/R/helpers_FDGAMBoost.R | 296 - mlr-2.18.0/mlr/R/helpers_fda.R | 90 mlr-2.18.0/mlr/R/measures.R | 232 mlr-2.18.0/mlr/R/mergeBenchmarkResults.R | 186 mlr-2.18.0/mlr/R/plotCritDifferences.R | 474 - mlr-2.18.0/mlr/R/resample.R | 644 +- mlr-2.18.0/mlr/R/selectFeatures.R | 230 mlr-2.18.0/mlr/R/tuneParamsMultiCrit.R | 168 mlr-2.18.0/mlr/build/vignette.rds |binary mlr-2.18.0/mlr/inst/CITATION | 2 mlr-2.18.0/mlr/inst/doc/mlr.html | 9 mlr-2.18.0/mlr/man/RLearner.Rd | 2 mlr-2.18.0/mlr/man/TuneMultiCritControl.Rd | 4 mlr-2.18.0/mlr/man/aggregations.Rd | 120 mlr-2.18.0/mlr/man/batchmark.Rd | 228 mlr-2.18.0/mlr/man/createSpatialResamplingPlots.Rd | 341 - mlr-2.18.0/mlr/man/friedmanPostHocTestBMR.Rd | 168 mlr-2.18.0/mlr/man/generateCritDifferencesData.Rd | 232 mlr-2.18.0/mlr/man/generateLearningCurveData.Rd | 170 mlr-2.18.0/mlr/man/getCaretParamSet.Rd | 4 mlr-2.18.0/mlr/man/getDefaultMeasure.Rd | 50 mlr-2.18.0/mlr/man/getFeatureImportance.Rd | 4 mlr-2.18.0/mlr/man/getFunctionalFeatures.Rd | 100 mlr-2.18.0/mlr/man/getParamSet.Rd | 2 mlr-2.18.0/mlr/man/hasFunctionalFeatures.Rd | 36 mlr-2.18.0/mlr/man/makeCostMeasure.Rd | 142 mlr-2.18.0/mlr/man/makeCostSensWeightedPairsWrapper.Rd | 2 mlr-2.18.0/mlr/man/makeCustomResampledMeasure.Rd | 190 mlr-2.18.0/mlr/man/makeFeatSelWrapper.Rd | 220 mlr-2.18.0/mlr/man/makeMeasure.Rd | 236 mlr-2.18.0/mlr/man/makeModelMultiplexer.Rd | 224 mlr-2.18.0/mlr/man/makeModelMultiplexerParamSet.Rd | 2 mlr-2.18.0/mlr/man/makeMulticlassWrapper.Rd | 2 mlr-2.18.0/mlr/man/makePreprocWrapper.Rd | 2 mlr-2.18.0/mlr/man/makeStackedLearner.Rd | 234 mlr-2.18.0/mlr/man/makeTuneControlGrid.Rd | 2 mlr-2.18.0/mlr/man/makeTuneControlIrace.Rd | 226 mlr-2.18.0/mlr/man/makeTuneControlMBO.Rd | 2 mlr-2.18.0/mlr/man/makeTuneWrapper.Rd | 2 mlr-2.18.0/mlr/man/measures.Rd | 620 +- mlr-2.18.0/mlr/man/mergeBenchmarkResults.Rd | 58 mlr-2.18.0/mlr/man/mlr-package.Rd | 140 mlr-2.18.0/mlr/man/plotBMRSummary.Rd | 4 mlr-2.18.0/mlr/man/plotCritDifferences.Rd | 164 mlr-2.18.0/mlr/man/reduceBatchmarkResults.Rd | 6 mlr-2.18.0/mlr/man/selectFeatures.Rd | 174 mlr-2.18.0/mlr/man/spatial.task.Rd | 58 mlr-2.18.0/mlr/man/tuneParams.Rd | 2 mlr-2.18.0/mlr/man/tuneParamsMultiCrit.Rd | 162 mlr-2.18.0/mlr/tests/figs/deps.txt | 6 mlr-2.18.0/mlr/tests/figs/featsel/feat-type-cols.svg | 214 mlr-2.18.0/mlr/tests/figs/featsel/filter-argument.svg | 118 mlr-2.18.0/mlr/tests/testthat/Rplots.pdf |binary mlr-2.18.0/mlr/tests/testthat/helper_learners_all.R | 474 - mlr-2.18.0/mlr/tests/testthat/test_base_TuneWrapper.R | 252 - mlr-2.18.0/mlr/tests/testthat/test_base_batchmark.R | 654 +- mlr-2.18.0/mlr/tests/testthat/test_base_benchmark.R | 760 +-- mlr-2.18.0/mlr/tests/testthat/test_base_blocking.R | 72 mlr-2.18.0/mlr/tests/testthat/test_base_calculateConfusionMatrix.R | 248 - mlr-2.18.0/mlr/tests/testthat/test_base_calculateROCMeasures.R | 52 mlr-2.18.0/mlr/tests/testthat/test_base_chains.R | 62 mlr-2.18.0/mlr/tests/testthat/test_base_clustering.R | 240 mlr-2.18.0/mlr/tests/testthat/test_base_convertMLBenchObjToTask.R | 50 mlr-2.18.0/mlr/tests/testthat/test_base_fda.R | 1 mlr-2.18.0/mlr/tests/testthat/test_base_fda_extractFDAFeaturesMethods.R | 434 - mlr-2.18.0/mlr/tests/testthat/test_base_generateThreshVsPerf.R | 268 - mlr-2.18.0/mlr/tests/testthat/test_base_hyperpars.R | 268 - mlr-2.18.0/mlr/tests/testthat/test_base_imbal_smote.R | 212 mlr-2.18.0/mlr/tests/testthat/test_base_impute.R | 444 - mlr-2.18.0/mlr/tests/testthat/test_base_measures.R | 1994 ++++---- mlr-2.18.0/mlr/tests/testthat/test_base_normalizeFeatures.R | 56 mlr-2.18.0/mlr/tests/testthat/test_base_plotLearnerPrediction.R | 78 mlr-2.18.0/mlr/tests/testthat/test_base_removeConstantFeatures.R | 96 mlr-2.18.0/mlr/tests/testthat/test_base_resample.R | 414 - mlr-2.18.0/mlr/tests/testthat/test_base_resample_getResamplingIndices.R | 148 mlr-2.18.0/mlr/tests/testthat/test_base_resample_stratify.R | 218 mlr-2.18.0/mlr/tests/testthat/test_classif_boost.R | 102 mlr-2.18.0/mlr/tests/testthat/test_classif_lssvm.R | 98 mlr-2.18.0/mlr/tests/testthat/test_classif_nnet.R | 94 mlr-2.18.0/mlr/tests/testthat/test_classif_plsdaCaret.R | 144 mlr-2.18.0/mlr/tests/testthat/test_classif_randomForestSRC.R | 64 mlr-2.18.0/mlr/tests/testthat/test_cluster_XMeans.R | 56 mlr-2.18.0/mlr/tests/testthat/test_featsel_FeatSelWrapper.R | 90 mlr-2.18.0/mlr/tests/testthat/test_featsel_FilterWrapper.R | 156 mlr-2.18.0/mlr/tests/testthat/test_featsel_analyzeFeatSelResult.R | 44 mlr-2.18.0/mlr/tests/testthat/test_featsel_filters.R | 360 - mlr-2.18.0/mlr/tests/testthat/test_featsel_fselectorrcpp.R | 60 mlr-2.18.0/mlr/tests/testthat/test_featsel_generateFilterValuesData.R | 372 - mlr-2.18.0/mlr/tests/testthat/test_featsel_plotFilterValues.R | 80 mlr-2.18.0/mlr/tests/testthat/test_featsel_praznik.R | 158 mlr-2.18.0/mlr/tests/testthat/test_featsel_rankSimpleFilters.R | 44 mlr-2.18.0/mlr/tests/testthat/test_featsel_selectFeatures.R | 210 mlr-2.18.0/mlr/tests/testthat/test_featsel_selectFeaturesSequential.R | 40 mlr-2.18.0/mlr/tests/testthat/test_learners_all_classif.R | 32 mlr-2.18.0/mlr/tests/testthat/test_learners_all_clusters.R | 76 mlr-2.18.0/mlr/tests/testthat/test_learners_all_regr.R | 180 mlr-2.18.0/mlr/tests/testthat/test_learners_classiflabelswitch.R | 188 mlr-2.18.0/mlr/tests/testthat/test_multilabel_randomForestSRC.R | 80 mlr-2.18.0/mlr/tests/testthat/test_regr_FDboost.R | 9 mlr-2.18.0/mlr/tests/testthat/test_regr_bartMachine.R | 8 mlr-2.18.0/mlr/tests/testthat/test_regr_xgboost.R | 4 mlr-2.18.0/mlr/tests/testthat/test_tune_ModelMultiplexer.R | 432 - mlr-2.18.0/mlr/tests/testthat/test_tune_tuneIrace.R | 421 - mlr-2.18.0/mlr/tests/testthat/test_tune_tuneThreshold.R | 91 138 files changed, 14784 insertions(+), 14514 deletions(-)
Title: Flexible Regression Models for Survival Data
Description: Programs for Martinussen and Scheike (2006), `Dynamic Regression
Models for Survival Data', Springer Verlag. Plus more recent developments.
Additive survival model, semiparametric proportional odds model, fast
cumulative residuals, excess risk models and more. Flexible competing risks
regression including GOF-tests. Two-stage frailty modelling. PLS for the
additive risk model. Lasso in the 'ahaz' package.
Author: Thomas Scheike with contributions from Torben Martinussen, Jeremy
Silver and Klaus Holst
Maintainer: Thomas Scheike <ts@biostat.ku.dk>
Diff between timereg versions 1.9.7 dated 2020-08-24 and 1.9.8 dated 2020-10-05
DESCRIPTION | 8 +-- MD5 | 94 +++++++++++++++++++++++----------------------- R/Gprop-odds.r | 4 - R/aalen-des.r | 4 - R/additive-compSs.r | 4 - R/base.r | 4 - R/comprisk.ipw.r | 2 R/comprisk.r | 4 - R/cox.ipw.r | 2 R/cox.marg.r | 2 R/ipcw-residualmean.r | 4 - R/mgresid.r | 2 R/new.aalen.r | 4 - R/new.cox-aalen.r | 4 - R/new.dynreg.r | 8 +-- R/new.pe-sasieni.r | 4 - R/new.prop-excess.r | 4 - R/predict-timereg.r | 6 +- R/prop-odds-subdist.r | 6 +- R/prop-odds.r | 6 +- R/two-stage-reg.r | 2 man/Gprop.odds.Rd | 18 ++++++-- man/aalen.Rd | 26 ++++++++++-- man/comp.risk.Rd | 43 ++++++++++++++++----- man/cox.aalen.Rd | 37 ++++++++++++++---- man/cox.ipw.Rd | 10 +++- man/cum.residuals.Rd | 13 ++++-- man/dynreg.Rd | 17 ++++++-- man/event.split.Rd | 14 +++++- man/pe.sasieni.Rd | 14 +++++- man/plot.aalen.Rd | 23 ++++++++--- man/plot.cum.residuals.Rd | 25 +++++++++--- man/plot.dynreg.Rd | 23 ++++++++--- man/predict.timereg.Rd | 16 ++++++- man/prep.comp.risk.Rd | 19 +++++++-- man/prop.excess.Rd | 13 ++++-- man/prop.odds.Rd | 23 ++++++++--- man/prop.odds.subdist.Rd | 28 ++++++++++--- man/rchaz.Rd | 11 ++++- man/rcrisk.Rd | 3 - man/res.mean.Rd | 33 ++++++++++++---- man/sim.cause.cox.Rd | 3 - man/sim.cif.Rd | 13 +++++- man/sim.cox.Rd | 3 - man/simsubdist.Rd | 11 ++++- man/timecox.Rd | 25 +++++++++--- man/two.stage.Rd | 21 ++++++++-- man/wald.test.Rd | 14 +++++- 48 files changed, 481 insertions(+), 196 deletions(-)
Title: Efficient Changing of Date-Times
Description: Efficient routines for manipulation of date-time objects while
accounting for time-zones and daylight saving times. The package includes
utilities for updating of date-time components (year, month, day etc.),
modification of time-zones, rounding of date-times, period addition and
subtraction etc. Parts of the 'CCTZ' source code, released under the Apache
2.0 License, are included in this package. See
<https://github.com/google/cctz> for more details.
Author: Vitalie Spinu [aut, cre],
Google Inc. [ctb, cph]
Maintainer: Vitalie Spinu <spinuvit@gmail.com>
Diff between timechange versions 0.0.1 dated 2018-04-26 and 0.0.2 dated 2020-10-05
timechange-0.0.1/timechange/src/cctz/include |only timechange-0.0.2/timechange/DESCRIPTION | 8 timechange-0.0.2/timechange/MD5 | 89 - timechange-0.0.2/timechange/NAMESPACE | 1 timechange-0.0.2/timechange/NEWS.md | 14 timechange-0.0.2/timechange/R/RcppExports.R | 4 timechange-0.0.2/timechange/R/addition.R | 2 timechange-0.0.2/timechange/R/get.R |only timechange-0.0.2/timechange/R/round.R | 31 timechange-0.0.2/timechange/R/time-zones.R | 7 timechange-0.0.2/timechange/R/update.R | 32 timechange-0.0.2/timechange/R/utils.R | 8 timechange-0.0.2/timechange/README.md | 7 timechange-0.0.2/timechange/man/time-zones.Rd | 4 timechange-0.0.2/timechange/man/time_add.Rd | 46 timechange-0.0.2/timechange/man/time_get.Rd |only timechange-0.0.2/timechange/man/time_round.Rd | 65 - timechange-0.0.2/timechange/man/time_update.Rd | 48 timechange-0.0.2/timechange/src/Makevars | 3 timechange-0.0.2/timechange/src/RcppExports.cpp | 20 timechange-0.0.2/timechange/src/cctz/civil_time.h |only timechange-0.0.2/timechange/src/cctz/civil_time_detail.h |only timechange-0.0.2/timechange/src/cctz/src/time_zone_fixed.cc | 99 - timechange-0.0.2/timechange/src/cctz/src/time_zone_fixed.h | 10 timechange-0.0.2/timechange/src/cctz/src/time_zone_if.cc | 5 timechange-0.0.2/timechange/src/cctz/src/time_zone_if.h | 36 timechange-0.0.2/timechange/src/cctz/src/time_zone_impl.cc | 70 - timechange-0.0.2/timechange/src/cctz/src/time_zone_impl.h | 49 timechange-0.0.2/timechange/src/cctz/src/time_zone_info.cc | 591 +++++----- timechange-0.0.2/timechange/src/cctz/src/time_zone_info.h | 39 timechange-0.0.2/timechange/src/cctz/src/time_zone_libc.cc | 316 +++-- timechange-0.0.2/timechange/src/cctz/src/time_zone_libc.h | 11 timechange-0.0.2/timechange/src/cctz/src/time_zone_lookup.cc | 104 + timechange-0.0.2/timechange/src/cctz/src/time_zone_lookup_test.cc | 533 ++++++--- timechange-0.0.2/timechange/src/cctz/src/time_zone_posix.cc | 12 timechange-0.0.2/timechange/src/cctz/src/time_zone_posix.h | 42 timechange-0.0.2/timechange/src/cctz/src/tzfile.h | 26 timechange-0.0.2/timechange/src/cctz/src/zone_info_source.cc |only timechange-0.0.2/timechange/src/cctz/time_zone.h |only timechange-0.0.2/timechange/src/cctz/zone_info_source.h |only timechange-0.0.2/timechange/src/common.h | 2 timechange-0.0.2/timechange/src/get.cpp |only timechange-0.0.2/timechange/src/round.cpp | 18 timechange-0.0.2/timechange/src/tzone.h | 2 timechange-0.0.2/timechange/src/update.cpp | 39 timechange-0.0.2/timechange/tests/testthat/test-addition.R | 12 timechange-0.0.2/timechange/tests/testthat/test-get.R |only timechange-0.0.2/timechange/tests/testthat/test-time-zones.R | 4 timechange-0.0.2/timechange/tests/testthat/test-update.R | 346 +++-- 49 files changed, 1711 insertions(+), 1044 deletions(-)
Title: Shiny Matrix Input Field
Description: Implements a custom matrix input field.
Author: Andreas Neudecker
Maintainer: Andreas Neudecker <andreas.neudecker@inwt-statistics.de>
Diff between shinyMatrix versions 0.3.0 dated 2019-11-21 and 0.4.0 dated 2020-10-05
DESCRIPTION | 8 LICENSE | 4 MD5 | 68 - NAMESPACE | 19 R/00-Namespace.R | 4 R/jsonToMatrix.R | 60 - R/matrixInput.R | 205 ++- R/startApplication.R | 40 R/zzz.R | 38 README.md | 287 +++-- inst/app/server.R | 10 inst/app/ui.R | 51 inst/appCopy/server.R | 8 inst/appCopy/ui.R | 48 inst/appCustom/server.R | 10 inst/appCustom/ui.R | 64 - inst/appCustom/www/custom.js | 292 +++-- inst/appEmpty/server.R | 30 inst/appEmpty/ui.R | 108 +- inst/appExtend/server.R | 10 inst/appExtend/ui.R | 60 - inst/appExtendNoNames/server.R | 10 inst/appExtendNoNames/ui.R | 52 inst/appModal |only inst/appRownames/server.R | 10 inst/appRownames/ui.R | 50 inst/appUpdate/server.R | 40 inst/appUpdate/ui.R | 68 - inst/www/matrixInput.css | 66 - inst/www/matrixInput.js | 1941 +++++++++++++++++++------------------ man/matrixInput.Rd | 137 +- man/startApplication.Rd | 44 man/updateMatrixInput.Rd | 50 tests/testthat.R | 8 tests/testthat/test-jsonToMatrix.R | 164 +-- 35 files changed, 2124 insertions(+), 1940 deletions(-)
Title: Graphic Devices Based on AGG
Description: Anti-Grain Geometry (AGG) is a high-quality and high-performance
2D drawing library. The 'ragg' package provides a set of graphic devices
based on AGG to use as alternative to the raster devices provided through
the 'grDevices' package.
Author: Thomas Lin Pedersen [cre, aut]
(<https://orcid.org/0000-0002-5147-4711>),
Maxim Shemanarev [aut, cph] (Author of AGG),
Tony Juricic [ctb, cph] (Contributor to AGG),
Milan Marusinec [ctb, cph] (Contributor to AGG),
Spencer Garrett [ctb] (Contributor to AGG),
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@rstudio.com>
Diff between ragg versions 0.3.1 dated 2020-07-03 and 0.4.0 dated 2020-10-05
DESCRIPTION | 12 +-- MD5 | 26 +++--- NAMESPACE | 1 NEWS.md | 8 ++ R/agg_dev.R | 18 +++- R/ragg-package.R | 1 README.md | 14 +++ man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary src/AggDeviceCapture.h | 4 - src/agg/include/agg_font_freetype.h | 3 src/agg/src/agg_font_freetype.cpp | 11 +- src/ragg.h | 4 - src/text_renderer.h | 118 ++++++++++++++++++++----------- 14 files changed, 147 insertions(+), 73 deletions(-)
Title: Functions to Make Surveys Processing Easier
Description: Set of functions to make the processing and analysis of
surveys easier : interactive shiny apps and addins for data recoding,
contingency tables, dataset metadata handling, and several convenience
functions.
Author: Julien Barnier [aut, cre],
François Briatte [aut],
Joseph Larmarange [aut]
Maintainer: Julien Barnier <julien.barnier@cnrs.fr>
Diff between questionr versions 0.7.2 dated 2020-08-31 and 0.7.3 dated 2020-10-05
DESCRIPTION | 8 +- MD5 | 24 +++---- NEWS.md | 11 +++ R/icut.R | 12 ++- R/iorder.R | 16 +++-- R/irec.R | 130 ++++++------------------------------------ data/fecondite.RData |binary data/fertility.RData |binary data/happy.RData |binary data/hdv2003.RData |binary data/rp2012.RData |binary data/rp99.RData |binary inst/doc/recoding_addins.html | 4 - 13 files changed, 66 insertions(+), 139 deletions(-)
Title: Visualization using Graph Traversal
Description: Improving graphics by ameliorating order effects, using Eulerian tours and Hamiltonian decompositions of graphs.
Author: C.B. Hurley and R.W. Oldford
Maintainer: Catherine Hurley <catherine.hurley@mu.ie>
Diff between PairViz versions 1.3.3 dated 2020-10-04 and 1.3.4 dated 2020-10-05
DESCRIPTION | 12 MD5 | 28 - build/vignette.rds |binary inst/doc/MultipleComparisons.R | 61 ++- inst/doc/MultipleComparisons.Rmd | 3 inst/doc/MultipleComparisons.html | 580 +++++++++++++++++++------------------- inst/doc/PairVizIntroduction.R | 81 ++--- inst/doc/PairVizIntroduction.Rmd | 17 - inst/doc/PairVizIntroduction.html | 368 ++++++++++++------------ inst/doc/pcp.R | 76 ++-- inst/doc/pcp.Rmd | 10 inst/doc/pcp.html | 344 ++++++++++++---------- vignettes/MultipleComparisons.Rmd | 3 vignettes/PairVizIntroduction.Rmd | 17 - vignettes/pcp.Rmd | 10 15 files changed, 866 insertions(+), 744 deletions(-)
Title: Collection of Machine Learning Data Sets for 'mlr3'
Description: A small collection of interesting and educational
machine learning data sets which are used as examples in the 'mlr3'
book (<https://mlr3book.mlr-org.com>), the use case gallery
(<https://mlr3gallery.mlr-org.com>), or in other examples. All data
sets are properly preprocessed and ready to be analyzed by most
machine learning algorithms. Data sets are automatically added to the
dictionary of tasks if 'mlr3' is loaded.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3data versions 0.2.0 dated 2020-08-03 and 0.2.1 dated 2020-10-05
mlr3data-0.2.0/mlr3data/inst/references.bib |only mlr3data-0.2.1/mlr3data/DESCRIPTION | 14 +++++------- mlr3data-0.2.1/mlr3data/MD5 | 22 ++++++++++---------- mlr3data-0.2.1/mlr3data/NAMESPACE | 1 mlr3data-0.2.1/mlr3data/NEWS.md | 4 +++ mlr3data-0.2.1/mlr3data/R/bibentries.R |only mlr3data-0.2.1/mlr3data/R/helper.R | 26 ------------------------ mlr3data-0.2.1/mlr3data/R/penguins.R | 2 - mlr3data-0.2.1/mlr3data/README.md | 7 +++--- mlr3data-0.2.1/mlr3data/build/partial.rdb |binary mlr3data-0.2.1/mlr3data/inst/WORDLIST | 1 mlr3data-0.2.1/mlr3data/man/mlr3data-package.Rd | 6 +---- mlr3data-0.2.1/mlr3data/man/penguins.Rd | 5 +++- 13 files changed, 33 insertions(+), 55 deletions(-)
Title: Latin Hypercube Samples
Description: Provides a number of methods for creating and augmenting Latin Hypercube Samples and Orthogonal Array Latin Hypercube Samples.
Author: Rob Carnell [aut, cre]
Maintainer: Rob Carnell <bertcarnell@gmail.com>
Diff between lhs versions 1.1.0 dated 2020-09-29 and 1.1.1 dated 2020-10-05
ChangeLog | 3 + DESCRIPTION | 6 +- MD5 | 14 +++--- inst/doc/augment_lhs.html | 4 - inst/doc/lhs_basics.html | 4 - inst/doc/lhs_faq.html | 4 - src/construct.cpp | 2 src/lhs_r.cpp | 97 +++++++++++++++++++++++++++++++--------------- 8 files changed, 86 insertions(+), 48 deletions(-)
Title: Efficient Effect Size Computation
Description: A collection of functions to compute the standardized
effect sizes for experiments (Cohen d, Hedges g, Cliff delta, Vargha-Delaney A).
The computation algorithms have been optimized to allow efficient computation even
with very large data sets.
Author: Marco Torchiano [aut, cre]
Maintainer: Marco Torchiano <marco.torchiano@polito.it>
Diff between effsize versions 0.8.0 dated 2020-04-09 and 0.8.1 dated 2020-10-05
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/CliffDelta.R | 2 +- R/CohenD.R | 6 +++--- R/VD_A.R | 2 +- man/cliff.delta.Rd | 2 +- 6 files changed, 16 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-30 1.3.9
2020-06-02 1.3.8
2018-12-12 1.3.0
2018-06-28 1.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-10 0.1.2
Title: Supporting Graphs for Analysing Time Series
Description: Provides 'ggplot2' graphics for analysing time
series data. It aims to fit into the 'tidyverse' and grammar of
graphics framework for handling temporal data.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>),
Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>),
Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>)
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between sugrrants versions 0.2.7 dated 2020-04-18 and 0.2.8 dated 2020-10-05
DESCRIPTION | 10 - MD5 | 22 +-- NAMESPACE | 3 NEWS.md | 4 R/facet-calendar.R | 2 R/sugrrants-pkg.R | 2 README.md | 70 +++++------ build/vignette.rds |binary inst/CITATION | 6 - inst/doc/frame-calendar.html | 252 ++++++++++++++++++++++--------------------- man/facet-calendar.Rd | 4 man/reexports.Rd | 2 12 files changed, 198 insertions(+), 179 deletions(-)
Title: Read Rectangular Text Data
Description: The goal of 'readr' is to provide a fast and
friendly way to read rectangular data (like 'csv', 'tsv', and 'fwf').
It is designed to flexibly parse many types of data found in the wild,
while still cleanly failing when data unexpectedly changes.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Romain Francois [ctb],
R Core Team [ctb] (Date time code adapted from R),
RStudio [cph, fnd],
Jukka Jylänki [ctb, cph] (grisu3 implementation),
Mikkel Jørgensen [ctb, cph] (grisu3 implementation)
Maintainer: Jim Hester <james.hester@rstudio.com>
Diff between readr versions 1.3.1 dated 2018-12-21 and 1.4.0 dated 2020-10-05
readr-1.3.1/readr/R/RcppExports.R |only readr-1.3.1/readr/src/Makevars |only readr-1.3.1/readr/src/Makevars.win |only readr-1.3.1/readr/src/RcppExports.cpp |only readr-1.3.1/readr/src/install.libs.R |only readr-1.3.1/readr/src/rcon |only readr-1.4.0/readr/DESCRIPTION | 72 + readr-1.4.0/readr/MD5 | 300 +++---- readr-1.4.0/readr/NAMESPACE | 16 readr-1.4.0/readr/NEWS.md | 90 ++ readr-1.4.0/readr/R/col_types.R | 81 + readr-1.4.0/readr/R/collectors.R | 25 readr-1.4.0/readr/R/cpp11.R |only readr-1.4.0/readr/R/example.R | 8 readr-1.4.0/readr/R/file.R | 23 readr-1.4.0/readr/R/lines.R | 25 readr-1.4.0/readr/R/melt_delim.R | 6 readr-1.4.0/readr/R/melt_fwf.R | 6 readr-1.4.0/readr/R/melt_table.R | 8 readr-1.4.0/readr/R/rds.R | 27 readr-1.4.0/readr/R/read_builtin.R |only readr-1.4.0/readr/R/read_delim.R | 34 readr-1.4.0/readr/R/read_fwf.R | 6 readr-1.4.0/readr/R/read_lines_chunked.R | 2 readr-1.4.0/readr/R/read_table.R | 2 readr-1.4.0/readr/R/readr.R | 5 readr-1.4.0/readr/R/source.R | 101 +- readr-1.4.0/readr/R/tokenizer.R | 2 readr-1.4.0/readr/R/type_convert.R | 12 readr-1.4.0/readr/R/utils.R | 18 readr-1.4.0/readr/R/write.R | 253 +++--- readr-1.4.0/readr/R/zzz.R | 5 readr-1.4.0/readr/README.md | 43 - readr-1.4.0/readr/build/readr.pdf |only readr-1.4.0/readr/build/vignette.rds |binary readr-1.4.0/readr/inst/WORDLIST | 79 + readr-1.4.0/readr/inst/doc/locales.R | 40 readr-1.4.0/readr/inst/doc/locales.Rmd | 19 readr-1.4.0/readr/inst/doc/locales.html | 404 +++++---- readr-1.4.0/readr/inst/doc/readr.R | 36 readr-1.4.0/readr/inst/doc/readr.Rmd | 67 - readr-1.4.0/readr/inst/doc/readr.html | 449 ++++++----- readr-1.4.0/readr/man/Tokenizers.Rd | 54 - readr-1.4.0/readr/man/callback.Rd | 361 ++++++++ readr-1.4.0/readr/man/col_skip.Rd | 14 readr-1.4.0/readr/man/cols.Rd | 16 readr-1.4.0/readr/man/count_fields.Rd | 4 readr-1.4.0/readr/man/datasource.Rd | 18 readr-1.4.0/readr/man/date_names.Rd | 3 readr-1.4.0/readr/man/encoding.Rd | 2 readr-1.4.0/readr/man/figures/lifecycle-deprecated.svg |only readr-1.4.0/readr/man/format_delim.Rd | 119 +- readr-1.4.0/readr/man/locale.Rd | 15 readr-1.4.0/readr/man/melt_delim.Rd | 101 +- readr-1.4.0/readr/man/melt_delim_chunked.Rd | 99 +- readr-1.4.0/readr/man/melt_fwf.Rd | 19 readr-1.4.0/readr/man/melt_table.Rd | 31 readr-1.4.0/readr/man/output_column.Rd | 5 readr-1.4.0/readr/man/parse_atomic.Rd | 30 readr-1.4.0/readr/man/parse_datetime.Rd | 86 +- readr-1.4.0/readr/man/parse_factor.Rd | 25 readr-1.4.0/readr/man/parse_guess.Rd | 30 readr-1.4.0/readr/man/parse_number.Rd | 32 readr-1.4.0/readr/man/parse_vector.Rd | 23 readr-1.4.0/readr/man/problems.Rd | 4 readr-1.4.0/readr/man/read_builtin.Rd |only readr-1.4.0/readr/man/read_delim.Rd | 144 ++- readr-1.4.0/readr/man/read_delim_chunked.Rd | 137 ++- readr-1.4.0/readr/man/read_file.Rd | 14 readr-1.4.0/readr/man/read_fwf.Rd | 58 + readr-1.4.0/readr/man/read_lines.Rd | 46 - readr-1.4.0/readr/man/read_lines_chunked.Rd | 34 readr-1.4.0/readr/man/read_log.Rd | 36 readr-1.4.0/readr/man/read_rds.Rd | 19 readr-1.4.0/readr/man/read_table.Rd | 62 + readr-1.4.0/readr/man/readr-package.Rd | 14 readr-1.4.0/readr/man/readr_example.Rd | 4 readr-1.4.0/readr/man/spec.Rd | 13 readr-1.4.0/readr/man/spec_delim.Rd | 166 ++-- readr-1.4.0/readr/man/tokenize.Rd | 8 readr-1.4.0/readr/man/type_convert.Rd | 14 readr-1.4.0/readr/man/write_delim.Rd | 178 ++-- readr-1.4.0/readr/src/Collector.cpp | 76 - readr-1.4.0/readr/src/Collector.h | 90 +- readr-1.4.0/readr/src/CollectorGuess.cpp | 16 readr-1.4.0/readr/src/DateTime.h | 16 readr-1.4.0/readr/src/DateTimeParser.h | 54 + readr-1.4.0/readr/src/Iconv.cpp | 19 readr-1.4.0/readr/src/Iconv.h | 3 readr-1.4.0/readr/src/LocaleInfo.cpp | 39 readr-1.4.0/readr/src/LocaleInfo.h | 6 readr-1.4.0/readr/src/Progress.h | 22 readr-1.4.0/readr/src/Reader.cpp | 58 - readr-1.4.0/readr/src/Reader.h | 32 readr-1.4.0/readr/src/Source.cpp | 41 - readr-1.4.0/readr/src/Source.h | 13 readr-1.4.0/readr/src/SourceFile.h | 10 readr-1.4.0/readr/src/SourceRaw.h | 11 readr-1.4.0/readr/src/SourceString.h | 14 readr-1.4.0/readr/src/Token.h | 5 readr-1.4.0/readr/src/Tokenizer.cpp | 55 - readr-1.4.0/readr/src/Tokenizer.h | 11 readr-1.4.0/readr/src/TokenizerDelim.cpp | 8 readr-1.4.0/readr/src/TokenizerDelim.h | 2 readr-1.4.0/readr/src/TokenizerFwf.cpp | 51 - readr-1.4.0/readr/src/TokenizerFwf.h | 1 readr-1.4.0/readr/src/TokenizerLine.h | 8 readr-1.4.0/readr/src/TokenizerLog.h | 5 readr-1.4.0/readr/src/TokenizerWs.cpp | 9 readr-1.4.0/readr/src/TokenizerWs.h | 1 readr-1.4.0/readr/src/Warnings.h | 27 readr-1.4.0/readr/src/connection.cpp | 23 readr-1.4.0/readr/src/connection.h |only readr-1.4.0/readr/src/cpp11.cpp |only readr-1.4.0/readr/src/datetime.cpp | 28 readr-1.4.0/readr/src/localtime.h | 4 readr-1.4.0/readr/src/parse.cpp | 70 + readr-1.4.0/readr/src/read.cpp | 171 ++-- readr-1.4.0/readr/src/type_convert.cpp | 16 readr-1.4.0/readr/src/write.cpp | 40 readr-1.4.0/readr/src/write_connection.cpp | 7 readr-1.4.0/readr/src/write_connection.h | 3 readr-1.4.0/readr/src/write_delim.cpp | 74 + readr-1.4.0/readr/tests/testthat/test-col-spec.R | 25 readr-1.4.0/readr/tests/testthat/test-collectors.R | 2 readr-1.4.0/readr/tests/testthat/test-encoding.R | 7 readr-1.4.0/readr/tests/testthat/test-eol.R | 2 readr-1.4.0/readr/tests/testthat/test-locale.R | 2 readr-1.4.0/readr/tests/testthat/test-melt-chunked.R | 32 readr-1.4.0/readr/tests/testthat/test-melt-csv.R | 354 ++++---- readr-1.4.0/readr/tests/testthat/test-melt-fwf.R | 10 readr-1.4.0/readr/tests/testthat/test-melt-table.R | 10 readr-1.4.0/readr/tests/testthat/test-parsing-character.R | 2 readr-1.4.0/readr/tests/testthat/test-parsing-count-fields.R | 2 readr-1.4.0/readr/tests/testthat/test-parsing-datetime.R | 31 readr-1.4.0/readr/tests/testthat/test-parsing-factors.R | 8 readr-1.4.0/readr/tests/testthat/test-parsing-logical.R | 5 readr-1.4.0/readr/tests/testthat/test-parsing-numeric.R | 1 readr-1.4.0/readr/tests/testthat/test-parsing-time.R | 17 readr-1.4.0/readr/tests/testthat/test-parsing.R | 2 readr-1.4.0/readr/tests/testthat/test-problems.R | 9 readr-1.4.0/readr/tests/testthat/test-read-builtin.R |only readr-1.4.0/readr/tests/testthat/test-read-chunked.R | 2 readr-1.4.0/readr/tests/testthat/test-read-csv.R | 24 readr-1.4.0/readr/tests/testthat/test-read-file.R | 6 readr-1.4.0/readr/tests/testthat/test-read-fwf.R | 26 readr-1.4.0/readr/tests/testthat/test-read-lines.R | 34 readr-1.4.0/readr/tests/testthat/test-read-table.R | 8 readr-1.4.0/readr/tests/testthat/test-source.R | 2 readr-1.4.0/readr/tests/testthat/test-tokenizer-delim.R | 3 readr-1.4.0/readr/tests/testthat/test-type-convert.R | 17 readr-1.4.0/readr/tests/testthat/test-write-lines.R | 3 readr-1.4.0/readr/tests/testthat/test-write.R | 113 ++ readr-1.4.0/readr/tests/testthat/test_list_col_name.csv |only readr-1.4.0/readr/vignettes/locales.Rmd | 19 readr-1.4.0/readr/vignettes/readr.Rmd | 67 - readr-1.4.0/readr/vignettes/releases/readr-0.1.0.Rmd | 2 readr-1.4.0/readr/vignettes/releases/readr-0.2.0.Rmd | 8 158 files changed, 4114 insertions(+), 2182 deletions(-)
Title: Convert Between Bibliography Formats
Description: Converts between a number of bibliography formats,
including 'BibTeX', 'BibLaTeX' and 'Bibentry'. Includes a port of the
'bibutils' utilities by Chris Putnam
<https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] (R port, modifications to bibutils' C
code),
Chris Putman [aut] (src/*, author of the bibutils libraries,
https://sourceforge.net/projects/bibutils/),
Richard Mathar [ctb] (src/addsout.c),
Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c)
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 1.1.0 dated 2020-09-27 and 1.3 dated 2020-10-05
rbibutils-1.1.0/rbibutils/README.md |only rbibutils-1.3/rbibutils/DESCRIPTION | 8 +- rbibutils-1.3/rbibutils/MD5 | 18 +++--- rbibutils-1.3/rbibutils/NAMESPACE | 3 - rbibutils-1.3/rbibutils/NEWS.md | 28 +++++++++- rbibutils-1.3/rbibutils/R/convert.R | 14 +++++ rbibutils-1.3/rbibutils/R/xml.R | 72 ++++++++++++++++++++++--- rbibutils-1.3/rbibutils/build/partial.rdb |binary rbibutils-1.3/rbibutils/man/readBib.Rd |only rbibutils-1.3/rbibutils/src/bibtexin.c | 84 ++++++++++++++++++++++++------ rbibutils-1.3/rbibutils/src/unicode.c | 41 ++++++++++++++ 11 files changed, 226 insertions(+), 42 deletions(-)
Title: Penalized Elastic Net S/MM-Estimator of Regression
Description: Robust penalized (adaptive) elastic net S and M estimators for
linear regression. The methods are proposed in
Cohen Freue, G. V., Kepplinger, D., Salibián-Barrera, M., and Smucler, E.
(2019) <https://projecteuclid.org/euclid.aoas/1574910036>.
The package implements the extensions and algorithms described in
Kepplinger, D. (2020) <doi:10.14288/1.0392915>.
Author: David Kepplinger [aut, cre],
Matías Salibián-Barrera [aut],
Gabriela Cohen Freue [aut]
Maintainer: David Kepplinger <david.kepplinger@gmail.com>
Diff between pense versions 2.0.1 dated 2020-09-14 and 2.0.2 dated 2020-10-05
DESCRIPTION | 11 +-- MD5 | 101 +++++++++++++++++++++++--------- NEWS.md | 2 R/deprecated-functions.R | 47 ++++++++++++-- R/elnet.R | 35 ++++++----- R/enpy.R | 2 R/pense_regression.R | 46 ++++++++------ R/pensem_regression.R | 9 ++ R/plot-methods.R | 1 R/regmest_regression.R | 36 ++++++----- R/utilities-internal.R | 60 ++++++++++++++++--- R/utilities.R | 5 + build/partial.rdb |binary build/pense.pdf |binary build/vignette.rds |only inst/doc |only man/deprecated_en_options.Rd | 9 ++ man/elnet.Rd | 3 man/elnet_cv.Rd | 19 ++++-- man/enpy.Rd | 9 ++ man/initest_options.Rd | 9 ++ man/mstep_options.Rd | 11 ++- man/pense.Rd | 7 +- man/pense_cv.Rd | 17 ++++- man/pense_options.Rd | 9 ++ man/pensem.Rd | 2 man/pensem_cv.Rd | 21 +++++- man/regmest.Rd | 3 man/regmest_cv.Rd | 15 +++- tests/testthat/test_discrete_response.R |only tests/testthat/test_parallel_clusters.R | 4 - vignettes |only 32 files changed, 370 insertions(+), 123 deletions(-)
Title: Miscellaneous Functions for Data Cleaning and Analysis
Description: Provides functions needed for data cleaning and
formatting and forms data cleaning and wrangling backend for the
following packages: 'broomExtra', 'ggstatsplot', 'groupedstats',
'pairwiseComparisons', 'statsExpressions', and 'tidyBF'.
Author: Indrajeet Patil [aut, cre, cph]
(<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ipmisc versions 3.2.0 dated 2020-09-13 and 4.0.0 dated 2020-10-05
ipmisc-3.2.0/ipmisc/R/p_value_formatter.R |only ipmisc-3.2.0/ipmisc/man/p_value_formatter.Rd |only ipmisc-3.2.0/ipmisc/tests/testthat/test-p_value_formatter.R |only ipmisc-4.0.0/ipmisc/DESCRIPTION | 6 +-- ipmisc-4.0.0/ipmisc/MD5 | 19 +++++------- ipmisc-4.0.0/ipmisc/NAMESPACE | 2 - ipmisc-4.0.0/ipmisc/NEWS.md | 10 +++++- ipmisc-4.0.0/ipmisc/R/easystats_to_tidy_names.R | 2 + ipmisc-4.0.0/ipmisc/R/specify_decimal_p.R | 8 ++--- ipmisc-4.0.0/ipmisc/README.md | 13 +++++--- ipmisc-4.0.0/ipmisc/man/specify_decimal_p.Rd | 6 +-- ipmisc-4.0.0/ipmisc/tests/testthat/test-specify_decimal_p.R | 6 +-- 12 files changed, 38 insertions(+), 34 deletions(-)
Title: Health-Economic Simulation Modeling and Decision Analysis
Description: A modular and computationally efficient R package for
parameterizing, simulating, and analyzing health-economic simulation
models. The package supports cohort discrete time state transition models
(Briggs et al. 1998) <doi:10.2165/00019053-199813040-00003>,
N-state partitioned survival models (Glasziou et al. 1990)
<doi:10.1002/sim.4780091106>, and individual-level continuous
time state transition models (Siebert et al. 2012) <doi:10.1016/j.jval.2012.06.014>,
encompassing both Markov (time-homogeneous and time-inhomogeneous) and
semi-Markov processes. Decision uncertainty from a cost-effectiveness analysis is
quantified with standard graphical and tabular summaries of a probabilistic
sensitivity analysis (Claxton et al. 2005, Barton et al. 2008) <doi:10.1002/hec.985>,
<doi:10.1111/j.1524-4733.2008.00358.x>. Use of C++ and data.table
make individual-patient simulation, probabilistic sensitivity analysis,
and incorporation of patient heterogeneity fast.
Author: Devin Incerti [aut, cre],
Jeroen P. Jansen [aut],
R Core Team [ctb] (hesim uses some slightly modified C functions from
base R)
Maintainer: Devin Incerti <devin.incerti@gmail.com>
Diff between hesim versions 0.4.0 dated 2020-09-29 and 0.4.1 dated 2020-10-05
DESCRIPTION | 8 +++---- MD5 | 34 +++++++++++++++--------------- R/model_def.R | 30 +++++++++++++------------- inst/doc/cea.html | 4 +-- inst/doc/expected-values.html | 4 +-- inst/doc/intro.html | 4 +-- inst/doc/markov-cohort.html | 4 +-- inst/doc/markov-inhomogeneous-cohort.html | 18 +++++++-------- inst/doc/markov-inhomogeneous-indiv.R | 4 +-- inst/doc/markov-inhomogeneous-indiv.Rmd | 4 +-- inst/doc/markov-inhomogeneous-indiv.html | 10 ++++---- inst/doc/mlogit.html | 4 +-- inst/doc/mstate.html | 4 +-- inst/doc/psm.html | 4 +-- inst/include/hesim/stats/distributions.h | 8 +++---- man/tpmatrix.Rd | 22 +++++++++---------- man/tpmatrix_id.Rd | 2 - vignettes/markov-inhomogeneous-indiv.Rmd | 4 +-- 18 files changed, 86 insertions(+), 86 deletions(-)
Title: Optimal Bayesian Experimental Design using the ACE Algorithm
Description: Optimal Bayesian experimental design using the approximate coordinate exchange (ACE) algorithm. See <doi:10.18637/jss.v095.i13>.
Author: Antony M. Overstall, David C. Woods, Maria Adamou & Damianos Michaelides
Maintainer: Antony M. Overstall <A.M.Overstall@soton.ac.uk>
Diff between acebayes versions 1.9 dated 2020-02-21 and 1.10 dated 2020-10-05
acebayes-1.10/acebayes/DESCRIPTION | 12 +++++------- acebayes-1.10/acebayes/MD5 | 11 ++++------- acebayes-1.10/acebayes/R/sysdata.rda |binary acebayes-1.10/acebayes/inst/CITATION |only acebayes-1.10/acebayes/man/acebayes-package.Rd | 15 +++++++++------ acebayes-1.9/acebayes/build |only acebayes-1.9/acebayes/inst/doc |only acebayes-1.9/acebayes/vignettes |only 8 files changed, 18 insertions(+), 20 deletions(-)
Title: Quick Serialization of R Objects
Description: Provides functions for quickly writing and reading any R object to and from disk.
Author: Travers Ching [aut, cre, cph],
Yann Collet [ctb, cph] (Yann Collet is the author of the bundled zstd,
lz4 and xxHash code),
Facebook, Inc. [cph] (Facebook is the copyright holder of the bundled
zstd code),
Reichardt Tino [ctb, cph] (Contributor/copyright holder of zstd bundled
code),
Skibinski Przemyslaw [ctb, cph] (Contributor/copyright holder of zstd
bundled code),
Mori Yuta [ctb, cph] (Contributor/copyright holder of zstd bundled
code),
Romain Francois [ctb, cph] (Derived example/tutorials for ALTREP
structures),
Francesc Alted [ctb, cph] (Shuffling routines derived from Blosc
library),
Bryce Chamberlain [ctb] (qsame, qload function contributor)
Maintainer: Travers Ching <traversc@gmail.com>
Diff between qs versions 0.23.2 dated 2020-07-16 and 0.23.3 dated 2020-10-05
ChangeLog | 3 +++ DESCRIPTION | 14 +++++++------- MD5 | 20 ++++++++++---------- inst/doc/vignette.html | 4 ++-- inst/doc/vignette.rmd | 2 +- src/qs_common.h | 1 + src/qs_deserialization.h | 3 +++ src/qs_deserialize_common.h | 39 +++++++++++++++++++++++++++++++++++++++ src/qs_mt_deserialization.h | 1 + src/qs_serialize_common.h | 27 ++++++++++++++++----------- vignettes/vignette.rmd | 2 +- 11 files changed, 84 insertions(+), 32 deletions(-)
Title: Spectral Response Data for Light Sensors
Description: Spectral response data for broadband ultraviolet and visible
radiation sensors. Different data sources were used: author-supplied data
from scientific research papers, sensor-manufacturer supplied data, and
published sensor specifications. Part of the 'r4photobiology' suite
Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>)
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologySensors versions 0.4.0 dated 2018-02-26 and 0.5.0 dated 2020-10-05
photobiologySensors-0.4.0/photobiologySensors/R/on-load.r |only photobiologySensors-0.5.0/photobiologySensors/DESCRIPTION | 18 photobiologySensors-0.5.0/photobiologySensors/MD5 | 74 - photobiologySensors-0.5.0/photobiologySensors/NEWS | 27 photobiologySensors-0.5.0/photobiologySensors/R/deltat-sensors.r | 2 photobiologySensors-0.5.0/photobiologySensors/R/diffusers-lst.r |only photobiologySensors-0.5.0/photobiologySensors/R/ideal-sensors.r | 8 photobiologySensors-0.5.0/photobiologySensors/R/kipp-sensors.r | 2 photobiologySensors-0.5.0/photobiologySensors/R/licor-sensors.r | 4 photobiologySensors-0.5.0/photobiologySensors/R/photobiologysensors.r | 16 photobiologySensors-0.5.0/photobiologySensors/R/sglux-sensors.r | 10 photobiologySensors-0.5.0/photobiologySensors/R/skye-sensors.r | 6 photobiologySensors-0.5.0/photobiologySensors/R/solarlight-sensors.r | 8 photobiologySensors-0.5.0/photobiologySensors/R/solarmeter-sensors.r | 8 photobiologySensors-0.5.0/photobiologySensors/R/thiesclima-sensors.r | 6 photobiologySensors-0.5.0/photobiologySensors/R/vitaltech-sensors.r | 4 photobiologySensors-0.5.0/photobiologySensors/R/wavebands.r | 2 photobiologySensors-0.5.0/photobiologySensors/README.md | 227 +++ photobiologySensors-0.5.0/photobiologySensors/build/vignette.rds |binary photobiologySensors-0.5.0/photobiologySensors/data/diffusers-lst.rda |only photobiologySensors-0.5.0/photobiologySensors/data/sensors.mspct.rda |binary photobiologySensors-0.5.0/photobiologySensors/inst/doc/user-guide.R | 70 - photobiologySensors-0.5.0/photobiologySensors/inst/doc/user-guide.Rmd | 54 photobiologySensors-0.5.0/photobiologySensors/inst/doc/user-guide.html | 694 +++++++--- photobiologySensors-0.5.0/photobiologySensors/man/berger_sensors.Rd | 4 photobiologySensors-0.5.0/photobiologySensors/man/deltat_sensors.Rd | 6 photobiologySensors-0.5.0/photobiologySensors/man/diffusers.lst.Rd |only photobiologySensors-0.5.0/photobiologySensors/man/ideal_sensors.Rd | 8 photobiologySensors-0.5.0/photobiologySensors/man/kipp_sensors.Rd | 6 photobiologySensors-0.5.0/photobiologySensors/man/licor_sensors.Rd | 8 photobiologySensors-0.5.0/photobiologySensors/man/photobiologySensors-package.Rd | 27 photobiologySensors-0.5.0/photobiologySensors/man/sensors.mspct.Rd | 6 photobiologySensors-0.5.0/photobiologySensors/man/sglux_sensors.Rd | 12 photobiologySensors-0.5.0/photobiologySensors/man/skye_sensors.Rd | 8 photobiologySensors-0.5.0/photobiologySensors/man/solarlight_sensors.Rd | 10 photobiologySensors-0.5.0/photobiologySensors/man/solarmeter_sensors.Rd | 10 photobiologySensors-0.5.0/photobiologySensors/man/thiesclima_sensors.Rd | 8 photobiologySensors-0.5.0/photobiologySensors/man/uv_sensors.Rd | 32 photobiologySensors-0.5.0/photobiologySensors/man/vitaltech_sensors.Rd | 6 photobiologySensors-0.5.0/photobiologySensors/vignettes/user-guide.Rmd | 54 40 files changed, 1096 insertions(+), 349 deletions(-)
More information about photobiologySensors at CRAN
Permanent link
Title: Spectral Transmittance and Spectral Reflectance Data
Description: Spectral 'transmittance' data for frequently used filters and
similar materials. Plastic sheets and films; photography filters;
theatrical gels; machine-vision filters; various types of window glass;
optical glass and some laboratory plastics and glassware. Spectral
reflectance data for frequently encountered materials. Part of the
'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Titta K. Kotilainen [ctb] (Contributed data),
Tania de la Rosa [ctb] (Contributed data),
Riitta Tegelberg [ctb] (Contributed data),
Andreas Albert [ctb] (Contributed data),
SCHOTT AG [ctb] (Contributed data),
Midwest Optical Systems, Inc. (MidOpt) [ctb] (Contributed data)
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyFilters versions 0.5.1 dated 2020-04-30 and 0.5.2 dated 2020-10-05
DESCRIPTION | 21 - MD5 | 46 ++-- NEWS | 8 R/bpi-visqueen.r | 2 R/materials-mspct.r |only R/metals-mspct.r |only R/midopt.r | 2 R/petri.dishes.r | 5 R/photobiologyFilters.R | 33 ++ R/refractive-index-mspct.r | 4 README.md | 104 +++++---- build/vignette.rds |binary data/filters-mspct.rda |binary data/materials-mspct.rda |only data/metals-mspct.rda |only data/refractive-index.rda |binary inst/doc/user-guide.R | 71 ++++++ inst/doc/user-guide.Rmd | 274 ++++++++++++++++++------ inst/doc/user-guide.html | 417 +++++++++++++++++++++++++++---------- man/bpi_visqueen_filters.Rd | 2 man/materials.mspct.Rd |only man/metals.mspct.Rd |only man/midopt_filters.Rd | 2 man/petri_dishes.Rd | 5 man/photobiologyFilters-package.Rd | 38 ++- man/refractive_index.mspct.Rd | 4 vignettes/user-guide.Rmd | 274 ++++++++++++++++++------ 27 files changed, 980 insertions(+), 332 deletions(-)
More information about photobiologyFilters at CRAN
Permanent link
Title: Linguistic Typology and Mapping
Description: Provides R with the Glottolog database <https://glottolog.org/> and some more abilities for purposes of linguistic mapping. The Glottolog database contains the catalogue of languages of the world. This package helps researchers to make a linguistic maps, using philosophy of the Cross-Linguistic Linked Data project <https://clld.org/>, which allows for while at the same time facilitating uniform access to the data across publications. A tutorial for this package is available on GitHub pages <https://docs.ropensci.org/lingtypology/> and package vignette. Maps created by this package can be used both for the investigation and linguistic teaching. In addition, package provides an ability to download data from typological databases such as WALS, AUTOTYP and some others and to create your own database website.
Author: George Moroz [aut, cre] (<https://orcid.org/0000-0003-1990-6083>)
Maintainer: George Moroz <agricolamz@gmail.com>
Diff between lingtypology versions 1.1.3 dated 2020-04-26 and 1.1.4 dated 2020-10-05
DESCRIPTION | 18 - MD5 | 110 +++---- NEWS | 8 R/abvd.feature.R | 2 R/afbo.feature.R | 6 R/atlas.database.R | 2 R/autotyp.R | 2 R/autotyp.feature.R | 3 R/glottolog.R | 10 R/map.feature.R | 349 ++++++++++++------------- R/oto_mangueanIC.R | 2 R/oto_mangueanIC.feature.R | 6 R/phoible.feature.R | 6 R/polygon.points_kde.R | 2 R/sails.feature.R | 6 R/uralex.R | 2 R/uralex.feature.R | 2 R/url.lang.R | 2 R/valpal.feature.R | 8 R/wals.R | 2 R/wals.feature.R | 8 build/vignette.rds |binary data/glottolog.RData |binary inst/doc/lingtypology_creating_maps.R | 2 inst/doc/lingtypology_creating_maps.Rmd | 10 inst/doc/lingtypology_creating_maps.html | 29 +- inst/doc/lingtypology_db_API.Rmd | 10 inst/doc/lingtypology_db_API.html | 30 +- inst/doc/lingtypology_dplyr.Rmd | 4 inst/doc/lingtypology_dplyr.html | 24 + inst/doc/lingtypology_glottolog_functions.Rmd | 4 inst/doc/lingtypology_glottolog_functions.html | 32 +- inst/doc/lingtypology_intro.Rmd | 2 inst/doc/lingtypology_intro.html | 22 + man/abvd.feature.Rd | 2 man/afbo.feature.Rd | 2 man/autotyp.Rd | 2 man/glottolog.Rd | 10 man/map.feature.Rd | 4 man/oto_mangueanIC.Rd | 2 man/oto_mangueanIC.feature.Rd | 2 man/phoible.feature.Rd | 2 man/polygon.points_kde.Rd | 2 man/sails.feature.Rd | 2 man/uralex.Rd | 2 man/uralex.feature.Rd | 2 man/valpal.feature.Rd | 2 man/wals.Rd | 2 man/wals.feature.Rd | 2 tests/testthat/test-aff-lang.R | 7 tests/testthat/test-mapfeature.R | 3 vignettes/lingtypology_creating_maps.Rmd | 10 vignettes/lingtypology_db_API.Rmd | 10 vignettes/lingtypology_dplyr.Rmd | 4 vignettes/lingtypology_glottolog_functions.Rmd | 4 vignettes/lingtypology_intro.Rmd | 2 56 files changed, 448 insertions(+), 357 deletions(-)
Title: High-Dimensional Penalized Regression
Description: Algorithms for lasso and fused-lasso problems: implementation of
the lars algorithm for lasso and fusion penalization and EM-based
algorithms for (logistic) lasso and fused-lasso penalization.
Author: Quentin Grimonprez [aut, cre],
Serge Iovleff [aut]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between HDPenReg versions 0.94.6 dated 2019-04-10 and 0.94.7 dated 2020-10-05
DESCRIPTION | 19 +-- MD5 | 58 ++++----- R/EM.R | 132 ++++++++++---------- R/HDPenReg-package.R | 35 ++--- R/LarsPath.R | 285 ++++++++++++++++++++++----------------------- R/cvEM.R | 228 +++++++++++++++++------------------- R/cvlars.R | 178 +++++++++++++--------------- R/lars.R | 112 ++++++++--------- R/predict.R | 228 +++++++++++++++++------------------- R/simulation.R | 153 ++++++++++++------------ build/vignette.rds |binary inst/doc/HDPenReg.R | 1 inst/doc/HDPenReg.pdf |binary man/EMcvfusedlasso.Rd | 26 ++-- man/EMcvlasso.Rd | 23 ++- man/EMfusedlasso.Rd | 19 ++- man/EMlasso.Rd | 18 ++ man/HDPenReg-package.Rd | 3 man/HDcvlars.Rd | 21 ++- man/HDfusion.Rd | 14 +- man/HDlars.Rd | 16 +- man/LarsPath-class.Rd | 4 man/coef.LarsPath.Rd | 8 - man/coeff.Rd | 5 man/computeCoefficients.Rd | 7 - man/plot-methods.Rd | 9 + man/plot.HDcvlars.Rd | 3 man/plotCoefficient.Rd | 10 - man/predict.LarsPath.Rd | 10 - man/simul.Rd | 5 30 files changed, 830 insertions(+), 800 deletions(-)
Title: Retrieve and Analyze Clinical Trials in Public Registers
Description: Provides functions for querying, retrieving and analysing
protocol- and results-related information on clinical trials from
two public registers, the European Union Clinical Trials Register
(EUCTR, <https://www.clinicaltrialsregister.eu/>) and
ClinicalTrials.gov (CTGOV, <https://clinicaltrials.gov/>). The
information is transformed and then stored in a database (nodbi).
Functions are provided for accessing and analysing the locally
stored information on the clinical trials, as well as for
identifying duplicate records. The package is motivated by the need
for aggregating and trend-analysing the design, conduct and outcomes
across clinical trials.
Author: Ralf Herold [aut, cre] (<https://orcid.org/0000-0002-8148-6748>)
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.3.1 dated 2020-08-01 and 1.3.2 dated 2020-10-05
DESCRIPTION | 8 ++-- MD5 | 12 +++---- NEWS.md | 5 +- R/main.R | 23 ++++++++----- README.md | 4 +- build/vignette.rds |binary inst/tinytest/ctrdata_euctr.R | 72 +++++++++++++++++++++--------------------- 7 files changed, 66 insertions(+), 58 deletions(-)
Title: Random Cluster Generation (with Specified Degree of Separation)
Description: We developed the clusterGeneration package to provide functions
for generating random clusters, generating random
covariance/correlation matrices,
calculating a separation index (data and population version)
for pairs of clusters or cluster distributions, and 1-D and 2-D
projection plots to visualize clusters. The package also
contains a function to generate random clusters based on
factorial designs with factors such as degree of separation,
number of clusters, number of variables, number of noisy
variables.
Author: Weiliang Qiu <stwxq@channing.harvard.edu>, Harry Joe
<harry@stat.ubc.ca>.
Maintainer: Weiliang Qiu <weiliang.qiu@gmail.com>
Diff between clusterGeneration versions 1.3.4 dated 2015-02-18 and 1.3.5 dated 2020-10-05
clusterGeneration-1.3.4/clusterGeneration/INDEX |only clusterGeneration-1.3.5/clusterGeneration/DESCRIPTION | 12 clusterGeneration-1.3.5/clusterGeneration/MD5 | 29 clusterGeneration-1.3.5/clusterGeneration/NAMESPACE | 39 clusterGeneration-1.3.5/clusterGeneration/NEWS | 160 clusterGeneration-1.3.5/clusterGeneration/R/genCluster.R | 4953 +++++----- clusterGeneration-1.3.5/clusterGeneration/man/genPositiveDefMat.Rd | 204 clusterGeneration-1.3.5/clusterGeneration/man/genRandomClust.Rd | 780 - clusterGeneration-1.3.5/clusterGeneration/man/getSepProj.Rd | 334 clusterGeneration-1.3.5/clusterGeneration/man/nearestNeighborSepVal.Rd | 154 clusterGeneration-1.3.5/clusterGeneration/man/plot1DProjection.Rd | 350 clusterGeneration-1.3.5/clusterGeneration/man/plot2DProjection.Rd | 438 clusterGeneration-1.3.5/clusterGeneration/man/rcorrmatrix.Rd | 84 clusterGeneration-1.3.5/clusterGeneration/man/sepIndex.Rd | 170 clusterGeneration-1.3.5/clusterGeneration/man/simClustDesign.Rd | 760 - clusterGeneration-1.3.5/clusterGeneration/man/viewClusters.Rd | 258 16 files changed, 4381 insertions(+), 4344 deletions(-)
More information about clusterGeneration at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-19 0.2.8
2017-08-15 0.2.6
2017-03-20 0.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-01 7.1.0-2
2020-08-26 7.1.0-1
Title: Linear Mediation Analysis for Complex Surveys Using Balanced
Repeated Replication
Description: It is a computer tool to conduct linear mediation analysis for complex surveys using multi-stage sampling and Balanced Repeated Replication (BRR). Specifically, the mediation analysis method using balanced repeated replications was proposed by Mai, Ha, and Soulakova (2019) <DOI:10.1080/10705511.2018.1559065>. The current version can only handle continuous mediators and outcomes. The development of 'MedSurvey' was sponsored by American Lebanese Syrian Associated Charities (ALSAC). However, the contents of MedSurvey do not necessarily represent the policy of the ALSAC.
Author: Yujiao Mai [cre, aut],
Deo Kumar Srivastava [aut],
Hui Zhang [aut]
Maintainer: Hui Zhang <hzhang@northwestern.edu>
Diff between MedSurvey versions 1.1.1.2.0 dated 2020-05-12 and 1.1.1.3.0 dated 2020-10-05
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- R/MedSurvey.R | 2 +- R/data.R | 2 +- man/MedData.Rd | 2 +- man/med.fit.BRR.Rd | 2 +- 6 files changed, 17 insertions(+), 17 deletions(-)
Title: Fit Statistical Models Using Hamiltonian Monte Carlo
Description: Provide users with a framework to learn the intricacies of the Hamiltonian Monte Carlo algorithm with hands-on experience by tuning and fitting their own models. All of the code is written in R. Theoretical references are listed below:.
Neal, Radford (2011) "Handbook of Markov Chain Monte Carlo" ISBN: 978-1420079418,
Betancourt, Michael (2017) "A Conceptual Introduction to Hamiltonian Monte Carlo" <arXiv:1701.02434>,
Thomas, S., Tu, W. (2020) "Learning Hamiltonian Monte Carlo in R" <arXiv:2006.16194>,
Gelman, A., Carlin, J. B., Stern, H. S., Dunson, D. B., Vehtari, A., & Rubin, D. B. (2013) "Bayesian Data Analysis" ISBN: 978-1439840955,
Agresti, Alan (2015) "Foundations of Linear and Generalized Linear Models ISBN: 978-1118730034,
Pinheiro, J., Bates, D. (2006) "Mixed-effects Models in S and S-Plus" ISBN: 978-1441903174.
Author: Samuel Thomas [cre, aut],
Wanzhu Tu [ctb]
Maintainer: Samuel Thomas <samthoma@iu.edu>
Diff between hmclearn versions 0.0.4 dated 2020-07-27 and 0.0.5 dated 2020-10-05
DESCRIPTION | 10 +- MD5 | 48 ++++----- R/mcmc_diag.R | 4 R/methods.R | 6 - R/plotfun.R | 4 inst/doc/linear_mixed_effects_hmclearn.Rmd | 82 +++++----------- inst/doc/linear_mixed_effects_hmclearn.html | 128 ++++++++++---------------- inst/doc/linear_regression_hmclearn.Rmd | 4 inst/doc/linear_regression_hmclearn.html | 6 - inst/doc/logistic_mixed_effects_hmclearn.Rmd | 4 inst/doc/logistic_mixed_effects_hmclearn.html | 6 - inst/doc/logistic_regression_hmclearn.Rmd | 8 - inst/doc/logistic_regression_hmclearn.html | 10 +- inst/doc/poisson_regression_hmclearn.Rmd | 4 inst/doc/poisson_regression_hmclearn.html | 6 - man/hmclearn-plots.Rd | 2 man/plot.hmclearn.Rd | 2 man/predict.hmclearn.Rd | 2 man/psrf.Rd | 2 man/psrf.hmclearn.Rd | 2 vignettes/linear_mixed_effects_hmclearn.Rmd | 82 +++++----------- vignettes/linear_regression_hmclearn.Rmd | 4 vignettes/logistic_mixed_effects_hmclearn.Rmd | 4 vignettes/logistic_regression_hmclearn.Rmd | 8 - vignettes/poisson_regression_hmclearn.Rmd | 4 25 files changed, 182 insertions(+), 260 deletions(-)
Title: Interface with Live Bikeshare Data
Description: Supplies a set of functions to interface with bikeshare data
following the General Bikeshare Feed Specification, allowing users to query
and accumulate tidy datasets for specified cities/bikeshare programs.
Author: Simon P. Couch [aut, cre],
Kaelyn Rosenberg [aut],
Mark Padgham [ctb]
Maintainer: Simon P. Couch <simonpatrickcouch@gmail.com>
Diff between gbfs versions 1.3.3 dated 2020-06-07 and 1.3.4 dated 2020-10-05
DESCRIPTION | 8 +- MD5 | 42 +++++++-------- NEWS.md | 5 + R/get_dynamic_feeds.R | 28 +++++----- R/get_gbfs.R | 20 +++---- R/get_static_feeds.R | 100 +++++++++--------------------------- man/gbfs.Rd | 4 - man/get_free_bike_status.Rd | 14 ++--- man/get_gbfs.Rd | 16 ++--- man/get_station_information.Rd | 12 ++-- man/get_station_status.Rd | 14 ++--- man/get_system_alerts.Rd | 17 ------ man/get_system_calendar.Rd | 17 ------ man/get_system_hours.Rd | 18 ------ man/get_system_information.Rd | 12 ++-- man/get_system_pricing_plans.Rd | 12 ++-- man/get_system_regions.Rd | 12 ++-- man/get_which_gbfs_feeds.Rd | 4 - tests/testthat/test-dynamic-feeds.R | 12 ++-- tests/testthat/test-static-feeds.R | 16 ++--- tests/testthat/test-utils.R | 28 +++++----- tests/testthat/test-wrapper.R | 6 +- 22 files changed, 164 insertions(+), 253 deletions(-)
Title: Functions for Elementary Bayesian Inference
Description: A set of R functions and data sets for the book Introduction to Bayesian Statistics, Bolstad, W.M. (2017), John Wiley & Sons ISBN 978-1-118-09156-2.
Author: James Curran [aut, cre]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between Bolstad versions 0.2-40 dated 2018-10-09 and 0.2-41 dated 2020-10-05
DESCRIPTION | 10 MD5 | 90 ++--- NAMESPACE | 1 R/Bolstad.control.R |only R/bayes.lin.reg.r | 742 ++++++++++++++++++++++++------------------------ R/binobp.r | 29 + R/binodp.r | 338 +++++++++++---------- R/binogcp.r | 7 R/binomixp.r | 30 + R/createPrior.default.R | 6 R/median.Bolstad.R | 4 R/mvnmvnp.R | 35 +- R/normdp.r | 18 - R/normgcp.r | 19 - R/normmixp.r | 74 ++-- R/normnp.r | 35 +- R/nvaricp.r | 89 ++--- R/poisdp.r | 381 ++++++++++++------------ R/poisgamp.R | 16 - R/poisgcp.r | 25 - R/xdesign.r | 476 +++++++++++++++--------------- man/Bolstad.control.Rd |only man/bayes.lin.reg.Rd | 24 + man/bayes.lm.Rd | 14 man/bayes.t.test.Rd | 24 + man/bears.Rd | 6 man/binobp.Rd | 7 man/binodp.Rd | 9 man/binogcp.Rd | 20 - man/binomixp.Rd | 6 man/moisture.df.Rd | 6 man/mvnmvnp.Rd | 4 man/normdp.Rd | 6 man/normgcp.Rd | 20 - man/normmixp.Rd | 15 man/normnp.Rd | 14 man/nvaricp.Rd | 10 man/plot.Bolstad.Rd | 19 - man/poisdp.Rd | 5 man/poisgamp.Rd | 13 man/poisgcp.Rd | 28 + man/print.Bolstad.Rd | 3 man/sintegral.Rd | 8 man/slug.Rd | 6 man/sscsample.Rd | 10 man/sscsample.data.Rd | 6 man/xdesign.Rd | 13 47 files changed, 1439 insertions(+), 1282 deletions(-)