Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the package uses NRFA peak flow dataset version 12. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Proposal of the extreme rank plot for extreme value analysis: with an emphasis on flood frequency studies", Hammond (2019, <doi:10.2166/nh.2019.157>). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Sampling uncertainty of UK design flood est [...truncated...]
Author: Anthony Hammond
Maintainer: Anthony Hammond <agqhammond@gmail.com>
Diff between UKFE versions 0.2.9 dated 2023-07-09 and 0.3.0 dated 2023-09-23
DESCRIPTION | 8 +-- MD5 | 25 ++++----- R/AMSP.R | 4 - R/All.R | 143 ++++++++++++++++++++++++++++++++++++++++++++++-------- R/NRFAData.R | 4 - R/QMEDData.R | 4 - data/AMSP.rda |binary data/NRFAData.rda |binary data/QMEDData.rda |binary man/AMSP.Rd | 4 - man/AggDayHour.Rd |only man/DDFImport.Rd | 14 ++--- man/NRFAData.Rd | 4 - man/QMEDData.Rd | 4 - 14 files changed, 159 insertions(+), 55 deletions(-)
Title: Discriminant Adaptive Nearest Neighbor Classification
Description: Discriminant Adaptive Nearest Neighbor Classification is a
variation of k nearest neighbors where the shape of the neighborhood is
data driven. This package implements dann and sub_dann from
Hastie (1996) <https://web.stanford.edu/~hastie/Papers/dann_IEEE.pdf>.
Author: Greg McMahan
Maintainer: Greg McMahan <gmcmacran@gmail.com>
Diff between dann versions 0.2.6 dated 2022-02-14 and 1.0.0 dated 2023-09-23
dann-0.2.6/dann/build |only dann-0.2.6/dann/inst |only dann-0.2.6/dann/man/dann_df.Rd |only dann-0.2.6/dann/man/dann_source.Rd |only dann-0.2.6/dann/man/graph_eigenvalues_df.Rd |only dann-0.2.6/dann/man/sub_dann_df.Rd |only dann-0.2.6/dann/man/sub_dann_source.Rd |only dann-0.2.6/dann/tests/testthat/test_B_dann_df.R |only dann-0.2.6/dann/tests/testthat/test_C_sub_dann.R |only dann-0.2.6/dann/tests/testthat/test_D_sub_dann_df.R |only dann-0.2.6/dann/tests/testthat/test_F_graph_eigenvalues_df.R |only dann-0.2.6/dann/vignettes |only dann-1.0.0/dann/DESCRIPTION | 19 dann-1.0.0/dann/MD5 | 79 - dann-1.0.0/dann/NAMESPACE | 23 dann-1.0.0/dann/NEWS.md | 7 dann-1.0.0/dann/R/dann.R | 626 ++++++---- dann-1.0.0/dann/R/graph_eigenvalues.R | 313 +++-- dann-1.0.0/dann/R/internal_helpers.R | 4 dann-1.0.0/dann/R/print.R |only dann-1.0.0/dann/R/sub_dann.R | 684 ++++++----- dann-1.0.0/dann/README.md | 228 +++ dann-1.0.0/dann/man/DANN_distance.Rd | 4 dann-1.0.0/dann/man/dann.Rd | 132 -- dann-1.0.0/dann/man/dann.data.frame.Rd |only dann-1.0.0/dann/man/dann.default.Rd |only dann-1.0.0/dann/man/dann.formula.Rd |only dann-1.0.0/dann/man/dann.matrix.Rd |only dann-1.0.0/dann/man/dann.recipe.Rd |only dann-1.0.0/dann/man/figures/README-graph-1.png |only dann-1.0.0/dann/man/graph_eigenvalues.Rd | 59 dann-1.0.0/dann/man/graph_eigenvalues.data.frame.Rd |only dann-1.0.0/dann/man/graph_eigenvalues.default.Rd |only dann-1.0.0/dann/man/graph_eigenvalues.formula.Rd |only dann-1.0.0/dann/man/graph_eigenvalues.matrix.Rd |only dann-1.0.0/dann/man/graph_eigenvalues.recipe.Rd |only dann-1.0.0/dann/man/predict.dann.Rd |only dann-1.0.0/dann/man/predict.sub_dann.Rd |only dann-1.0.0/dann/man/print.dann.Rd |only dann-1.0.0/dann/man/print.sub_dann.Rd |only dann-1.0.0/dann/man/sub_dann.Rd | 115 - dann-1.0.0/dann/man/sub_dann.data.frame.Rd |only dann-1.0.0/dann/man/sub_dann.default.Rd |only dann-1.0.0/dann/man/sub_dann.formula.Rd |only dann-1.0.0/dann/man/sub_dann.matrix.Rd |only dann-1.0.0/dann/man/sub_dann.recipe.Rd |only dann-1.0.0/dann/src/Makevars | 14 dann-1.0.0/dann/src/Makevars.win | 14 dann-1.0.0/dann/src/RcppExports.cpp | 5 dann-1.0.0/dann/tests/testthat.R | 1 dann-1.0.0/dann/tests/testthat/test_A_dann.R | 520 +------- dann-1.0.0/dann/tests/testthat/test_B_sub_dann.R |only dann-1.0.0/dann/tests/testthat/test_C_predict_dann.R |only dann-1.0.0/dann/tests/testthat/test_D_predict_sub_dann.R |only dann-1.0.0/dann/tests/testthat/test_E_graph_eigenvalues.R | 85 - dann-1.0.0/dann/tests/testthat/test_F_print.R |only 56 files changed, 1428 insertions(+), 1504 deletions(-)
Title: Kernel SHAP
Description: Efficient implementation of Kernel SHAP, see Lundberg and Lee (2017),
and Covert and Lee (2021) <http://proceedings.mlr.press/v130/covert21a>.
For models with up to eight features, the results are exact regarding the
selected background data. Otherwise, an almost exact hybrid algorithm
involving iterative sampling is used. The package plays well together
with meta-learning packages like 'tidymodels', 'caret' or 'mlr3'.
Visualizations can be done using the R package 'shapviz'.
Author: Michael Mayer [aut, cre],
David Watson [aut],
Przemyslaw Biecek [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between kernelshap versions 0.3.7 dated 2023-05-17 and 0.3.8 dated 2023-09-23
DESCRIPTION | 13 - MD5 | 24 +-- NEWS.md | 16 ++ R/exact.R | 71 ++++++---- R/kernelshap.R | 60 +++++---- R/sampling.R | 10 - R/utils.R | 178 ++++++++++++++++++--------- README.md | 25 ++- man/kernelshap.Rd | 35 +++-- tests/testthat/test-kernelshap-multioutput.R | 26 +-- tests/testthat/test-kernelshap.R | 32 ++-- tests/testthat/test-methods.R | 2 tests/testthat/test-utils_etc.R | 70 +++++----- 13 files changed, 346 insertions(+), 216 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) simulation and inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Covariance functions for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. See the URL for the papers associ [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 1.1.2 dated 2023-09-08 and 1.1.3 dated 2023-09-23
DESCRIPTION | 8 - MD5 | 42 +++--- R/GeoCV.R | 267 ++++++++++++++++++++++------------------- R/GeoCompositeLik.r | 3 R/GeoCompositeLik2.R | 7 - R/GeoCovmatrix.r | 2 R/GeoFit.r | 12 + R/GeoFit2.R | 7 - R/GeoIndCompositeLik2.R | 3 R/GeoNeighborhood.R | 9 - R/GeoQQ.R | 9 - R/GeoResiduals.r | 2 R/GeoSim.r | 8 + R/GeoSimapprox.r | 45 ++++-- R/Geovarestbootstrap.R | 10 + R/Utility.r | 3 man/GeoCovmatrix.Rd | 12 + man/GeoSim.Rd | 9 - man/GeoSimapprox.Rd | 3 src/CompositeLikelihoodCond2.c | 21 +-- src/CorrelationFunction.c | 59 ++++----- src/Distributions.c | 22 ++- 22 files changed, 319 insertions(+), 244 deletions(-)
Title: Spherical k-Means Clustering
Description: Algorithms to compute spherical k-means partitions.
Features several methods, including a genetic and a fixed-point
algorithm and an interface to the CLUTO vcluster program.
Author: Kurt Hornik [aut, cre] ,
Ingo Feinerer [aut] ,
Martin Kober [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between skmeans versions 0.2-15 dated 2023-01-31 and 0.2-16 dated 2023-09-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/skmeans.R | 26 +++++++++++++------------- build/partial.rdb |binary 4 files changed, 19 insertions(+), 19 deletions(-)
Title: Cluster Ensembles
Description: CLUster Ensembles.
Author: Kurt Hornik [aut, cre] ,
Walter Boehm [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between clue versions 0.3-64 dated 2023-01-31 and 0.3-65 dated 2023-09-23
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 2 +- R/medoid.R | 2 +- R/predict.R | 4 ++-- build/partial.rdb |binary build/vignette.rds |binary data/CKME.rda |binary data/Cassini.rda |binary data/GVME.rda |binary data/GVME_Consensus.rda |binary data/Kinship82.rda |binary data/Kinship82_Consensus.rda |binary data/Phonemes.rda |binary inst/doc/clue.pdf |binary man/cl_consensus.Rd | 2 +- 16 files changed, 23 insertions(+), 23 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-29 0.2.2
2019-09-13 0.2.1
2018-12-03 0.2.0
2018-07-19 0.1.0
Title: Generating Funky Heatmaps for Data Frames
Description: Allows generating heatmap-like visualisations for benchmark data
frames. Funky heatmaps can be fine-tuned by providing annotations of the
columns and rows, which allows assigning multiple palettes or geometries
or grouping rows and columns together in categories.
Saelens et al. (2019) <doi:10.1038/s41587-019-0071-9>.
Author: Robrecht Cannoodt [aut, cre] ,
Wouter Saelens [aut]
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between funkyheatmap versions 0.4.0 dated 2023-08-29 and 0.5.0 dated 2023-09-23
DESCRIPTION | 6 MD5 | 54 +++---- NAMESPACE | 2 NEWS.md | 9 + R/calculate_geom_positions.R | 77 +++++----- R/create_legends.R | 119 +++++++--------- R/funky_heatmap.R | 27 ++- R/is_color.R |only R/make_geom_data_processor.R | 88 +++++++---- R/position_arguments.R | 2 R/scale_minmax.R | 8 + R/score_to_funky_rectangle.R | 12 - R/verify_column_info.R | 75 ++++++++-- R/verify_legends.R | 77 ++++++++-- R/verify_palettes.R | 1 build/partial.rdb |binary data/scib_summary.rda |binary inst/doc/mtcars.html | 2 inst/doc/scIB.R | 145 ++++++++++++------- inst/doc/scIB.Rmd | 152 +++++++++++++------- inst/doc/scIB.html | 316 +++++++++++++++++++++++-------------------- man/funky_heatmap.Rd | 20 ++ man/position_arguments.Rd | 2 man/scale_minmax.Rd |only man/verify_column_groups.Rd | 10 + man/verify_column_info.Rd | 10 + man/verify_legends.Rd | 20 ++ man/verify_palettes.Rd | 10 + vignettes/scIB.Rmd | 152 +++++++++++++------- 29 files changed, 884 insertions(+), 512 deletions(-)
Title: Multivariate Menu for Radiant: Business Analytics using R and
Shiny
Description: The Radiant Multivariate menu includes interfaces for perceptual
mapping, factor analysis, cluster analysis, and conjoint analysis. The
application extends the functionality in 'radiant.data'.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.multivariate versions 1.6.0 dated 2023-09-11 and 1.6.1 dated 2023-09-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ tests/testthat/test_stats.R | 2 +- 4 files changed, 12 insertions(+), 8 deletions(-)
More information about radiant.multivariate at CRAN
Permanent link
Title: Methods to Create Hierarchical Age Length Keys for Age
Assignment
Description: Provides methods for implementing hierarchical age length keys
to estimate fish ages from lengths using data borrowing. Users can create
hierarchical age length keys and use them to assign ages given length.
Author: Paul Frater [aut, cre]
Maintainer: Paul Frater <paul.frater@wisconsin.gov>
Diff between halk versions 0.0.3 dated 2023-07-07 and 0.0.4 dated 2023-09-23
halk-0.0.3/halk/R/fit_age_model.R |only halk-0.0.3/halk/man/fit_age_model.Rd |only halk-0.0.4/halk/DESCRIPTION | 6 halk-0.0.4/halk/MD5 | 38 +-- halk-0.0.4/halk/NAMESPACE | 3 halk-0.0.4/halk/R/data.R | 2 halk-0.0.4/halk/R/make_halk.R |only halk-0.0.4/halk/R/predict_ages.R | 12 - halk-0.0.4/halk/R/utils.R | 197 +---------------- halk-0.0.4/halk/inst/doc/halk.Rmd | 19 + halk-0.0.4/halk/inst/doc/halk.html | 68 +++-- halk-0.0.4/halk/man/assign_ages.Rd | 6 halk-0.0.4/halk/man/assign_alk_attributes.Rd | 2 halk-0.0.4/halk/man/assign_na_age.Rd |only halk-0.0.4/halk/man/make_alk.Rd | 2 halk-0.0.4/halk/man/make_halk.Rd | 4 halk-0.0.4/halk/man/spp_levels.Rd | 2 halk-0.0.4/halk/man/wb_spp_data.Rd | 2 halk-0.0.4/halk/tests/testthat/test-alk-fitting.R | 8 halk-0.0.4/halk/tests/testthat/test-alk-sample-sizes.R | 18 - halk-0.0.4/halk/tests/testthat/test-utils.R | 4 halk-0.0.4/halk/vignettes/halk.Rmd | 19 + 22 files changed, 135 insertions(+), 277 deletions(-)
Title: Generate Walk Bouts from GPS and Accelerometry Data
Description: Process GPS and accelerometry data to generate walk bouts. A walk bout is a period of activity with accelerometer movement matching the patterns of walking with corresponding GPS measurements that confirm travel. The inputs of the 'walkboutr' package are individual-level accelerometry and GPS data. The outputs of the model are walk bouts with corresponding times, duration, and summary statistics on the sample population, which collapse all personally identifying information. These bouts can be used to measure walking both as an outcome of a change to the built environment or as a predictor of health outcomes such as a cardioprotective behavior. Kang B, Moudon AV, Hurvitz PM, Saelens BE (2017) <doi:10.1016/j.trd.2017.09.026>.
Author: Lauren Blair Wilner [aut, cre, cph]
,
Stephen J Mooney [aut]
Maintainer: Lauren Blair Wilner <wilnerl@uw.edu>
Diff between walkboutr versions 0.1.0 dated 2023-06-08 and 0.2.0 dated 2023-09-22
DESCRIPTION | 6 +- MD5 | 32 +++++------ NEWS.md | 2 R/parameters.R | 2 R/process_accelerometry_counts_into_bouts.R | 46 ++++++++++++----- README.md | 46 ++++++++--------- inst/doc/changing_default_parameters.Rmd | 2 inst/doc/changing_default_parameters.html | 12 ++-- inst/doc/generate_data.html | 10 +-- inst/doc/process_bouts.html | 16 ++--- man/identify_bouts.Rd | 4 + man/identify_complete_days.Rd | 8 ++ man/identify_non_wearing_periods.Rd | 16 ++++- man/process_accelerometry_counts_into_bouts.Rd | 23 +++++++- tests/testthat/test-process_gps_data_into_gps_epochs.R | 2 tests/testthat/test-validate_accelerometry_data.R | 2 vignettes/changing_default_parameters.Rmd | 2 17 files changed, 142 insertions(+), 89 deletions(-)
Title: Phylogenetic Structural Equation Model
Description: Applies phylogenetic comparative methods (PCM) and phylogenetic trait imputation using
structural equation models (SEM), extending methods from Thorson et al. (2023) <doi:10.1111/2041-210X.14076>.
This implementation includes a minimal set of features, to
allow users to easily read all of the documentation and source code. PCM using SEM
includes phylogenetic linear models and structural equation models as nested submodels,
but also allows imputation of missing values. Features and comparison with other packages
are described in Thorson and van der Bijl (In revisions).
Author: James Thorson [aut, cre] ,
Wouter van der Bijl [ctb]
Maintainer: James Thorson <James.Thorson@noaa.gov>
Diff between phylosem versions 1.0.1 dated 2023-09-19 and 1.0.2 dated 2023-09-22
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS.md | 14 ++++++++++---- R/phylosem.R | 3 ++- README.md | 2 ++ inst/doc/demonstration.R | 28 ++++++++++++++++++++++------ inst/doc/demonstration.Rmd | 30 +++++++++++++++++++++++------- inst/doc/demonstration.pdf |binary src/phylosem.cpp | 3 +++ vignettes/comparison.html | 28 ++++++++++++++-------------- vignettes/demonstration.Rmd | 30 +++++++++++++++++++++++------- vignettes/demonstration.html | 38 ++++++++++++++++++++++++++++++-------- 12 files changed, 144 insertions(+), 62 deletions(-)
Title: Biosensor Development using Omics Data
Description: A method for the quantitative prediction using omics data.
This package provides functions to construct the quantitative prediction
model using omics data.
Author: Takahiko Koizumi [aut, cre],
Kenta Suzuki [ctb],
Yasunori Ichihashi [ctb]
Maintainer: Takahiko Koizumi <takahiko.koizumi@gmail.com>
Diff between OmicSense versions 0.1.1 dated 2023-04-26 and 0.2.0 dated 2023-09-22
OmicSense-0.1.1/OmicSense/R/os.opt.R |only OmicSense-0.1.1/OmicSense/man/os.opt.Rd |only OmicSense-0.2.0/OmicSense/DESCRIPTION | 6 +++--- OmicSense-0.2.0/OmicSense/MD5 | 12 +++++------- OmicSense-0.2.0/OmicSense/NAMESPACE | 4 ---- OmicSense-0.2.0/OmicSense/NEWS.md | 4 ++-- OmicSense-0.2.0/OmicSense/build/vignette.rds |binary OmicSense-0.2.0/OmicSense/inst/doc/OmicSense.html | 2 +- 8 files changed, 11 insertions(+), 17 deletions(-)
Title: Render Sequence Plots using 'ggplot2'
Description: A set of wrapper functions that mainly re-produces most of the
sequence plots rendered with TraMineR::seqplot(). Whereas 'TraMineR' uses base
R to produce the plots this library draws on 'ggplot2'.
The plots are produced on the basis of a sequence object defined
with TraMineR::seqdef(). The package automates the reshaping and plotting
of sequence data. Resulting plots are of class 'ggplot', i.e. components
can be added and tweaked using '+' and regular 'ggplot2' functions.
Author: Marcel Raab [aut, cre]
Maintainer: Marcel Raab <marcel.raab@gmail.com>
Diff between ggseqplot versions 0.8.2 dated 2023-03-15 and 0.8.3 dated 2023-09-22
DESCRIPTION | 14 MD5 | 85 NAMESPACE | 32 NEWS.md | 6 R/ggseqdplot.R | 12 R/ggseqeplot.R | 5 R/ggseqfplot.R | 6 R/ggseqiplot.R | 5 R/ggseqmsplot.R | 5 R/ggseqmtplot.R | 6 R/ggseqplot-package.R | 6 R/ggseqrfplot.R | 19 R/ggseqrplot.R | 750 +++--- R/ggseqtrplot.R | 8 R/internal_helpers.R | 110 R/zzz.R |only build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 18 inst/doc/ggseqplot.R | 8 inst/doc/ggseqplot.Rmd | 2 inst/doc/ggseqplot.html | 578 ++--- man/ggseqdplot.Rd | 6 man/ggseqeplot.Rd | 5 man/ggseqfplot.Rd | 6 man/ggseqiplot.Rd | 5 man/ggseqmsplot.Rd | 5 man/ggseqmtplot.Rd | 6 man/ggseqplot-package.Rd | 52 man/ggseqrfplot.Rd | 13 man/ggseqtrplot.Rd | 8 tests/testthat.R | 8 tests/testthat/test-ggseqdplot.R | 138 - tests/testthat/test-ggseqeplot.R | 76 tests/testthat/test-ggseqfplot.R | 134 - tests/testthat/test-ggseqiplot.R | 112 tests/testthat/test-ggseqmsplot.R | 170 - tests/testthat/test-ggseqmtplot.R | 176 - tests/testthat/test-ggseqrfplot.R | 160 - tests/testthat/test-ggseqrplot.R | 112 tests/testthat/test-ggseqtrplot.R | 86 tests/testthat/test-internal_helper.R | 10 vignettes/apa.csl | 3834 +++++++++++++++++----------------- vignettes/ggseqplot.Rmd | 2 44 files changed, 3378 insertions(+), 3421 deletions(-)
Title: Geostatistical Modelling with Likelihood and Bayes
Description: Geostatistical modelling facilities using 'SpatRaster' and 'SpatVector'
objects are provided. Non-Gaussian models are fit using 'INLA', and Gaussian
geostatistical models use Maximum Likelihood Estimation. For details see Brown (2015) <doi:10.18637/jss.v063.i12>. The 'RandomFields' package is available at <https://www.wim.uni-mannheim.de/schlather/publications/software>.
Author: Patrick Brown [aut, cre, cph]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between geostatsp versions 2.0.0 dated 2023-09-22 and 2.0.1 dated 2023-09-22
DESCRIPTION | 8 - MD5 | 28 ++--- R/lgcp.R | 17 +-- build/geostatsp.pdf |binary build/stage23.rdb |binary inst/doc/glgm.R | 235 ++++++++++++++++++++----------------------- inst/doc/glgm.Rnw | 263 +++++++++++++++++++++++++------------------------ inst/doc/glgm.pdf |binary inst/doc/lgcp.R | 116 ++++++++++++--------- inst/doc/lgcp.Rnw | 134 +++++++++++++----------- inst/doc/lgcp.pdf |binary inst/extR/loaloaData.R | 2 man/likfitLgm.Rd | 11 -- vignettes/glgm.Rnw | 263 +++++++++++++++++++++++++------------------------ vignettes/lgcp.Rnw | 134 +++++++++++++----------- 15 files changed, 632 insertions(+), 579 deletions(-)
Title: Analyzing and Interactive Visualization of Archival Tagging Data
Description: A set of functions to generate, access and analyze standard data products from archival tagging data.
Author: Robert K. Bauer
Maintainer: Robert K. Bauer <rkbauer@hawaii.edu>
Diff between RchivalTag versions 0.1.6 dated 2023-09-12 and 0.1.7 dated 2023-09-22
ChangeLog | 4 + DESCRIPTION | 16 +++---- MD5 | 10 ++-- NAMESPACE | 6 -- R/get_geopos.r | 102 ++++++++++++++++++++++++++---------------------- inst/doc/RchivalTag.pdf |binary 6 files changed, 76 insertions(+), 62 deletions(-)
Title: Create Consort Diagram
Description: To make it easy to create CONSORT diagrams for the transparent reporting of participant allocation in randomized, controlled clinical trials. This is done by creating a standardized disposition data, and using this data as the source for the creation a standard CONSORT diagram. Human effort by supplying text labels on the node can also be achieved.
Author: Alim Dayim [aut, cre]
Maintainer: Alim Dayim <ad938@cam.ac.uk>
Diff between consort versions 1.2.0 dated 2023-04-11 and 1.2.1 dated 2023-09-22
DESCRIPTION | 6 MD5 | 35 - NEWS.md | 5 R/build_grviz.R | 37 + R/gen_text.R | 34 + inst/doc/consort_diagram.html | 354 ++++++++-------- inst/examples/consort-plot-example.R | 2 man/consort_plot.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/auto/auto-grviz.gv | 6 tests/testthat/_snaps/auto/auto-last-grviz.gv | 7 tests/testthat/_snaps/auto/auto-nolab-grviz.gv | 3 tests/testthat/_snaps/build_grviz/empty-middle-grviz.gv |only tests/testthat/_snaps/build_grviz/end-miss-grviz.gv | 3 tests/testthat/_snaps/build_grviz/grviz.gv | 3 tests/testthat/_snaps/build_grviz/multi-miss-grviz.gv | 3 tests/testthat/_snaps/build_grviz/split-comb-grviz.gv | 3 tests/testthat/test-build_grviz.R | 26 + tests/testthat/test-gen_text.R | 8 19 files changed, 325 insertions(+), 212 deletions(-)
Title: Color Mappings and 'C++' Header Files for Color Conversion
Description: Provides 'C++' header files to deal with color conversion
from some color spaces to hexadecimal with 'Rcpp', and exports some
color mapping functions for usage in R. Also exports functions to
convert colors from the 'HSLuv' color space for usage in R. 'HSLuv' is
a human-friendly alternative to HSL.
Author: Stephane Laurent [cre, aut],
Scott Spencer [aut]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between RcppColors versions 0.4.0 dated 2023-08-25 and 0.5.0 dated 2023-09-22
DESCRIPTION | 6 MD5 | 23 - NAMESPACE | 11 NEWS.md | 9 R/RcppExports.R | 48 ++ R/colorMaps.R | 271 ++++++++++++++ R/hsluv.R | 49 ++ README.md | 41 ++ inst/include/RcppColors.h | 124 ++++++ man/colorMaps.Rd | 92 ++++- man/hsl.Rd |only src/RcppColors.cpp | 844 +++++++++++++++++++++++++++++++++++++++++++++- src/RcppExports.cpp | 209 +++++++++++ 13 files changed, 1703 insertions(+), 24 deletions(-)
Title: Simulate Temporally Autocorrelated Populations
Description: Temporally autocorrelated populations are correlated in their vital rates (growth, death, etc.) from year to year. It is very common for populations, whether they be bacteria, plants, or humans, to be temporally autocorrelated. This poses a challenge for stochastic population modeling, because a temporally correlated population will behave differently from an uncorrelated one.
This package provides tools for simulating populations with white noise (no temporal autocorrelation), red noise (positive temporal autocorrelation), and blue noise (negative temporal autocorrelation). The algebraic formulation for autocorrelated noise comes from Ruokolainen et al. (2009) <doi:10.1016/j.tree.2009.04.009>. Models for unstructured populations and for structured populations (matrix models) are available.
Author: July Pilowsky [aut, cre]
Maintainer: July Pilowsky <pilowskyj@caryinstitute.org>
Diff between colorednoise versions 1.1.0 dated 2020-08-05 and 1.1.1 dated 2023-09-22
DESCRIPTION | 20 MD5 | 58 +- NAMESPACE | 38 - NEWS.md | 69 +- R/RcppExports.R | 310 +++++------ R/colorednoise.R | 39 - R/simulate_populations.R | 476 ++++++++--------- R/utils.R | 54 - README.md | 127 ++-- build/vignette.rds |binary inst/doc/noise.R | 196 +++---- inst/doc/noise.Rmd | 340 ++++++------ inst/doc/noise.html | 1057 ++++++++++++++++++++------------------ man/autocorr_sim.Rd | 138 ++-- man/autocorrelation.Rd | 54 - man/colored_multi_rnorm.Rd | 72 +- man/colored_noise.Rd | 64 +- man/colorednoise.Rd | 25 man/cor2cov.Rd | 50 - man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/matrix_model.Rd | 156 ++--- man/multi_rnorm.Rd | 56 +- man/stdev_transform.Rd | 2 man/unstructured_pop.Rd | 138 ++-- src/RcppExports.cpp | 5 tests/testthat.R | 8 tests/testthat/test_noise.R | 88 +-- tests/testthat/test_simulations.R | 90 +-- vignettes/noise.Rmd | 340 ++++++------ 30 files changed, 2094 insertions(+), 1976 deletions(-)
Title: Variance Components Testing for Linear and Nonlinear Mixed
Effects Models
Description: An implementation of the Likelihood ratio Test (LRT) for testing that,
in a (non)linear mixed effects model, the variances of a subset of the random
effects are equal to zero. There is no restriction on the subset of variances
that can be tested: for example, it is possible to test that all the variances
are equal to zero. Note that the implemented test is asymptotic.
This package should be used on model fits from packages 'nlme', 'lmer', and 'saemix'.
Charlotte Baey and Estelle Kuhn (2019) <doi:10.18637/jss.v107.i06>.
Author: Charlotte Baey [aut, cre] ,
Estelle Kuhn [aut]
Maintainer: Charlotte Baey <charlotte.baey@univ-lille.fr>
Diff between varTestnlme versions 1.3.4 dated 2023-05-28 and 1.3.5 dated 2023-09-22
DESCRIPTION | 8 - MD5 | 34 ++-- NAMESPACE | 7 NEWS.md | 6 R/generics.R | 3 R/lme4_utilities.R | 5 R/lme_utilities.R | 7 R/saemix_utilities.R | 3 README.md | 16 +- build/vignette.rds |binary inst/CITATION | 26 ++- inst/doc/varTestnlme.Rmd | 2 inst/doc/varTestnlme.html | 319 ++++++++++++++++++++--------------------- man/bootinvFIM.Rd | 4 man/bootinvFIM.SaemixObject.Rd | 4 man/bootinvFIM.lme.Rd | 4 man/bootinvFIM.merMod.Rd | 4 vignettes/varTestnlme.Rmd | 2 18 files changed, 244 insertions(+), 210 deletions(-)
Title: Exact Mediation Analysis for Binary Outcomes
Description: A tool for conducting exact parametric regression-based causal mediation analysis of binary outcomes
as described in Samoilenko, Blais and Lefebvre (2018) <doi:10.1353/obs.2018.0013>;
Samoilenko, Lefebvre (2021) <doi:10.1093/aje/kwab055>; and Samoilenko, Lefebvre (2023) <doi:10.1002/sim.9621>.
Author: Miguel Caubet [aut, cre],
Mariia Samoilenko [aut],
Jesse Gervais [aut],
Genevieve Lefebvre [aut]
Maintainer: Miguel Caubet <miguelcaubet@gmail.com>
Diff between ExactMed versions 0.2.0 dated 2023-03-19 and 0.3.0 dated 2023-09-22
DESCRIPTION | 19 MD5 | 47 - NAMESPACE | 8 NEWS.md | 11 R/check_input_param.R | 10 R/check_input_param_c.R | 10 R/check_input_param_cat.R |only R/datamed_cat.R |only R/exactmed.R | 20 R/exactmed_c.R | 44 - R/exactmed_cat.R |only R/init_mean_covv.R | 8 R/print.results.R | 59 - R/print.results_c.R | 48 - R/print.results_cat.R |only README.md | 10 build/partial.rdb |binary build/vignette.rds |binary data/datamed_cat.RData |only inst/doc/Introduction.R | 31 inst/doc/Introduction.Rmd | 72 +- inst/doc/Introduction.html | 1346 ++++++++++++++++++++++++------------------ man/datamed_cat.Rd |only man/exactmed.Rd | 22 man/exactmed_c.Rd | 23 man/exactmed_cat.Rd |only tests/testthat/testExactMed.R | 1046 +++++++++++++++++++++++++++++++- vignettes/Introduction.Rmd | 72 +- 28 files changed, 2177 insertions(+), 729 deletions(-)
Title: Computation of P Values and Bayes Factors for Conditioning Data
Description: Set of functions for the easy analyses of conditioning data.
Author: Angelos-Miltiadis Krypotos [aut, cre]
Maintainer: Angelos-Miltiadis Krypotos <amkrypotos@gmail.com>
Diff between condir versions 0.1.3 dated 2020-12-01 and 0.1.4 dated 2023-09-22
DESCRIPTION | 21 +-- MD5 | 17 +- NEWS.md | 4 R/csCompare.R | 6 R/csReport.R | 4 README.md | 4 build/vignette.rds |binary inst/CITATION | 25 +-- inst/doc/condir-examples.html | 279 +++++++++++++++++++----------------------- tests/spelling.R |only 10 files changed, 167 insertions(+), 193 deletions(-)
Title: Load Census TIGER/Line Shapefiles
Description: Download TIGER/Line shapefiles from the United States Census Bureau
(<https://www.census.gov/geographies/mapping-files/time-series/geo/tiger-line-file.html>)
and load into R as 'sf' objects.
Author: Kyle Walker [aut, cre],
Bob Rudis [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tigris versions 2.0.3 dated 2023-05-19 and 2.0.4 dated 2023-09-22
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/pumas.R | 24 ++++++++++++++++-------- data/fips_codes.rda |binary man/pumas.Rd | 2 +- 5 files changed, 25 insertions(+), 17 deletions(-)
Title: Objects and Methods for Multi-Companion Matrices
Description: Provides a class for multi-companion matrices with methods for
arithmetic and factorization. A method for generation of
multi-companion matrices with prespecified spectral properties is
provided, as well as some utilities for periodically correlated and
multivariate time series models. See Boshnakov (2002)
<doi:10.1016/S0024-3795(01)00475-X> and Boshnakov & Iqelan (2009)
<doi:10.1111/j.1467-9892.2009.00617.x>.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between mcompanion versions 0.5.7 dated 2023-06-13 and 0.5.8 dated 2023-09-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/class_MC.R | 21 ++++++++++++++++++++- build/partial.rdb |binary man/MultiCompanion-class.Rd | 6 +++++- 6 files changed, 39 insertions(+), 10 deletions(-)
Title: A Tool Kit for Working with Time Series
Description: Easy visualization, wrangling, and feature engineering of time series data for
forecasting and machine learning prediction. Consolidates and extends time series functionality
from packages including 'dplyr', 'stats', 'xts', 'forecast', 'slider', 'padr', 'recipes', and 'rsample'.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between timetk versions 2.8.3 dated 2023-03-30 and 2.8.4 dated 2023-09-22
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timetk-2.8.4/timetk/tests/testthat/test-tk_augment_timeseries.R | 120 timetk-2.8.4/timetk/tests/testthat/test-tk_get_timeseries.R | 316 - timetk-2.8.4/timetk/tests/testthat/test-tk_index.R | 636 +-- timetk-2.8.4/timetk/tests/testthat/test-tk_make_timeseries.R | 190 timetk-2.8.4/timetk/tests/testthat/test-tk_make_timeseries_future-OLD.R | 906 ++-- timetk-2.8.4/timetk/tests/testthat/test-tk_make_timeseries_future.R | 826 +-- timetk-2.8.4/timetk/tests/testthat/test-tk_tbl.R | 296 - timetk-2.8.4/timetk/tests/testthat/test-tk_ts.R | 156 timetk-2.8.4/timetk/tests/testthat/test-tk_xts.R | 164 timetk-2.8.4/timetk/tests/testthat/test-tk_zoo.R | 122 timetk-2.8.4/timetk/tests/testthat/test-tk_zooreg.R | 134 timetk-2.8.4/timetk/vignettes/TK04_Plotting_Time_Series.Rmd | 454 +- timetk-2.8.4/timetk/vignettes/temp_archive/TK00_Time_Series_Coercion.Rmd | 844 ++-- timetk-2.8.4/timetk/vignettes/temp_archive/TK01_Working_With_Time_Series_Index.Rmd | 448 +- timetk-2.8.4/timetk/vignettes/temp_archive/TK02_Time_Series_Date_Sequences.Rmd | 358 - timetk-2.8.4/timetk/vignettes/temp_archive/TK03_Forecasting_Using_Time_Series_Signature.Rmd | 607 +- timetk-2.8.4/timetk/vignettes/temp_archive/TK04_Plotting_Time_Series.Rmd | 464 +- timetk-2.8.4/timetk/vignettes/temp_archive/TK05_Plotting_Seasonality_and_Correlation.Rmd | 262 - timetk-2.8.4/timetk/vignettes/temp_archive/TK06_Automatic_Frequency_And_Trend_Selection.Rmd | 346 - timetk-2.8.4/timetk/vignettes/temp_archive/TK07_Time_Series_Data_Wrangling.Rmd | 540 +- timetk-2.8.4/timetk/vignettes/temp_archive/TK08_Automatic_Anomaly_Detection.Rmd | 208 timetk-2.8.4/timetk/vignettes/temp_archive/TK09_Clustering.Rmd | 304 - 220 files changed, 34333 insertions(+), 34311 deletions(-)
Title: Utility Functions for 'MixtComp' Outputs
Description: Mixture Composer <https://github.com/modal-inria/MixtComp> is a project to build mixture models with
heterogeneous data sets and partially missing data management. This package contains graphical, getter and some utility
functions to facilitate the analysis of 'MixtComp' output.
Author: Vincent Kubicki [aut],
Christophe Biernacki [aut],
Quentin Grimonprez [aut, cre],
Matthieu Marbac-Lourdelle [aut],
Étienne Goffinet [ctb],
Serge Iovleff [ctb],
Julien Vandaele [ctb]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between RMixtCompUtilities versions 4.1.5 dated 2023-06-14 and 4.1.6 dated 2023-09-22
DESCRIPTION | 8 MD5 | 70 +++--- NEWS | 5 R/MIXTCOMP_getParam.R | 63 ++--- R/MIXTCOMP_getter.R | 386 +++++++++++++++++------------------ R/MIXTCOMP_methods.R | 165 +++++++------- R/MIXTCOMP_misc.R | 150 +++++++------ R/PLOT_barplot.R | 175 ++++++++------- R/PLOT_heatmap.R | 186 ++++++++-------- R/PLOT_histAndLine.R | 61 ++--- R/PLOT_plotConvergence.R | 126 +++++------ R/PLOT_plotUnivariateBoxplots.R | 59 ++--- R/PLOT_plotUnivariateDistributions.R | 61 ++--- man/computeDiscrimPowerVar.Rd | 84 +++---- man/computeSimilarityVar.Rd | 60 ++--- man/getBIC.Rd | 55 ++-- man/getCompletedData.Rd | 71 +++--- man/getEmpiricTik.Rd | 55 ++-- man/getMixtureDensity.Rd | 51 ++-- man/getParam.Rd | 55 ++-- man/getPartition.Rd | 53 ++-- man/getType.Rd | 67 +++--- man/heatmapClass.Rd | 53 ++-- man/heatmapTikSorted.Rd | 53 ++-- man/heatmapVar.Rd | 53 ++-- man/histMisclassif.Rd | 53 ++-- man/plot.MixtComp.Rd | 51 ++-- man/plotConvergence.Rd | 53 ++-- man/plotDataBoxplot.Rd | 53 ++-- man/plotDataCI.Rd | 53 ++-- man/plotDiscrimClass.Rd | 55 ++-- man/plotDiscrimVar.Rd | 59 ++--- man/plotParamConvergence.Rd | 55 ++-- man/plotProportion.Rd | 53 ++-- man/print.MixtComp.Rd | 51 ++-- man/summary.MixtComp.Rd | 51 ++-- 36 files changed, 1433 insertions(+), 1379 deletions(-)
More information about RMixtCompUtilities at CRAN
Permanent link
Title: Split-Apply-Combine with Dynamic Groups
Description: Estimate group aggregates, where one can set user-defined conditions
that each group of records must satisfy to be suitable for aggregation. If
a group of records is not suitable, it is expanded using a collapsing scheme
defined by the user.
Author: Mark van der Loo [aut, cre]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between accumulate versions 0.9.0 dated 2023-03-03 and 0.9.3 dated 2023-09-22
DESCRIPTION | 9 - MD5 | 37 ++--- NEWS | 10 + R/accumulate.R | 3 R/helpers.R | 26 +--- R/producers.R | 2 R/utils.R | 36 +++++ build/vignette.rds |binary inst/doc/introduction.R | 14 ++ inst/doc/introduction.html | 259 +++++++++++++++++++++------------------- inst/doc/introduction.md | 37 ++++- inst/tinytest/test_accumulate.R | 2 inst/tinytest/test_utils.R |only man/csh_from_digits.Rd | 2 man/from_validator.Rd | 11 - man/min_records.Rd | 4 man/object_list.Rd | 5 man/producers.Rd | 2 man/smoke_test.Rd | 4 vignettes/introduction.md | 37 ++++- 20 files changed, 316 insertions(+), 184 deletions(-)
Title: Public Economic Data and Quantitative Analysis
Description: Provides an interface to access public economic and financial data for
economic research and quantitative analysis. The data sources including
NBS, FRED, Sina, Eastmoney and etc. It also provides quantitative
functions for trading strategies based on the 'data.table', 'TTR',
'PerformanceAnalytics' and etc packages.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>
Diff between pedquant versions 0.2.2.1 dated 2023-05-05 and 0.2.3 dated 2023-09-22
DESCRIPTION | 8 ++-- MD5 | 50 ++++++++++++++-------------- NEWS.md | 6 +++ R/func_helper.R | 2 - R/md_future.R | 27 ++++++--------- R/md_stock1_hist.R | 8 ++++ R/md_stock1_real.R | 2 - R/md_stock_financials.R | 16 ++++++--- R/md_stock_symbol.R | 4 +- R/md_stocka_real.R | 57 ++++++++++++++++++++++++-------- R/pq_freq.R | 2 - R/pq_opr.R | 14 +++---- R/pq_orders.R | 85 ++++++++++++++++++++++++++++-------------------- R/pq_performance.R | 12 ++++-- R/pq_plot2.R | 74 +++++++++++++++++++++++++---------------- R/pq_portfolio.R | 18 +++++----- R/sysdata.rda |binary README.md | 30 +++++++++------- data/dt_banks.rda |binary data/dt_ssec.rda |binary man/crossover.Rd | 10 ++--- man/pq_freq.Rd | 2 - man/pq_opr.Rd | 4 +- man/pq_performance.Rd | 2 + man/pq_plot.Rd | 7 ++- man/pq_portfolio.Rd | 16 ++++----- 26 files changed, 275 insertions(+), 181 deletions(-)
Title: Various Non-Additive Models for Genetic Associations
Description: The goal of 'gnonadd' is to simplify workflows in the analysis of non-additive effects of sequence variants. This includes variance effects (Ivarsdottir et. al (2017) <doi:10.1038/ng.3928>), correlation effects, interaction effects and dominance effects. The package also includes convenience functions for visualization.
Author: Audunn S. Snaebjarnarson [aut, cre, ctb],
Gudmundur Einarsson [aut, ctb],
Daniel F. Gudbjartsson [aut, ctb],
deCODE Genetics/AMGEN [cph, fnd]
Maintainer: Audunn S. Snaebjarnarson <audunn.snaebjarnarson@decode.is>
Diff between gnonadd versions 1.0.1 dated 2023-09-04 and 1.0.2 dated 2023-09-22
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 5 +++++ README.md | 38 ++++++++++++++++++++++++++++++++++++-- inst/CITATION |only 5 files changed, 48 insertions(+), 8 deletions(-)
Title: Frequently Used Functions for Easy R Programming
Description: Some utility functions for validation, data manipulation or color palettes. These functions can be helpful to reduce internal codes everywhere in package development.
Author: Yuchen Li [aut, cre]
Maintainer: Yuchen Li <ycli1995@outlook.com>
Diff between easy.utils versions 0.0.1 dated 2023-08-16 and 0.0.2 dated 2023-09-22
DESCRIPTION | 9 +++++---- MD5 | 13 +++++++------ NAMESPACE | 2 -- NEWS.md |only R/check.R | 10 +++++----- R/color_palettes.R | 32 ++++++++++++++++++++++++-------- man/checkAlignedDims.Rd | 10 +++++----- man/setColor.Rd | 21 +++++++++++++++++---- 8 files changed, 63 insertions(+), 34 deletions(-)
Title: Integration to 'Apache' 'Arrow'
Description: 'Apache' 'Arrow' <https://arrow.apache.org/> is a cross-language
development platform for in-memory data. It specifies a standardized
language-independent columnar memory format for flat and hierarchical data,
organized for efficient analytic operations on modern hardware. This
package provides an interface to the 'Arrow C++' library.
Author: Neal Richardson [aut],
Ian Cook [aut],
Nic Crane [aut, cre],
Dewey Dunnington [aut] ,
Romain Francois [aut] ,
Jonathan Keane [aut],
Dragoș Moldovan-Gruenfeld [aut],
Jeroen Ooms [aut],
Javier Luraschi [ctb],
Karl Dunkle Werner [ctb] ,
Jeffrey Wong [ctb [...truncated...]
Maintainer: Nic Crane <thisisnic@gmail.com>
Diff between arrow versions 13.0.0 dated 2023-08-30 and 13.0.0.1 dated 2023-09-22
arrow-13.0.0.1/arrow/DESCRIPTION | 6 +- arrow-13.0.0.1/arrow/MD5 | 30 ++++------ arrow-13.0.0.1/arrow/NEWS.md | 4 + arrow-13.0.0.1/arrow/R/dplyr-funcs-doc.R | 2 arrow-13.0.0.1/arrow/inst/build_arrow_static.sh | 7 ++ arrow-13.0.0.1/arrow/man/acero.Rd | 2 arrow-13.0.0.1/arrow/tests/testthat/helper-arrow.R | 1 arrow-13.0.0.1/arrow/tests/testthat/helper-data.R | 4 - arrow-13.0.0.1/arrow/tests/testthat/test-Array.R | 4 - arrow-13.0.0.1/arrow/tests/testthat/test-dplyr-funcs-datetime.R | 16 ++--- arrow-13.0.0.1/arrow/tools/cpp/cmake_modules/BuildUtils.cmake | 2 arrow-13.0.0.1/arrow/tools/cpp/cmake_modules/SetupCxxFlags.cmake | 9 ++- arrow-13.0.0.1/arrow/tools/nixlibs.R | 24 +++++--- arrow-13.0.0/arrow/tools/cpp/build-support/__pycache__ |only arrow-13.0.0/arrow/tools/cpp/build-support/lintutils.pyc |only arrow-13.0.0/arrow/tools/cpp/src/arrow/Testing |only 16 files changed, 64 insertions(+), 47 deletions(-)
Title: 'REPPlab' via a Shiny Application
Description: Performs exploratory projection pursuit via 'REPPlab' (Daniel Fischer, Alain Berro, Klaus Nordhausen & Anne Ruiz-Gazen (2019) <doi:10.1080/03610918.2019.1626880>) using a Shiny app.
Author: Thomas Janka [aut],
Klaus Nordhausen [cre, aut] ,
Anne Ruiz-Gazen [aut]
Maintainer: Klaus Nordhausen <klausnordhausenR@gmail.com>
Diff between REPPlabShiny versions 0.4.1 dated 2020-11-03 and 0.4.2 dated 2023-09-22
DESCRIPTION | 15 +++++++-------- MD5 | 8 ++++---- R/REPPlabShiny.R | 3 +-- inst/ChangeLog | 4 ++++ man/REPPlabShiny.Rd | 9 ++++----- 5 files changed, 20 insertions(+), 19 deletions(-)
Title: Out-of-Sample R² with Standard Error Estimation
Description: Estimates out-of-sample R² through bootstrap or cross-validation as a measure of predictive performance. In addition, a standard error for this point estimate is provided, and confidence intervals are constructed.
Author: Stijn Hawinkel [cre, aut]
Maintainer: Stijn Hawinkel <stijn.hawinkel@psb.ugent.be>
Diff between oosse versions 1.0.8 dated 2023-08-30 and 1.0.10 dated 2023-09-22
DESCRIPTION | 6 +-- MD5 | 18 ++++----- R/R2oosse.R | 14 ++++++- build/partial.rdb |binary inst/NEWS.Rmd | 10 ++++- inst/doc/oosseVignette.R | 9 ++++ inst/doc/oosseVignette.Rmd | 15 +++++++ inst/doc/oosseVignette.html | 81 ++++++++++++++++++++++++------------------ tests/testthat/test-R2oosse.R | 8 ++++ vignettes/oosseVignette.Rmd | 15 +++++++ 10 files changed, 125 insertions(+), 51 deletions(-)
Title: Lake Morphometry Metrics
Description: Lake morphometry metrics are used by limnologists to understand,
among other things, the ecological processes in a lake. Traditionally, these
metrics are calculated by hand, with planimeters, and increasingly with
commercial GIS products. All of these methods work; however, they are either
outdated, difficult to reproduce, or require expensive licenses to use. The
'lakemorpho' package provides the tools to calculate a typical suite
of these metrics from an input elevation model and lake polygon. The metrics
currently supported are: fetch, major axis, minor axis, major/minor axis
ratio, maximum length, maximum width, mean width, maximum depth, mean depth,
shoreline development, shoreline length, surface area, and volume.
Author: Jeffrey W. Hollister [aut, cre]
,
Jemma Stachelek [aut]
Maintainer: Jeffrey W. Hollister <hollister.jeff@epa.gov>
Diff between lakemorpho versions 1.3.0 dated 2023-09-15 and 1.3.2 dated 2023-09-22
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- R/calcLakeMetrics.R | 2 +- R/lakeFetch.R | 1 - R/lakeMajorAxisLength.R | 1 - R/lakeMaxLength.R | 3 +-- R/lakeMaxWidth.R | 5 ++--- R/lakeMeanWidth.R | 2 +- R/zzz.r | 2 +- man/calcLakeMetrics.Rd | 2 +- man/lakeFetch.Rd | 1 - man/lakeMajorAxisLength.Rd | 1 - man/lakeMaxLength.Rd | 3 +-- man/lakeMaxWidth.Rd | 3 +-- man/lakeMeanWidth.Rd | 2 +- 15 files changed, 27 insertions(+), 35 deletions(-)
Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features
used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' implements
graph algorithms including (i) maximum cardinality search (for marked
and unmarked graphs).
(ii) moralization, (iii) triangulation, (iv) creation of junction tree.
'gRbase' facilitates array operations,
'gRbase' implements functions for testing for conditional independence.
'gRbase' illustrates how hierarchical log-linear models may be
implemented and describes concept of graphical meta
data.
The facilities of the package are documented in the book by Højsgaard,
Edwards and Lauritzen (2012,
<doi:10.1007/978-1-4614-2299-0>) and in the paper by
Dethlefsen and Højsgaard, (2005, <doi:10.18637/jss.v014.i17>).
Please see 'citation("gRbase")' for citation details.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRbase versions 1.9.0 dated 2023-09-01 and 2.0.0 dated 2023-09-22
gRbase-1.9.0/gRbase/R/DATA-cad.R |only gRbase-1.9.0/gRbase/R/DEPRECATED.R |only gRbase-1.9.0/gRbase/R/NAMESPACE.R |only gRbase-1.9.0/gRbase/R/api_array_tab-create.R |only gRbase-1.9.0/gRbase/R/data-description.R |only gRbase-1.9.0/gRbase/R/graph-coerce-list.R |only gRbase-1.9.0/gRbase/R/graph-coerce-xxx2yyy.R |only gRbase-1.9.0/gRbase/R/graph-coerce.R |only gRbase-1.9.0/gRbase/R/graph-create-ugdag.R |only gRbase-1.9.0/gRbase/R/graph-iplot.R |only gRbase-1.9.0/gRbase/R/graph-is.R |only gRbase-1.9.0/gRbase/R/graph-mcs.R |only gRbase-1.9.0/gRbase/R/graph-mintriang.R |only gRbase-1.9.0/gRbase/R/graph-moralize.R |only gRbase-1.9.0/gRbase/R/graph-mpd.R |only gRbase-1.9.0/gRbase/R/graph-properties.R |only gRbase-1.9.0/gRbase/R/graph-querygraph.R |only gRbase-1.9.0/gRbase/R/graph-rip.R |only gRbase-1.9.0/gRbase/R/graph-topoSort.R |only gRbase-1.9.0/gRbase/R/graph-triangulate.R |only gRbase-1.9.0/gRbase/R/graph-utilities.R |only gRbase-1.9.0/gRbase/R/grbase-check-functions.R |only gRbase-1.9.0/gRbase/R/grbase-utilities.R |only gRbase-1.9.0/gRbase/R/internal-grbase.R |only gRbase-1.9.0/gRbase/R/processFormula.R |only gRbase-1.9.0/gRbase/R/xxx_downstream-depends.R |only gRbase-1.9.0/gRbase/R/xxx_gmwr-depends.R |only gRbase-1.9.0/gRbase/R/yyyPrim.R |only gRbase-1.9.0/gRbase/data/lizardAGG.txt.gz |only gRbase-1.9.0/gRbase/data/lizardRAW.txt.gz |only gRbase-1.9.0/gRbase/inst/doc/graphs.R |only gRbase-1.9.0/gRbase/inst/doc/graphs.Rnw |only gRbase-1.9.0/gRbase/inst/doc/graphs.pdf |only gRbase-1.9.0/gRbase/man/graph-coerce-list.Rd |only gRbase-1.9.0/gRbase/man/graph-iplot.Rd |only gRbase-1.9.0/gRbase/man/graph-is.Rd |only gRbase-1.9.0/gRbase/man/graph-query.Rd |only gRbase-1.9.0/gRbase/man/graph-toposort.Rd |only gRbase-1.9.0/gRbase/man/graph-vpar.Rd |only gRbase-1.9.0/gRbase/tests |only gRbase-1.9.0/gRbase/vignettes/graphs.Rnw |only gRbase-2.0.0/gRbase/DESCRIPTION | 13 - gRbase-2.0.0/gRbase/MD5 | 179 ++++++++---------- gRbase-2.0.0/gRbase/NAMESPACE | 59 ++--- gRbase-2.0.0/gRbase/NEWS | 16 + gRbase-2.0.0/gRbase/R/DATA_cad.R |only gRbase-2.0.0/gRbase/R/DATA_grbase.R |only gRbase-2.0.0/gRbase/R/NAMESPACE_grbase.R |only gRbase-2.0.0/gRbase/R/api_array_tab_create.R |only gRbase-2.0.0/gRbase/R/generics.R | 3 gRbase-2.0.0/gRbase/R/graph_coerce.R |only gRbase-2.0.0/gRbase/R/graph_coerce_list.R |only gRbase-2.0.0/gRbase/R/graph_coerce_xxx2yyy.R |only gRbase-2.0.0/gRbase/R/graph_create_ugdag.R |only gRbase-2.0.0/gRbase/R/graph_iplot.R |only gRbase-2.0.0/gRbase/R/graph_is.R |only gRbase-2.0.0/gRbase/R/graph_mcs.R |only gRbase-2.0.0/gRbase/R/graph_moralize.R |only gRbase-2.0.0/gRbase/R/graph_properties.R |only gRbase-2.0.0/gRbase/R/graph_querygraph.R |only gRbase-2.0.0/gRbase/R/graph_rip.R |only gRbase-2.0.0/gRbase/R/graph_topo_sort.R |only gRbase-2.0.0/gRbase/R/graph_triangulate.R |only gRbase-2.0.0/gRbase/R/graph_utilities.R |only gRbase-2.0.0/gRbase/R/grbase_check_functions.R |only gRbase-2.0.0/gRbase/R/grbase_utilities.R |only gRbase-2.0.0/gRbase/R/igraph_mintriang.R |only gRbase-2.0.0/gRbase/R/igraph_mpd.R |only gRbase-2.0.0/gRbase/R/internal_grbase.R |only gRbase-2.0.0/gRbase/R/process_formula.R |only gRbase-2.0.0/gRbase/R/xxx_downstream_depends.R |only gRbase-2.0.0/gRbase/R/xxx_gmwr_depends.R |only gRbase-2.0.0/gRbase/R/yyy_prim.R |only gRbase-2.0.0/gRbase/R/zzz.R | 97 +++------ gRbase-2.0.0/gRbase/build/vignette.rds |binary gRbase-2.0.0/gRbase/data/lizardAGG.txt |only gRbase-2.0.0/gRbase/data/lizardRAW.txt |only gRbase-2.0.0/gRbase/inst/doc/arrays.pdf |binary gRbase-2.0.0/gRbase/inst/doc/graphs_chapter.R |only gRbase-2.0.0/gRbase/inst/doc/graphs_chapter.Rnw |only gRbase-2.0.0/gRbase/inst/doc/graphs_chapter.pdf |only gRbase-2.0.0/gRbase/inst/include/gRbase_RcppExports.h | 1 gRbase-2.0.0/gRbase/man/api-tabNew.Rd | 2 gRbase-2.0.0/gRbase/man/dag2chol.Rd | 6 gRbase-2.0.0/gRbase/man/data-BodyFat.Rd | 2 gRbase-2.0.0/gRbase/man/data-Nutrimouse.Rd | 2 gRbase-2.0.0/gRbase/man/data-ashtrees.Rd | 2 gRbase-2.0.0/gRbase/man/data-breastcancer.Rd | 2 gRbase-2.0.0/gRbase/man/data-carcass.Rd | 2 gRbase-2.0.0/gRbase/man/data-chestSim.Rd | 2 gRbase-2.0.0/gRbase/man/data-dietox.Rd | 2 gRbase-2.0.0/gRbase/man/data-dumping.Rd | 2 gRbase-2.0.0/gRbase/man/data-lizard.Rd | 2 gRbase-2.0.0/gRbase/man/data-mathmark.Rd | 2 gRbase-2.0.0/gRbase/man/data-mildew.Rd | 2 gRbase-2.0.0/gRbase/man/data-milkcomp.Rd | 2 gRbase-2.0.0/gRbase/man/data-personality.Rd | 2 gRbase-2.0.0/gRbase/man/data-rats.Rd | 2 gRbase-2.0.0/gRbase/man/data-reinis.Rd | 2 gRbase-2.0.0/gRbase/man/data-wine.Rd | 2 gRbase-2.0.0/gRbase/man/data_cad.Rd | 2 gRbase-2.0.0/gRbase/man/downstream-aliases.Rd | 2 gRbase-2.0.0/gRbase/man/gmwr_book.Rd | 6 gRbase-2.0.0/gRbase/man/graph-clique.Rd | 5 gRbase-2.0.0/gRbase/man/graph-coerce-api.Rd | 49 ---- gRbase-2.0.0/gRbase/man/graph-coerce.Rd | 2 gRbase-2.0.0/gRbase/man/graph-create.Rd | 17 - gRbase-2.0.0/gRbase/man/graph-edgeList.Rd | 2 gRbase-2.0.0/gRbase/man/graph-gcproperties.Rd | 2 gRbase-2.0.0/gRbase/man/graph-mcs.Rd | 2 gRbase-2.0.0/gRbase/man/graph-min-triangulate.Rd | 11 - gRbase-2.0.0/gRbase/man/graph-moralize.Rd | 2 gRbase-2.0.0/gRbase/man/graph-mpd.Rd | 2 gRbase-2.0.0/gRbase/man/graph-randomdag.Rd | 2 gRbase-2.0.0/gRbase/man/graph-rip.Rd | 2 gRbase-2.0.0/gRbase/man/graph-triangulate.Rd | 2 gRbase-2.0.0/gRbase/man/graph-ug2dag.Rd | 10 - gRbase-2.0.0/gRbase/man/graph_coerce_list.Rd |only gRbase-2.0.0/gRbase/man/graph_iplot.Rd |only gRbase-2.0.0/gRbase/man/graph_is.Rd |only gRbase-2.0.0/gRbase/man/graph_query.Rd |only gRbase-2.0.0/gRbase/man/graph_topo_sort.Rd |only gRbase-2.0.0/gRbase/man/graph_vpar.Rd |only gRbase-2.0.0/gRbase/man/grbase-utilities.Rd | 2 gRbase-2.0.0/gRbase/man/internal.Rd | 2 gRbase-2.0.0/gRbase/src/RcppExports.cpp | 1 gRbase-2.0.0/gRbase/vignettes/GMwR.bib |only gRbase-2.0.0/gRbase/vignettes/GMwR.sty |only gRbase-2.0.0/gRbase/vignettes/GMwR_strings.bib |only gRbase-2.0.0/gRbase/vignettes/figman |only gRbase-2.0.0/gRbase/vignettes/graphs_chapter.Rnw |only 131 files changed, 217 insertions(+), 316 deletions(-)
Title: Report Functions to Create HTML and PDF Files
Description: Create and combine HTML and PDF reports from within R.
Possibility to design tables and listings for reporting and also include R plots.
Author: Richard Hooijmaijers [aut, cre],
Richard Hooijmaijers [cph]
Maintainer: Richard Hooijmaijers <richardhooijmaijers@gmail.com>
Diff between R3port versions 0.2.4 dated 2020-09-17 and 0.2.5 dated 2023-09-22
DESCRIPTION | 9 MD5 | 20 - NEWS.md | 4 R/R3port-package.r | 2 R/html_combine.r | 2 R/html_plot.r | 2 R/ltx_combine.r | 2 R/ltx_plot.r | 2 build/vignette.rds |binary inst/doc/R3port-vignette.html | 473 +++++++++++++++++++++++++++--------------- man/R3port.Rd | 17 + 11 files changed, 354 insertions(+), 179 deletions(-)
Title: Visual Regression Testing and Graphical Diffing
Description: An extension to the 'testthat' package that makes it easy
to add graphical unit tests. It provides a Shiny application to
manage the test cases.
Author: Lionel Henry [cre, aut],
Thomas Lin Pedersen [aut] ,
Posit Software, PBC [cph, fnd],
T Jake Luciani [aut] ,
Matthieu Decorde [aut] ,
Vaudor Lise [aut] ,
Tony Plate [ctb] ,
David Gohel [ctb] ,
Yixuan Qiu [ctb] ,
Hakon Malmedal [ctb]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between vdiffr versions 1.0.6 dated 2023-08-25 and 1.0.7 dated 2023-09-22
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 5 +++++ src/Makevars | 2 ++ src/Makevars.ucrt | 2 ++ src/Makevars.win | 2 ++ 6 files changed, 20 insertions(+), 9 deletions(-)
Title: Simulate Package Installation and Attach
Description: Simulates the process of installing a package and then
attaching it. This is a key part of the 'devtools' package as it
allows you to rapidly iterate while developing a package.
Author: Hadley Wickham [aut],
Winston Chang [aut],
Jim Hester [aut],
Lionel Henry [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between pkgload versions 1.3.2.1 dated 2023-07-08 and 1.3.3 dated 2023-09-22
DESCRIPTION | 24 +++++++-------- MD5 | 55 +++++++++++++++++++----------------- NAMESPACE | 2 + NEWS.md | 19 +++++++++++- R/dev-example.R | 2 - R/dev-help.R | 9 +++-- R/dev-meta.R | 2 - R/dev-topic.R | 6 +++ R/imports-env.R | 2 - R/load.R | 12 +------ R/namespace-env.R | 13 +++++--- R/package.R | 10 +++++- R/remove-s4-class.R | 4 +- R/zzz.R | 4 +- man/dev_example.Rd | 2 - man/dev_help.Rd | 14 ++++++--- man/dev_meta.Rd | 2 - man/imports_env.Rd | 2 - man/load_all.Rd | 4 +- man/packages.Rd | 7 +++- man/pkgload-package.Rd | 4 +- tests/testthat/_snaps/depend.md | 4 +- tests/testthat/helper-pkgload.R | 8 +++++ tests/testthat/test-load.R | 8 ++++- tests/testthat/test-namespace-env.R |only tests/testthat/test-po.R | 8 ++--- tests/testthat/test-s4-unload.R | 4 +- tests/testthat/testActiveBindings |only tests/testthat/testVersionSep |only 29 files changed, 145 insertions(+), 86 deletions(-)
Title: Board Game Graphics
Description: Functions to make board game graphics with the 'ggplot2', 'grid', 'rayrender', 'rayvertex', and 'rgl' packages. Specializes in game diagrams, animations, and "Print & Play" layouts for the 'piecepack' <https://www.ludism.org/ppwiki> but can make graphics for other board game systems. Includes configurations for several public domain game systems such as checkers, (double-18) dominoes, go, 'piecepack', playing cards, etc.
Author: Trevor L Davis [aut, cre] ,
Linux Foundation [dtc] ,
Delapouite <https://delapouite.com/> [ill] ,
Creative Commons [ill] ` uses "license badges"
from Creative Commons to describe the generated print-and-play
file's license)
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between piecepackr versions 1.13.6 dated 2023-08-25 and 1.13.8 dated 2023-09-22
DESCRIPTION | 6 ++-- MD5 | 24 ++++++++-------- NEWS.md | 11 +++++++ R/game_systems.R | 3 -- R/piecepackr-package.R | 3 +- R/utils-font.R | 52 +++++++++++++++++++++++++++--------- man/font_utils.Rd | 15 ++++++---- man/game_systems.Rd | 3 -- man/piecepackr-package.Rd | 3 +- tests/testthat/test-animate_piece.R | 2 + tests/testthat/test-game_systems.R | 2 + tests/testthat/test-obj.R | 1 tests/testthat/test-utils.R | 3 ++ 13 files changed, 89 insertions(+), 39 deletions(-)
Title: Multivariate Genome Wide Marginal Epistasis Test
Description: Epistasis, commonly defined as the interaction between genetic
loci, is known to play an important role in the phenotypic variation of
complex traits. As a result, many statistical methods have been developed to
identify genetic variants that are involved in epistasis, and nearly all of
these approaches carry out this task by focusing on analyzing one trait at a
time. Previous studies have shown that jointly modeling multiple phenotypes
can often dramatically increase statistical power for association mapping. In
this package, we present the 'multivariate MArginal ePIstasis Test'
('mvMAPIT') – a multi-outcome generalization of a recently proposed epistatic
detection method which seeks to detect marginal epistasis or the combined
pairwise interaction effects between a given variant and all other variants.
By searching for marginal epistatic effects, one can identify genetic variants
that are involved in epistasis without the need to identify the exact
partners with which the variants i [...truncated...]
Author: Julian Stamp [cre, aut] ,
Lorin Crawford [aut]
Maintainer: Julian Stamp <julian_stamp@brown.edu>
Diff between mvMAPIT versions 2.0.1 dated 2023-02-09 and 2.0.2 dated 2023-09-22
DESCRIPTION | 15 - MD5 | 43 ++- NAMESPACE | 2 NEWS.md | 9 R/MAPIT.R | 5 R/combine_pvalues.R | 71 ++++++ R/simulate_data.R | 25 +- README.md | 11 - build/vignette.rds |binary inst/doc/mvMAPIT.Rmd | 14 - inst/doc/mvMAPIT.html | 22 +- inst/doc/study-compare-p-value-combine-methods.R |only inst/doc/study-compare-p-value-combine-methods.Rmd |only inst/doc/study-compare-p-value-combine-methods.html |only inst/doc/study-wtccc-mice.Rmd | 2 inst/doc/study-wtccc-mice.html | 2 inst/doc/tutorial-docker-mvmapit.html | 31 +- man/cauchy_combined.Rd |only src/MAPIT.cpp | 217 ++++++++++---------- src/RcppExports.cpp | 14 - tests/testthat/test-combine_pvalues.R | 43 +++ tests/testthat/test-simulate_data.R | 68 ++++++ vignettes/mvMAPIT.Rmd | 14 - vignettes/study-compare-p-value-combine-methods.Rmd |only vignettes/study-wtccc-mice.Rmd | 2 25 files changed, 415 insertions(+), 195 deletions(-)
Title: Core Functionality for Environmental Time Series
Description: Utility functions for working with environmental time series data from known
locations. The compact data model is structured as a list with two dataframes. A
'meta' dataframe contains spatial and measuring device metadata associated with
deployments at known locations. A 'data' dataframe contains a 'datetime' column
followed by columns of measurements associated with each "device-deployment".
Ephemerides calculations are based on code originally found in NOAA's
"Solar Calculator" <https://gml.noaa.gov/grad/solcalc/>.
Author: Jonathan Callahan [aut, cre],
Hans Martin [ctb],
Eli Grosman [ctb],
Roger Bivand [ctb],
Sebastian Luque [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaTimeSeries versions 0.2.14 dated 2023-09-08 and 0.2.15 dated 2023-09-22
DESCRIPTION | 6 - MD5 | 27 +++--- NEWS.md | 8 ++ R/mts_filterDatetime.R | 44 ++++++----- R/mts_setTimeAxis.R | 21 +++-- R/utils-internal.R | 4 - inst/doc/Developer_Style_Guide.html | 14 +-- inst/doc/MazamaTimeSeries.html | 14 +-- man/mts_filterDatetime.Rd | 23 +---- man/mts_setTimeAxis.Rd | 16 ++-- tests/testthat/test-mts_filterDate.R | 12 +-- tests/testthat/test-mts_filterDatetime.R | 12 +-- tests/testthat/test-mts_setTimeAxis.R |only tests/testthat/test-sts_filterDate.R | 124 +++++++++++++++---------------- tests/testthat/test-sts_filterDatetime.R | 12 +-- 15 files changed, 172 insertions(+), 165 deletions(-)
More information about MazamaTimeSeries at CRAN
Permanent link
Title: An R Interface to Open-Access Malaria Data, Hosted by the
'Malaria Atlas Project'
Description: A suite of tools to allow you to download all
publicly available parasite rate survey points, mosquito occurrence points and raster surfaces from
the 'Malaria Atlas Project' <https://malariaatlas.org/> servers as well as utility functions for plotting
the downloaded data.
Author: Mauricio van den Berg [aut, cre],
Sarah Connor [aut],
Daniel Pfeffer [aut] ,
Tim Lucas [aut] ,
Daniel May [aut] ,
Suzanne Keddie [aut] ,
Jen Rozier [aut] ,
Oliver Watson [aut] ,
Harry Gibson [aut] ,
Nick Golding [ctb],
David Smith [ctb]
Maintainer: Mauricio van den Berg <mauricio.vandenberg@telethonkids.org.au>
Diff between malariaAtlas versions 1.0.1 dated 2020-06-01 and 1.2.0 dated 2023-09-22
DESCRIPTION | 25 - MD5 | 94 ++-- NAMESPACE | 3 R/as.MAPraster.R | 4 R/as.MAPshp.R | 11 R/autoplot.MAPraster.R | 19 R/autoplot.MAPshp.R | 12 R/autoplot.SpatRaster.R |only R/autoplot.SpatRasterCollection.R |only R/autoplot.pr.points.R | 42 -- R/autoplot.sf.R |only R/autoplot.vector.points.R | 50 +- R/autoplotRasterHelper.R |only R/autoplot_MAPraster.R | 23 - R/convertPrevalence.R | 4 R/fillDHScoordinates.R | 50 +- R/getPR.R | 9 R/getRaster.R | 50 +- R/getShp.R | 61 +-- R/getSpBbox.R |only R/getVecOcc.R | 9 README.md | 242 +++++------- build/vignette.rds |binary inst/CITATION | 47 +- inst/doc/overview.Rmd | 20 - inst/doc/overview.html | 608 ++++++++++++++----------------- man/autoplot.MAPraster.Rd | 13 man/autoplot.SpatRaster.Rd |only man/autoplot.SpatRasterCollection.Rd |only man/autoplot.pr.points.Rd | 16 man/autoplot.sf.Rd |only man/autoplot.vector.points.Rd | 24 - man/autoplot_MAPraster.Rd | 16 man/figures/unnamed-chunk-11-1.png |binary man/figures/unnamed-chunk-12-1.png |binary man/figures/unnamed-chunk-15-1.png |binary man/figures/unnamed-chunk-16-1.png |binary man/figures/unnamed-chunk-19-1.png |binary man/figures/unnamed-chunk-20-1.png |binary man/figures/unnamed-chunk-22-1.png |binary man/figures/unnamed-chunk-23-1.png |binary man/figures/unnamed-chunk-24-1.png |binary man/getPR.Rd | 2 man/getRaster.Rd | 10 man/getShp.Rd | 6 man/getSpBbox.Rd |only man/getVecOcc.Rd | 2 man/makeSpatRasterAutoplot.Rd |only tests/testthat/test_autoplot.MAPraster.R | 12 tests/testthat/test_getPR.R | 1 tests/testthat/test_getRaster.R | 26 - tests/testthat/test_getShp.R | 32 - vignettes/overview.Rmd | 20 - 53 files changed, 735 insertions(+), 828 deletions(-)
Title: Extensions for 'HDF5' R Interfaces
Description: Some methods to manipulate 'HDF5' files, extending the 'hdf5r' package. Reading and writing R objects to 'HDF5' formats follow the specification of 'AnnData' <https://anndata.readthedocs.io/en/latest/fileformat-prose.html>.
Author: Yuchen Li [aut, cre]
Maintainer: Yuchen Li <ycli1995@outlook.com>
Diff between hdf5r.Extra versions 0.0.1 dated 2023-09-14 and 0.0.2 dated 2023-09-22
DESCRIPTION | 8 +- MD5 | 23 +++---- NEWS.md |only R/hdf5-functions.R | 96 ++++++++++++++++++++--------- R/hdf5-internal.R | 157 +++++++++++++++++++++++++++---------------------- R/hdf5-methods.R | 21 +++--- man/H5-attributs.Rd | 2 man/H5-dataset-info.Rd | 2 man/h5Backup.Rd | 7 +- man/h5Copy.Rd | 10 ++- man/h5Move.Rd | 7 +- man/h5Open.Rd | 4 - man/h5TryOpen.Rd | 4 - 13 files changed, 201 insertions(+), 140 deletions(-)
Title: Floristic Quality Assessment Tools for R
Description: Tools for downloading and analyzing floristic quality assessment data.
See Freyman et al. (2015) <doi:10.1111/2041-210X.12491> for more information
about floristic quality assessment and the associated database.
Author: Andrew Gard [aut, cre] ,
Alexia Myers [aut],
Irene Luwabelwa [aut]
Maintainer: Andrew Gard <agard@lakeforest.edu>
Diff between fqar versions 0.4.1 dated 2023-08-28 and 0.4.2 dated 2023-09-22
DESCRIPTION | 6 MD5 | 26 +- NEWS.md | 4 R/index_fqa_transects_internal.R | 3 R/sysdata.rda |binary data/chicago.rda |binary data/missouri.rda |binary inst/doc/fqar.R | 243 +++++++++++++++++---------- inst/doc/fqar.Rmd | 157 ++++++++++++++--- inst/doc/fqar.html | 133 +++++++------- tests/testthat/test-download_transect_list.R | 2 vignettes/fqar |only vignettes/fqar.Rmd | 157 ++++++++++++++--- vignettes/missouri_plot.png |only vignettes/profile.png |only vignettes/vignette_notes |only 16 files changed, 508 insertions(+), 223 deletions(-)
Title: Time-Weighted Dynamic Time Warping for Satellite Image Time
Series Analysis
Description: Provides a robust approach to land use mapping using multi-dimensional
(multi-band) satellite image time series. By leveraging the Time-Weighted Dynamic
Time Warping (TWDTW) distance metric in tandem with a 1 Nearest-Neighbor (1-NN) Classifier,
this package offers functions to produce land use maps based on distinct seasonality patterns,
commonly observed in the phenological cycles of vegetation. The approach is described in
Maus et al. (2016) <doi:10.1109/JSTARS.2016.2517118> and Maus et al. (2019) <doi:10.18637/jss.v088.i05>.
A primary advantage of TWDTW is its capability to handle irregularly sampled and noisy time series,
while also requiring minimal training sets. The package includes tools for training the 1-NN-TWDTW model,
visualizing temporal patterns, producing land use maps, and visualizing the results.
Author: Victor Maus [aut, cre] ,
Marius Appel [ctb] ,
Nikolas Kuschnig [ctb] ,
Toni Giorgino [ctb]
Maintainer: Victor Maus <vwmaus1@gmail.com>
Diff between dtwSat versions 0.2.8 dated 2022-10-11 and 1.0.0 dated 2023-09-22
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dtwSat-1.0.0/dtwSat/inst/doc/landuse-mapping.R |only dtwSat-1.0.0/dtwSat/inst/doc/landuse-mapping.Rmd |only dtwSat-1.0.0/dtwSat/inst/doc/landuse-mapping.html |only dtwSat-1.0.0/dtwSat/inst/mato_grosso_brazil |only dtwSat-1.0.0/dtwSat/man/get_time_series_freq.Rd |only dtwSat-1.0.0/dtwSat/man/plot.twdtw_knn1.Rd |only dtwSat-1.0.0/dtwSat/man/predict.twdtw_knn1.Rd |only dtwSat-1.0.0/dtwSat/man/prepare_time_series.Rd |only dtwSat-1.0.0/dtwSat/man/pretty_arguments.Rd |only dtwSat-1.0.0/dtwSat/man/print.twdtw_knn1.Rd |only dtwSat-1.0.0/dtwSat/man/shift_dates.Rd |only dtwSat-1.0.0/dtwSat/man/twdtw_knn1.Rd |only dtwSat-1.0.0/dtwSat/tests |only dtwSat-1.0.0/dtwSat/vignettes/landuse-mapping.Rmd |only 123 files changed, 151 insertions(+), 648 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-21 0.5.5
2023-07-19 0.5.4
2023-03-08 0.5.3
2023-01-17 0.5.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-02-03 1.0-11
Title: Fitting Point Process Models via the Palm Likelihood
Description: Functions to fit point process models using the Palm likelihood. First proposed by Tanaka, Ogata, and Stoyan (2008) <DOI:10.1002/bimj.200610339>, maximisation of the Palm likelihood can provide computationally efficient parameter estimation for point process models in situations where the full likelihood is intractable. This package is chiefly focused on Neyman-Scott point processes, but can also fit the void processes proposed by Jones-Todd et al. (2019) <DOI:10.1002/sim.8046>. The development of this package was motivated by the analysis of capture-recapture surveys on which individuals cannot be identified---the data from which can conceptually be seen as a clustered point process (Stevenson, Borchers, and Fewster, 2019 <DOI:10.1111/biom.12983>). As such, some of the functions in this package are specifically for the estimation of cetacean density from two-camera aerial surveys.
Author: Ben Stevenson <ben.stevenson@auckland.ac.nz>
Maintainer: Ben Stevenson <ben.stevenson@auckland.ac.nz>
Diff between palm versions 1.1.4 dated 2020-09-25 and 1.1.5 dated 2023-09-22
DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ NEWS | 5 +++++ R/fit-ns.r | 16 +++++++++------- R/palm.r | 11 ++++++----- README.md | 8 ++++---- man/fit.ns.Rd | 9 +++++---- man/fit.twocamera.Rd | 2 +- man/fit.void.Rd | 3 ++- man/palm.Rd | 5 +++-- man/porpoise.data.Rd | 6 +++--- man/sim.ns.Rd | 2 +- src/RcppExports.cpp | 5 +++++ 13 files changed, 61 insertions(+), 45 deletions(-)
Title: Statistical Methods for the Analysis of Case-Control Point Data
Description: Statistical methods for analyzing case-control point data. Methods include the ratio of kernel densities, the difference in K Functions, the spatial scan statistic, and q nearest neighbors of cases.
Author: Joshua French [aut, cre]
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smacpod versions 2.5 dated 2022-11-17 and 2.6 dated 2023-09-21
DESCRIPTION | 10 MD5 | 22 - NEWS.md | 5 R/kdest-summary.R | 12 R/qnn.test.R | 2 R/smacpod-package.R |only R/spscan.test.R | 4 build/vignette.rds |binary inst/doc/smacpod_demo.Rmd | 6 inst/doc/smacpod_demo.html | 704 +++++++++++++++++++++------------------------ man/smacpod.Rd |only man/spscan.test.Rd | 2 vignettes/smacpod_demo.Rmd | 6 13 files changed, 376 insertions(+), 397 deletions(-)
Title: Computation of Bayes Factors for Common Designs
Description: A suite of functions for computing
various Bayes factors for simple designs, including contingency tables,
one- and two-sample designs, one-way designs, general ANOVA designs, and
linear regression.
Author: Richard D. Morey [aut, cre, cph],
Jeffrey N. Rouder [aut],
Tahira Jamil [ctb, cph],
Simon Urbanek [ctb, cph],
Karl Forner [ctb, cph],
Alexander Ly [ctb, cph]
Maintainer: Richard D. Morey <richarddmorey@gmail.com>
Diff between BayesFactor versions 0.9.12-4.4 dated 2022-07-05 and 0.9.12-4.5 dated 2023-09-21
DESCRIPTION | 14 MD5 | 40 NEWS | 7 R/BayesFactorPCL-package.R | 2 R/checking.R | 2 R/meta-ttest-utility.R | 21 R/ttest_tstat.R | 2 build/vignette.rds |binary inst/doc/compare_lme4.html | 536 +++----- inst/doc/index.html | 236 +-- inst/doc/manual.R | 34 inst/doc/manual.Rmd | 175 +- inst/doc/manual.html | 2947 ++++++++++++++++++++++++--------------------- inst/doc/odds_probs.html | 416 ++---- inst/doc/priors.R | 2 inst/doc/priors.Rmd | 2 inst/doc/priors.html | 444 ++---- man/BayesFactor-package.Rd | 2 man/ttest.tstat.Rd | 2 vignettes/manual.Rmd | 175 +- vignettes/priors.Rmd | 2 21 files changed, 2463 insertions(+), 2598 deletions(-)
Title: Fitting Survival Regression Models via 'Stan'
Description: Parametric survival regression models under the maximum likelihood approach via 'Stan'. Implemented regression models include accelerated failure time models, proportional hazards models, proportional odds models, accelerated hazard models, and Yang and Prentice models. Available baseline survival distributions include exponential, Weibull, log-normal, log-logistic, and fatigue (Birnbaum-Saunders) distributions. References: Lawless (2002) <ISBN:9780471372158>; Bennett (1982) <doi:10.1002/sim.4780020223>; Chen and Wang(2000) <doi:10.1080/01621459.2000.10474236>; Demarqui and Mayrink (2021) <doi:10.1214/20-BJPS471>.
Author: Fabio Demarqui [aut, cre, cph]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>
Diff between survstan versions 0.0.3 dated 2023-08-09 and 0.0.4 dated 2023-09-21
DESCRIPTION | 14 MD5 | 36 NEWS.md | 4 R/aftreg.R | 3 R/utils.R | 4 R/ypreg.R | 3 README.md | 23 build/partial.rdb |binary inst/doc/LRT.R | 54 inst/doc/LRT.Rmd | 78 inst/doc/LRT.html | 154 - inst/doc/survstan.R | 49 inst/doc/survstan.Rmd | 95 - inst/doc/survstan.html | 194 +- inst/stan/chunks/baselines.stan | 53 inst/stan/survreg.stan | 21 src/stanExports_survreg.h | 3271 +++++++++++++++++++++++----------------- vignettes/LRT.Rmd | 78 vignettes/survstan.Rmd | 95 - 19 files changed, 2427 insertions(+), 1802 deletions(-)
Title: R Bindings for the 'prql-compiler' Rust Library
Description: Provides a function to convert 'PRQL' strings to 'SQL' strings.
Combined with other R functions that take 'SQL' as an argument,
'PRQL' can be used on R.
Author: Tatsuya Shima [aut, cre],
Authors of the dependency Rust crates [aut]
Maintainer: Tatsuya Shima <ts1s1andn@gmail.com>
Diff between prqlr versions 0.5.2 dated 2023-09-11 and 0.5.3 dated 2023-09-21
DESCRIPTION | 8 +++--- LICENSE.note | 42 +++++++++++++-------------------- MD5 | 34 +++++++++++++------------- NEWS.md | 14 +++++++++++ R/knitr-engine.R | 22 +++++------------ README.md | 9 +++---- inst/doc/knitr.Rmd | 4 ++- inst/doc/knitr.html | 13 +++++----- inst/doc/prqlr.html | 2 - src/Makevars | 24 +++++++++--------- src/Makevars.win | 30 +++++++++++------------ src/rust/Cargo.lock | 43 +++++++++++++--------------------- src/rust/Cargo.toml | 2 - src/rust/vendor.tar.xz |binary tests/testthat/_snaps/compile.md | 4 +-- tests/testthat/_snaps/knitr-engine.md | 4 +-- tests/testthat/test-compile.R | 2 - vignettes/knitr.Rmd | 4 ++- 18 files changed, 128 insertions(+), 133 deletions(-)
Title: Isotopic Tracer Analysis Using MCMC
Description: Implements Bayesian models to analyze data from tracer addition
experiments. The implemented method was originally described in the article
"A New Method to Reconstruct Quantitative Food Webs and Nutrient Flows from
Isotope Tracer Addition Experiments" by López-Sepulcre et al. (2020)
<doi:10.1086/708546>.
Author: Andres Lopez-Sepulcre [aut] ,
Matthieu Bruneaux [aut, cre]
Maintainer: Matthieu Bruneaux <matthieu.bruneaux@gmail.com>
Diff between isotracer versions 1.1.4 dated 2023-03-21 and 1.1.5 dated 2023-09-21
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isotracer-1.1.5/isotracer/inst/doc/tutorial-050-fixed-effects.Rmd | 42 isotracer-1.1.5/isotracer/inst/doc/tutorial-050-fixed-effects.html | 44 isotracer-1.1.5/isotracer/inst/doc/tutorial-060-units-priors.Rmd | 2 isotracer-1.1.5/isotracer/inst/doc/tutorial-060-units-priors.html | 4 isotracer-1.1.5/isotracer/inst/doc/tutorial-070-prior-predictive-checks.Rmd | 2 isotracer-1.1.5/isotracer/inst/doc/tutorial-070-prior-predictive-checks.html | 4 isotracer-1.1.5/isotracer/inst/doc/tutorial-080-mcmc-output-format.Rmd | 119 isotracer-1.1.5/isotracer/inst/doc/tutorial-080-mcmc-output-format.html | 121 isotracer-1.1.5/isotracer/inst/doc/tutorial-090-post-run-analyses.Rmd | 142 isotracer-1.1.5/isotracer/inst/doc/tutorial-090-post-run-analyses.html | 144 isotracer-1.1.5/isotracer/inst/doc/tutorial-100-posterior-predictive-checks.Rmd | 14 isotracer-1.1.5/isotracer/inst/doc/tutorial-100-posterior-predictive-checks.html | 16 isotracer-1.1.5/isotracer/inst/doc/tutorial-110-derived-parameters.Rmd | 28 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isotracer-1.1.5/isotracer/vignettes/tutorial-100-posterior-predictive-checks.Rmd | 14 isotracer-1.1.5/isotracer/vignettes/tutorial-110-derived-parameters.Rmd | 28 isotracer-1.1.5/isotracer/vignettes/tutorial-120-howto-simulations.Rmd | 78 isotracer-1.1.5/isotracer/vignettes/tutorial-130-parameter-identifiability.Rmd | 31 111 files changed, 6812 insertions(+), 5315 deletions(-)
Title: Modelling Spatial Variation in Disease Risk for Areal Data
Description: Formatting of population and case data, calculation of Standardized
Incidence Ratios, and fitting the BYM model using 'INLA'. For details see Brown (2015) <doi:10.18637/jss.v063.i12>.
Author: Patrick Brown [aut, cre, cph],
Lutong Zhou [aut]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between diseasemapping versions 2.0.2 dated 2023-09-19 and 2.0.3 dated 2023-09-21
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/bym.R | 3 ++- build/diseasemapping.pdf |binary build/stage23.rdb |binary inst/doc/bym.Rnw | 6 ++++++ inst/doc/bym.pdf |binary man/diseasemapping-package.Rd | 8 ++++++-- tests/bym.R | 2 +- vignettes/bym.Rnw | 6 ++++++ 10 files changed, 34 insertions(+), 17 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Title: Automatic Phenotyping of Electronic Health Record at Visit
Resolution
Description: Using Electronic Health Record (EHR) is difficult because most of the time the true characteristic of the patient is not available. Instead we can retrieve the International Classification of Disease code related to the disease of interest or we can count the occurrence of the Unified Medical Language System. None of them is the true phenotype which needs chart review to identify. However chart review is time consuming and costly. 'PheVis' is an algorithm which is phenotyping (i.e identify a characteristic) at the visit level in an unsupervised fashion. It can be used for chronic or acute diseases. An example of how to use 'PheVis' is available in the vignette. Basically there are two functions that are to be used: `train_phevis()` which trains the algorithm and `test_phevis()` which get the predicted probabilities. The detailed method is described in preprint by Ferté et al. (2020) <doi:10.1101/2020.06.15.20131458>.
Author: Thomas Ferte [aut, cre],
Boris P. Hejblum [aut]
Maintainer: Thomas Ferte <thomas.ferte@u-bordeaux.fr>
Diff between PheVis versions 1.0.2 dated 2021-02-23 and 1.0.3 dated 2023-09-21
PheVis-1.0.2/PheVis/R/PheVis.R |only PheVis-1.0.2/PheVis/man/PheVis.Rd |only PheVis-1.0.3/PheVis/DESCRIPTION | 10 PheVis-1.0.3/PheVis/MD5 | 15 PheVis-1.0.3/PheVis/NEWS.md | 8 PheVis-1.0.3/PheVis/R/PheVis-package.R |only PheVis-1.0.3/PheVis/build/partial.rdb |only PheVis-1.0.3/PheVis/build/vignette.rds |binary PheVis-1.0.3/PheVis/inst/doc/TutoPheVis.html | 552 +++++++++++++-------------- PheVis-1.0.3/PheVis/man/PheVis-package.Rd |only PheVis-1.0.3/PheVis/src/RcppExports.cpp | 5 11 files changed, 301 insertions(+), 289 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.common versions 0.6.0 dated 2023-09-06 and 0.6.1 dated 2023-09-21
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 4 + R/iniutil.R | 76 ++++++++++++++++++++++++----------- R/xmlutil.R | 3 - tests/testthat/data_ini | 9 +++- tests/testthat/test_handlers_query.R | 24 +++++++++++ tests/testthat/test_iniutil.R | 8 +++ 8 files changed, 110 insertions(+), 34 deletions(-)
Title: Contains Regional Floristic Quality Assessment Databases
Description: Contains regional Floristic Quality Assessment databases that
have been approved or approved with reservations by the U.S. Army
Corps of Engineers (USACE). Paired with the 'fqacalc' R package, these
data sets allow for Floristic Quality Assessment metrics to be
calculated. For information on FQA see Spyreas (2019)
<doi:10.1002/ecs2.2825>. Both packages were developed for the USACE by
the U.S. Army Engineer Research and Development Center's
Environmental Laboratory.
Author: Iris Foxfoot [aut, cre],
U.S. Army Engineer Research and Development Center [cph, fnd]
Maintainer: Iris Foxfoot <iris.r.foxfoot@usace.army.mil>
Diff between fqadata versions 1.0.0 dated 2023-04-17 and 1.1.0 dated 2023-09-21
DESCRIPTION | 6 ++-- MD5 | 11 ++++---- NEWS.md |only README.md | 52 ++++++++++++++++++++++++------------------ data/fqa_citations.rda |binary data/fqa_db.rda |binary tests/testthat/test-fqadata.R | 2 + 7 files changed, 41 insertions(+), 30 deletions(-)
Title: Simulation-Based Inference for Regression Models
Description: Performs simulation-based inference as an alternative to the delta method for obtaining valid confidence intervals and p-values for regression post-estimation quantities, such as average marginal effects and predictions at representative values. This framework for simulation-based inference is especially useful when the resulting quantity is not normally distributed and the delta method approximation fails. The methodology is described in King, Tomz, and Wittenberg (2000) <doi:10.2307/2669316>. 'clarify' is meant to replace some of the functionality of the archived package 'Zelig'; see the vignette "Translating Zelig to clarify" for replicating this functionality.
Author: Noah Greifer [aut, cre] ,
Steven Worthington [aut] ,
Stefano Iacus [aut] ,
Gary King [aut]
Maintainer: Noah Greifer <ngreifer@iq.harvard.edu>
Diff between clarify versions 0.1.3 dated 2023-05-04 and 0.2.0 dated 2023-09-21
clarify-0.1.3/clarify/tests/testthat/fixtures/mimira.rds |only clarify-0.2.0/clarify/DESCRIPTION | 11 clarify-0.2.0/clarify/MD5 | 65 - clarify-0.2.0/clarify/NAMESPACE | 2 clarify-0.2.0/clarify/NEWS.md | 14 clarify-0.2.0/clarify/R/checks.R | 54 - clarify-0.2.0/clarify/R/clarify-package.R | 1 clarify-0.2.0/clarify/R/clarify_est_methods.R | 196 +++ clarify-0.2.0/clarify/R/clarify_predict.R | 51 - clarify-0.2.0/clarify/R/plot.clarify_adrf.R | 67 + clarify-0.2.0/clarify/R/plot.clarify_est.R | 4 clarify-0.2.0/clarify/R/plot.clarify_setx.R | 6 clarify-0.2.0/clarify/R/sim.R | 8 clarify-0.2.0/clarify/R/sim_adrf.R | 171 ++- clarify-0.2.0/clarify/R/sim_ame.R | 276 ++++- clarify-0.2.0/clarify/R/sim_apply.R | 40 clarify-0.2.0/clarify/R/sim_setx.R | 87 - clarify-0.2.0/clarify/R/summary.clarify_est.R | 12 clarify-0.2.0/clarify/R/utils.R | 22 clarify-0.2.0/clarify/build/partial.rdb |binary clarify-0.2.0/clarify/build/vignette.rds |binary clarify-0.2.0/clarify/inst/doc/Zelig.html | 308 +++--- clarify-0.2.0/clarify/inst/doc/clarify.R | 43 clarify-0.2.0/clarify/inst/doc/clarify.Rmd | 148 ++ clarify-0.2.0/clarify/inst/doc/clarify.html | 745 ++++++++------- clarify-0.2.0/clarify/man/sim_adrf.Rd | 20 clarify-0.2.0/clarify/man/sim_ame.Rd | 56 - clarify-0.2.0/clarify/man/sim_apply.Rd | 18 clarify-0.2.0/clarify/man/sim_setx.Rd | 14 clarify-0.2.0/clarify/man/summary.clarify_est.Rd | 5 clarify-0.2.0/clarify/tests/testthat/test-misim.R | 10 clarify-0.2.0/clarify/tests/testthat/test-sim_ame.R | 157 ++- clarify-0.2.0/clarify/vignettes/clarify.Rmd | 148 ++ clarify-0.2.0/clarify/vignettes/references.bib | 15 34 files changed, 1895 insertions(+), 879 deletions(-)
Title: Solving Linear Inverse Models
Description: Functions that (1) find the minimum/maximum of a linear or quadratic function:
min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(a_i*x_i)
subject to equality constraints Ex=f and/or inequality constraints Gx>=h,
(2) sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b,
(3) solve a linear system Ax=B for the unknown x. It includes banded and tridiagonal linear systems.
Author: Karline Soetaert [aut, cre],
Karel Van den Meersche [aut],
Dick van Oevelen [aut],
Charles L. Lawson [ctb] ,
Richard J. Hanson [ctb] ,
Jack Dongarra [ctb] ,
Cleve Moler [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between limSolve versions 1.5.6 dated 2019-11-14 and 1.5.7 dated 2023-09-21
limSolve-1.5.6/limSolve/inst/doc/E_coli.input |only limSolve-1.5.6/limSolve/inst/doc/linpackcomments |only limSolve-1.5.7/limSolve/DESCRIPTION | 25 limSolve-1.5.7/limSolve/MD5 | 56 - limSolve-1.5.7/limSolve/R/ldei.R | 8 limSolve-1.5.7/limSolve/R/ldp.R | 8 limSolve-1.5.7/limSolve/R/linp.R | 13 limSolve-1.5.7/limSolve/R/lsei.R | 57 + limSolve-1.5.7/limSolve/R/varranges.R | 11 limSolve-1.5.7/limSolve/R/xranges.R | 8 limSolve-1.5.7/limSolve/R/xsample.R | 15 limSolve-1.5.7/limSolve/build/vignette.rds |binary limSolve-1.5.7/limSolve/data/Blending.rda |binary limSolve-1.5.7/limSolve/data/Chemtax.rda |binary limSolve-1.5.7/limSolve/data/E_coli.rda |binary limSolve-1.5.7/limSolve/data/Minkdiet.rda |binary limSolve-1.5.7/limSolve/data/RigaWeb.rda |binary limSolve-1.5.7/limSolve/inst/CITATION | 56 - limSolve-1.5.7/limSolve/inst/doc/limSolve.R | 730 +++++++++++------------ limSolve-1.5.7/limSolve/inst/doc/limSolve.pdf |binary limSolve-1.5.7/limSolve/inst/doc/xsample.R | 21 limSolve-1.5.7/limSolve/inst/doc/xsample.pdf |binary limSolve-1.5.7/limSolve/man/ldei.Rd | 284 ++++---- limSolve-1.5.7/limSolve/man/ldp.Rd | 14 limSolve-1.5.7/limSolve/man/limSolve.rd | 10 limSolve-1.5.7/limSolve/man/linp.Rd | 14 limSolve-1.5.7/limSolve/man/lsei.Rd | 22 limSolve-1.5.7/limSolve/man/varranges.Rd | 14 limSolve-1.5.7/limSolve/man/xranges.Rd | 18 limSolve-1.5.7/limSolve/man/xsample.Rd | 477 +++++++-------- 30 files changed, 1005 insertions(+), 856 deletions(-)
Title: Neighbourhood Functions for Local-Search Algorithms
Description: Neighbourhood functions are key components of
local-search algorithms such as Simulated Annealing or
Threshold Accepting. These functions take a solution and
return a slightly-modified copy of it, i.e. a neighbour.
The package provides a function neighbourfun() that
constructs such neighbourhood functions, based on
parameters such as admissible ranges for elements in a
solution. Supported are numeric and logical solutions.
The algorithms were originally created for
portfolio-optimisation applications, but can be used for
other models as well. Several recipes for neighbour
computations are taken from "Numerical Methods and
Optimization in Finance" by M. Gilli, D. Maringer and
E. Schumann (2019, ISBN:978-0128150658).
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between neighbours versions 0.1-2 dated 2022-08-23 and 0.1-3 dated 2023-09-21
ChangeLog | 17 +++++++++++++++-- DESCRIPTION | 9 +++++---- MD5 | 23 +++++++++++++---------- NAMESPACE | 1 + NEWS | 13 +++++++++++++ R/next_subset.R |only build/partial.rdb |only build/vignette.rds |binary inst/doc/neighbours.R | 2 +- inst/doc/neighbours.Rnw | 10 +++++----- inst/doc/neighbours.pdf |binary man/neighbourfun.Rd | 5 +++-- man/next_subset.Rd |only vignettes/neighbours.Rnw | 10 +++++----- 14 files changed, 61 insertions(+), 29 deletions(-)
Title: Creating Tables of Excluded Observations
Description: Instead of counting observations before and after a subset()
call, the ExclusionTable() function reports the number before and after
each subset() call together with the number of observations that have been
excluded. This is especially useful in observational studies for keeping
track how many observations have been excluded for each in-/ or
exclusion criteria. You just need to provide ExclusionTable() with a
dataset and a list of logical filter statements.
Author: Joshua P. Entrop [aut, cre] ,
Simon Steiger [ctb]
Maintainer: Joshua P. Entrop <joshuaentrop@posteo.de>
Diff between ExclusionTable versions 1.0.0 dated 2022-10-05 and 1.1.0 dated 2023-09-21
DESCRIPTION | 21 - MD5 | 16 NEWS.md | 8 R/exclusion_table.R | 593 +++++++++++++++++----------------- R/print.exl_tbl.R | 287 ++++++++-------- README.md | 71 +++- inst/doc/ExclusionTable_vignette.html | 209 +++++------ man/exclusion_table.Rd | 166 ++++----- man/print.exl_tbl.Rd | 40 +- 9 files changed, 742 insertions(+), 669 deletions(-)
More information about ExclusionTable at CRAN
Permanent link
Title: Music Notation Syntax, Manipulation, Analysis and Transcription
in R
Description: Provides a music notation syntax and a collection of music
programming functions for generating, manipulating, organizing, and analyzing
musical information in R. Music syntax can be entered directly in character
strings, for example to quickly transcribe short pieces of music. The
package contains functions for directly performing various mathematical,
logical and organizational operations and musical transformations on special
object classes that facilitate working with music data and notation. The
same music data can be organized in tidy data frames for a familiar and
powerful approach to the analysis of large amounts of structured music data.
Functions are available for mapping seamlessly between these formats and
their representations of musical information. The package also provides an
API to 'LilyPond' (<https://lilypond.org/>) for transcribing musical
representations in R into tablature ("tabs") and sheet music. 'LilyPond' is
open source music engraving software for gener [...truncated...]
Author: Matthew Leonawicz [aut, cre]
Maintainer: Matthew Leonawicz <mfleonawicz@gmail.com>
Diff between tabr versions 0.4.5 dated 2021-02-20 and 0.4.9 dated 2023-09-21
tabr-0.4.5/tabr/man/pipe.Rd |only tabr-0.4.9/tabr/DESCRIPTION | 58 - tabr-0.4.9/tabr/MD5 | 334 +++---- tabr-0.4.9/tabr/NAMESPACE | 6 tabr-0.4.9/tabr/NEWS.md | 74 - tabr-0.4.9/tabr/R/chord_mapping.R | 100 +- tabr-0.4.9/tabr/R/chords.R | 69 - tabr-0.4.9/tabr/R/class_methods.R | 172 +-- tabr-0.4.9/tabr/R/convert.R | 52 - tabr-0.4.9/tabr/R/df.R | 37 tabr-0.4.9/tabr/R/freq.R | 47 - tabr-0.4.9/tabr/R/intervals.R | 33 tabr-0.4.9/tabr/R/keys.R | 16 tabr-0.4.9/tabr/R/lilypond.R | 228 ++-- tabr-0.4.9/tabr/R/lp_render.R | 153 +-- tabr-0.4.9/tabr/R/lyrics.R | 32 tabr-0.4.9/tabr/R/midi.R | 157 +-- tabr-0.4.9/tabr/R/modes.R | 23 tabr-0.4.9/tabr/R/music.R | 90 - tabr-0.4.9/tabr/R/noteinfo.R | 36 tabr-0.4.9/tabr/R/notes.R | 263 ++--- tabr-0.4.9/tabr/R/options.R | 4 tabr-0.4.9/tabr/R/phrase.R | 93 - tabr-0.4.9/tabr/R/phrase_helpers.R | 47 - tabr-0.4.9/tabr/R/pitch.R | 27 tabr-0.4.9/tabr/R/plot.R | 50 - tabr-0.4.9/tabr/R/repeats.R | 65 - tabr-0.4.9/tabr/R/scales.R | 71 - tabr-0.4.9/tabr/R/sf.R | 151 +-- tabr-0.4.9/tabr/R/snippet.R | 212 ++-- tabr-0.4.9/tabr/R/strings.R | 6 tabr-0.4.9/tabr/R/tabr.R | 105 -- tabr-0.4.9/tabr/R/time.R | 23 tabr-0.4.9/tabr/R/tracks.R | 119 +- tabr-0.4.9/tabr/R/transpose.R | 36 tabr-0.4.9/tabr/R/utils.R | 29 tabr-0.4.9/tabr/R/zzz.R | 25 tabr-0.4.9/tabr/README.md | 275 ++--- tabr-0.4.9/tabr/build/vignette.rds |binary tabr-0.4.9/tabr/inst/WORDLIST | 20 tabr-0.4.9/tabr/inst/doc/tabr-prog-chords.Rmd | 40 tabr-0.4.9/tabr/inst/doc/tabr-prog-chords.html | 907 +++++++++++-------- tabr-0.4.9/tabr/inst/doc/tabr-prog-music.Rmd | 10 tabr-0.4.9/tabr/inst/doc/tabr-prog-music.html | 534 ++++++----- tabr-0.4.9/tabr/inst/doc/tabr-prog-noteinfo.Rmd | 6 tabr-0.4.9/tabr/inst/doc/tabr-prog-noteinfo.html | 318 ++++-- tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.R | 22 tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.Rmd | 124 +- tabr-0.4.9/tabr/inst/doc/tabr-prog-notes.html | 933 +++++++++++--------- tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.R | 2 tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.Rmd | 20 tabr-0.4.9/tabr/inst/doc/tabr-prog-nw.html | 418 +++++--- tabr-0.4.9/tabr/inst/doc/tabr-prog-scales.Rmd | 42 tabr-0.4.9/tabr/inst/doc/tabr-prog-scales.html | 482 ++++++---- tabr-0.4.9/tabr/man/append_phrases.Rd | 128 +- tabr-0.4.9/tabr/man/articulations.Rd | 34 tabr-0.4.9/tabr/man/as_music_df.Rd | 159 +-- tabr-0.4.9/tabr/man/chord-compare.Rd | 92 - tabr-0.4.9/tabr/man/chord-filter.Rd | 91 - tabr-0.4.9/tabr/man/chord-mapping.Rd | 283 +++--- tabr-0.4.9/tabr/man/chord_arpeggiate.Rd | 90 - tabr-0.4.9/tabr/man/chord_def.Rd | 127 +- tabr-0.4.9/tabr/man/chord_invert.Rd | 102 +- tabr-0.4.9/tabr/man/chord_is_major.Rd | 84 - tabr-0.4.9/tabr/man/chord_set.Rd | 96 +- tabr-0.4.9/tabr/man/chords.Rd | 426 ++++----- tabr-0.4.9/tabr/man/double-bracket.Rd | 6 tabr-0.4.9/tabr/man/dyad.Rd | 120 +- tabr-0.4.9/tabr/man/figures/README-banner-1.png |only tabr-0.4.9/tabr/man/figures/README-plot_music-1.png |binary tabr-0.4.9/tabr/man/figures/logo.png |binary tabr-0.4.9/tabr/man/freq_ratio.Rd | 104 +- tabr-0.4.9/tabr/man/hp.Rd | 58 - tabr-0.4.9/tabr/man/interval_semitones.Rd | 56 - tabr-0.4.9/tabr/man/intervals.Rd | 199 ++-- tabr-0.4.9/tabr/man/is_diatonic.Rd | 60 - tabr-0.4.9/tabr/man/keys.Rd | 118 +- tabr-0.4.9/tabr/man/lilypond.Rd | 365 +++---- tabr-0.4.9/tabr/man/lilypond_root.Rd | 60 - tabr-0.4.9/tabr/man/lp_chord_id.Rd | 84 - tabr-0.4.9/tabr/man/lyrics.Rd | 146 +-- tabr-0.4.9/tabr/man/midily.Rd | 182 +-- tabr-0.4.9/tabr/man/miditab.Rd | 131 +- tabr-0.4.9/tabr/man/mode-helpers.Rd | 187 +--- tabr-0.4.9/tabr/man/music-helpers.Rd | 137 +- tabr-0.4.9/tabr/man/music.Rd | 278 ++--- tabr-0.4.9/tabr/man/n_measures.Rd | 181 +-- tabr-0.4.9/tabr/man/notate.Rd | 66 - tabr-0.4.9/tabr/man/note-checks.Rd | 10 tabr-0.4.9/tabr/man/note-coerce.Rd | 36 tabr-0.4.9/tabr/man/note-equivalence.Rd | 27 tabr-0.4.9/tabr/man/note-logic.Rd | 16 tabr-0.4.9/tabr/man/note-metadata.Rd | 16 tabr-0.4.9/tabr/man/note-summaries.Rd | 16 tabr-0.4.9/tabr/man/note_slice.Rd | 40 tabr-0.4.9/tabr/man/noteinfo.Rd | 144 +-- tabr-0.4.9/tabr/man/phrase-checks.Rd | 219 ++-- tabr-0.4.9/tabr/man/phrase.Rd | 171 +-- tabr-0.4.9/tabr/man/pitch_freq.Rd | 186 +-- tabr-0.4.9/tabr/man/pitch_seq.Rd | 113 +- tabr-0.4.9/tabr/man/plot_fretboard.Rd | 288 +++--- tabr-0.4.9/tabr/man/plot_music.Rd | 296 +++--- tabr-0.4.9/tabr/man/ratio_to_cents.Rd | 7 tabr-0.4.9/tabr/man/read_midi.Rd | 163 +-- tabr-0.4.9/tabr/man/render_chordchart.Rd | 215 ++-- tabr-0.4.9/tabr/man/render_music.Rd | 492 +++++----- tabr-0.4.9/tabr/man/repeats.Rd | 195 ++-- tabr-0.4.9/tabr/man/rest.Rd | 4 tabr-0.4.9/tabr/man/scale-deg.Rd | 261 ++--- tabr-0.4.9/tabr/man/scale-helpers.Rd | 168 +-- tabr-0.4.9/tabr/man/scale_chords.Rd | 84 - tabr-0.4.9/tabr/man/score.Rd | 77 - tabr-0.4.9/tabr/man/sf_phrase.Rd | 401 ++++---- tabr-0.4.9/tabr/man/simplify_phrase.Rd | 87 - tabr-0.4.9/tabr/man/single-bracket.Rd | 6 tabr-0.4.9/tabr/man/string_unfold.Rd | 80 - tabr-0.4.9/tabr/man/tab.Rd | 337 +++---- tabr-0.4.9/tabr/man/tabr-c.Rd | 7 tabr-0.4.9/tabr/man/tabr-head.Rd | 7 tabr-0.4.9/tabr/man/tabr-length.Rd | 7 tabr-0.4.9/tabr/man/tabr-methods.Rd | 79 - tabr-0.4.9/tabr/man/tabr-rep.Rd | 7 tabr-0.4.9/tabr/man/tabr-rev.Rd | 7 tabr-0.4.9/tabr/man/tabr.Rd | 119 +- tabr-0.4.9/tabr/man/tabr_options.Rd | 58 - tabr-0.4.9/tabr/man/to_tabr.Rd | 226 ++-- tabr-0.4.9/tabr/man/track.Rd | 202 ++-- tabr-0.4.9/tabr/man/trackbind.Rd | 104 +- tabr-0.4.9/tabr/man/transpose.Rd | 116 +- tabr-0.4.9/tabr/man/tuplet.Rd | 105 +- tabr-0.4.9/tabr/man/valid-noteinfo.Rd | 120 +- tabr-0.4.9/tabr/man/valid-notes.Rd | 50 - tabr-0.4.9/tabr/tests/testthat/test-chord-mapping.R | 2 tabr-0.4.9/tabr/tests/testthat/test-chords.R | 26 tabr-0.4.9/tabr/tests/testthat/test-convert.R | 2 tabr-0.4.9/tabr/tests/testthat/test-df.R | 2 tabr-0.4.9/tabr/tests/testthat/test-freq.R | 4 tabr-0.4.9/tabr/tests/testthat/test-helpers.R | 11 tabr-0.4.9/tabr/tests/testthat/test-intervals.R | 2 tabr-0.4.9/tabr/tests/testthat/test-keys.R | 2 tabr-0.4.9/tabr/tests/testthat/test-lyrics.R | 2 tabr-0.4.9/tabr/tests/testthat/test-methods.R | 2 tabr-0.4.9/tabr/tests/testthat/test-modes.R | 2 tabr-0.4.9/tabr/tests/testthat/test-music.R | 2 tabr-0.4.9/tabr/tests/testthat/test-noteinfo.R | 2 tabr-0.4.9/tabr/tests/testthat/test-notes.R | 40 tabr-0.4.9/tabr/tests/testthat/test-opts.R | 2 tabr-0.4.9/tabr/tests/testthat/test-outputs.R | 36 tabr-0.4.9/tabr/tests/testthat/test-phrase.R | 2 tabr-0.4.9/tabr/tests/testthat/test-pitch.R | 2 tabr-0.4.9/tabr/tests/testthat/test-plot.R | 2 tabr-0.4.9/tabr/tests/testthat/test-read-midi.R | 2 tabr-0.4.9/tabr/tests/testthat/test-repeats.R | 2 tabr-0.4.9/tabr/tests/testthat/test-scales.R | 24 tabr-0.4.9/tabr/tests/testthat/test-sf.R | 2 tabr-0.4.9/tabr/tests/testthat/test-snippet.R | 4 tabr-0.4.9/tabr/tests/testthat/test-steps.R | 2 tabr-0.4.9/tabr/tests/testthat/test-strings.R | 2 tabr-0.4.9/tabr/tests/testthat/test-substitutions.R | 2 tabr-0.4.9/tabr/tests/testthat/test-time.R | 2 tabr-0.4.9/tabr/tests/testthat/test-transpose.R | 48 - tabr-0.4.9/tabr/tests/testthat/test-tunings.R | 2 tabr-0.4.9/tabr/tests/testthat/test-utils.R | 3 tabr-0.4.9/tabr/vignettes/tabr-prog-chords.Rmd | 40 tabr-0.4.9/tabr/vignettes/tabr-prog-music.Rmd | 10 tabr-0.4.9/tabr/vignettes/tabr-prog-noteinfo.Rmd | 6 tabr-0.4.9/tabr/vignettes/tabr-prog-notes.Rmd | 124 +- tabr-0.4.9/tabr/vignettes/tabr-prog-nw.Rmd | 20 tabr-0.4.9/tabr/vignettes/tabr-prog-scales.Rmd | 42 169 files changed, 8887 insertions(+), 8410 deletions(-)
Title: Utilities for Producing Maps
Description: Provides a minimal, light-weight set of tools for producing nice looking maps in R, with support for map projections. See Brown (2016) <doi:10.32614/RJ-2016-005>.
Author: Patrick Brown [aut, cre, cph]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between mapmisc versions 2.0.0 dated 2023-09-13 and 2.0.1 dated 2023-09-21
DESCRIPTION | 8 - MD5 | 28 ++-- R/crsRegion.R | 13 +- R/getTiles.R | 9 + R/openmap.R | 4 R/tonerToTrans.R | 52 +++++--- R/tpers.R | 4 R/wrapPoly.R | 8 - inst/doc/north.html | 28 ++-- inst/doc/perspective.R | 2 inst/doc/perspective.Rmd | 13 -- inst/doc/perspective.html | 284 +++++++++++++++++++++++++++++++++++++++++++--- man/geonames.Rd | 10 + man/tonerToTrans.Rd | 14 +- vignettes/perspective.Rmd | 13 -- 15 files changed, 385 insertions(+), 105 deletions(-)
More information about chem.databases at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-03 0.1.6
Title: Nonlinear Root Finding, Equilibrium and Steady-State Analysis of
Ordinary Differential Equations
Description: Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE).
Includes routines that: (1) generate gradient and jacobian matrices (full and banded),
(2) find roots of non-linear equations by the 'Newton-Raphson' method,
(3) estimate steady-state conditions of a system of (differential) equations in full, banded or sparse form, using the 'Newton-Raphson' method, or by dynamically running,
(4) solve the steady-state conditions for uni-and multicomponent 1-D, 2-D, and 3-D partial differential equations, that have been converted to ordinary differential equations
by numerical differencing (using the method-of-lines approach).
Includes fortran code.
Author: Karline Soetaert [aut, cre],
Alan C. Hindmarsh [ctb] ,
S.C. Eisenstat [ctb] ,
Cleve Moler [ctb] ,
Jack Dongarra [ctb] ,
Youcef Saad [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between rootSolve versions 1.8.2.3 dated 2021-09-29 and 1.8.2.4 dated 2023-09-21
rootSolve-1.8.2.3/rootSolve/inst/doc/vignettes.bib |only rootSolve-1.8.2.4/rootSolve/DESCRIPTION | 6 - rootSolve-1.8.2.4/rootSolve/MD5 | 13 +-- rootSolve-1.8.2.4/rootSolve/build |only rootSolve-1.8.2.4/rootSolve/inst/CITATION | 54 +++++++------- rootSolve-1.8.2.4/rootSolve/inst/doc/rootSolve.R |only rootSolve-1.8.2.4/rootSolve/inst/doc/rootSolve.pdf |binary rootSolve-1.8.2.4/rootSolve/man/rootSolve.Rd | 8 -- rootSolve-1.8.2.4/rootSolve/src/dsparsk.f | 76 ++++++++++----------- 9 files changed, 76 insertions(+), 81 deletions(-)
Title: Interface to Chromosome Counts Database API
Description: A programmatic interface to the Chromosome Counts Database
(<https://ccdb.tau.ac.il/>), Rice et al. (2014) <doi:10.1111/nph.13191>.
This package is part of the 'ROpenSci' suite (<https://ropensci.org>).
Author: Matthew Pennell [aut] ,
Paula Andrea Martinez [aut] ,
Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between chromer versions 0.5 dated 2023-08-20 and 0.6 dated 2023-09-21
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 10 +++++++++- R/ccdb_down.R | 2 +- R/counts.R | 2 +- README.md | 8 ++++---- 6 files changed, 25 insertions(+), 17 deletions(-)
Title: Solvers for Boundary Value Problems of Differential Equations
Description: Functions that solve boundary value problems ('BVP') of systems of ordinary
differential equations ('ODE') and differential algebraic equations ('DAE').
The functions provide an interface to the FORTRAN functions
'twpbvpC', 'colnew/colsys', and an R-implementation of the shooting method.
Mazzia, F., J.R. Cash and K. Soetaert, 2014.
Author: Karline Soetaert [aut, cre] ,
Jeff Cash [aut],
Francesca Mazzia [aut],
Uri M. Ascher [ctb] ,
G. Bader [ctb] ,
J. Christiansen [ctb] ,
Robert R. Russell [ctb]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between bvpSolve versions 1.4.4 dated 2023-07-07 and 1.4.4.1 dated 2023-09-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ inst/doc/bvpSolve.pdf |binary inst/doc/bvpTests.pdf |binary man/bvpSolve.Rd | 5 ----- src/colnewR.f | 28 ++++++++++++++-------------- src/colsysR.f | 28 ++++++++++++++-------------- 7 files changed, 37 insertions(+), 42 deletions(-)
Title: Interface to the World Database on Protected Areas
Description: Fetch and clean data from the World Database on Protected
Areas (WDPA) and the World Database on Other Effective Area-Based
Conservation Measures (WDOECM). Data is obtained from Protected Planet
<https://www.protectedplanet.net/en>. To augment data cleaning procedures,
users can install the 'prepr' R package (available at
<https://github.com/dickoa/prepr>). For more information on this package,
see Hanson (2022) <doi:10.21105/joss.04594>.
Author: Jeffrey O Hanson [aut, cre]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between wdpar versions 1.3.5 dated 2023-08-08 and 1.3.7 dated 2023-09-21
DESCRIPTION | 6 +- MD5 | 16 +++---- NEWS.md | 17 +++++++ R/package.R | 2 R/st_erase_overlaps.R | 2 inst/doc/wdpar.html | 69 +++++++++++++++----------------- man/figures/README-readme-map-1.png |binary man/wdpar.Rd | 1 tests/testthat/test_st_erase_overlaps.R | 26 +++++++++++- 9 files changed, 90 insertions(+), 49 deletions(-)
Title: Inference and Prediction of ToxicoKinetic (TK) Models
Description: The MOSAICbioacc application is a turnkey package providing bioaccumulation
factors (BCF/BMF/BSAF) from a toxicokinetic (TK) model fitted to
accumulation-depuration data. It is designed to fulfil the requirements
of regulators when examining applications for market authorization of active
substances. See Ratier et al. (2021) <doi:10.1101/2021.09.08.459421>.
Author: Virgile Baudrot [aut, cre],
Sandrine Charles [aut],
Ophelia Gestin [ctb],
Milena Kaag [aut],
Christelle Lopes [ctb],
Gauthier Multari [ctb],
Alain Pave [ctb],
Aude Ratier [aut],
Aurelie Siberchicot [aut]
Maintainer: Virgile Baudrot <virgile.baudrot@qonfluens.com>
Diff between rbioacc versions 1.1-0 dated 2022-01-12 and 1.2-0 dated 2023-09-21
DESCRIPTION | 28 MD5 | 37 R/stanmodels.R | 2 README.md | 57 inst/CITATION |only inst/doc/MWE.Rmd | 2 inst/doc/MWE.html | 189 - inst/doc/Tutorial.html | 338 +- inst/stan/TK.stan | 16 inst/stan/TK_predict.stan | 14 inst/stan/include/linear_interpolation.stan | 32 inst/stan/odeTK.stan | 24 src/Makevars | 5 src/stanExports_TK.cc | 2 src/stanExports_TK.h | 4242 +++++++++++++++------------- src/stanExports_TK_predict.cc | 2 src/stanExports_TK_predict.h | 2930 +++++++++++-------- src/stanExports_odeTK.cc | 2 src/stanExports_odeTK.h | 3915 ++++++++++++++----------- vignettes/MWE.Rmd | 2 20 files changed, 6611 insertions(+), 5228 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureRMR versions 2.4.3 dated 2021-10-23 and 2.4.4 dated 2023-09-21
DESCRIPTION | 8 MD5 | 74 ++--- NEWS.md | 5 R/az_login.R | 12 R/az_resgroup.R | 10 R/az_resource.R | 2 R/az_rm.R | 4 R/az_role.R | 4 R/az_subscription.R | 16 - R/az_template.R | 4 R/build_tpl_json.R | 2 R/locks.R | 2 R/rbac.R | 2 README.md | 6 build/vignette.rds |binary inst/doc/auth.Rmd | 2 inst/doc/auth.html | 293 +++++++++++++------- inst/doc/extend.html | 667 ++++++++++++++++++++++++++-------------------- inst/doc/intro.Rmd | 10 inst/doc/intro.html | 628 +++++++++++++++++++++++++------------------ inst/doc/parallel.html | 267 +++++++++++------- inst/doc/template.Rmd | 2 inst/doc/template.html | 279 +++++++++++-------- man/az_resource.Rd | 8 man/az_resource_group.Rd | 10 man/az_rm.Rd | 4 man/az_role_assignment.Rd | 2 man/az_role_definition.Rd | 2 man/az_subscription.Rd | 7 man/az_template.Rd | 4 man/azure_login.Rd | 10 man/build_template.Rd | 2 man/lock.Rd | 8 man/rbac.Rd | 8 man/utils.Rd | 3 vignettes/auth.Rmd | 2 vignettes/intro.Rmd | 10 vignettes/template.Rmd | 2 38 files changed, 1437 insertions(+), 944 deletions(-)
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: Implementation of Tyler, Critchley, Duembgen and Oja's (JRSS B, 2009,
<doi:10.1111/j.1467-9868.2009.00706.x>) and Oja, Sirkia and Eriksson's
(AJS, 2006, <https://www.ajs.or.at/index.php/ajs/article/view/vol35,%20no2%263%20-%207>) method of two different
scatter matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Author: Klaus Nordhausen [aut, cre] ,
Andreas Alfons [aut] ,
Aurore Archimbaud [aut] ,
Hannu Oja [aut] ,
Anne Ruiz-Gazen [aut] ,
David E. Tyler [aut]
Maintainer: Klaus Nordhausen <klausnordhausenR@gmail.com>
Diff between ICS versions 1.4-0 dated 2023-09-09 and 1.4-1 dated 2023-09-21
DESCRIPTION | 8 MD5 | 18 +- NEWS | 8 R/ICS_S3.R | 5 R/covW.R | 130 +++++++------- build/partial.rdb |binary inst/doc/ICS.pdf |binary man/ICS_scatter.Rd | 1 man/covW.Rd | 6 tests/testthat/test-ICS_S3_tests.R | 328 ++++++++++++++++++------------------- 10 files changed, 253 insertions(+), 251 deletions(-)
Title: Fault Tolerant Simple Network of Workstations
Description: Extension of the snow package supporting fault tolerant and reproducible applications, as well as supporting easy-to-use parallel programming - only one function is needed. Dynamic cluster size is also available.
Author: Hana Sevcikova, A. J. Rossini
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between snowFT versions 1.6-0 dated 2017-06-17 and 1.6-1 dated 2023-09-21
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 2 +- R/mpi.R | 8 +++++++- 5 files changed, 20 insertions(+), 10 deletions(-)
Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface from within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating time spent and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre],
Matthew Fidler [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMsim versions 0.0.3 dated 2023-09-20 and 0.0.4 dated 2023-09-21
DESCRIPTION | 12 ++++++------ MD5 | 11 ++++++----- R/NMexec.R | 2 +- R/NMreadExt.R | 10 +++++----- R/NMreadPhi.R | 3 +-- tests/testthat.R |only tests/testthat/test_addEVID2.R | 2 +- 7 files changed, 20 insertions(+), 20 deletions(-)
Title: Tools and Data for the International Soil Radiocarbon Database
Description: This is the central location for data and tools for the development,
maintenance, analysis, and deployment of the International Soil Radiocarbon Database
(ISRaD). ISRaD was developed as a collaboration between the U.S. Geological Survey
Powell Center and the Max Planck Institute for Biogeochemistry. This R package provides
tools for accessing and manipulating ISRaD data, compiling local data using the ISRaD
data structure, and simple query and reporting functions for ISRaD. For more detailed
information visit the ISRaD website at: <https://soilradiocarbon.org/>.
Author: Alison Hoyt [aut],
Jeffrey Beem-Miller [aut, cre],
Shane Stoner [aut],
J. Grey Monroe [aut],
Caitlin Hicks-Pries [aut],
Paul A. Levine [aut]
Maintainer: Jeffrey Beem-Miller <jbeem@bgc-jena.mpg.de>
Diff between ISRaD versions 2.5.4 dated 2023-08-09 and 2.5.5 dated 2023-09-21
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/Graven_2017.R | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
,
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton S [...truncated...]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.8.0 dated 2023-09-09 and 1.8.1 dated 2023-09-21
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/read_statistical_grid.R | 4 ++-- inst/doc/intro_to_geobr.R | 36 +++++++++++++++++++----------------- inst/doc/intro_to_geobr.Rmd | 36 ++++++++++++++++++++---------------- man/read_statistical_grid.Rd | 4 ++-- tests/tests_rafa/test_rafa.R | 2 ++ vignettes/intro_to_geobr.Rmd | 36 ++++++++++++++++++++---------------- 8 files changed, 76 insertions(+), 64 deletions(-)
Title: Fast Change Point Detection via Sequential Gradient Descent
Description: Implements fast change point detection algorithm based on the
paper "Sequential Gradient Descent and Quasi-Newton's Method for
Change-Point Analysis" by Xianyang Zhang, Trisha Dawn
<https://proceedings.mlr.press/v206/zhang23b.html>. The algorithm
is based on dynamic programming with pruning and sequential gradient
descent. It is able to detect change points a magnitude faster than
the vanilla Pruned Exact Linear Time(PELT). The package includes examples
of linear regression, logistic regression, Poisson regression, penalized
linear regression data, and whole lot more examples with custom cost
function in case the user wants to use their own cost function.
Author: Xingchi Li [aut, cre, cph] ,
Xianyang Zhang [aut, cph],
Trisha Dawn [aut, cph]
Maintainer: Xingchi Li <anthony.li@stat.tamu.edu>
Diff between fastcpd versions 0.6.2 dated 2023-09-14 and 0.7.0 dated 2023-09-21
fastcpd-0.6.2/fastcpd/src/fastcpd_test.cc |only fastcpd-0.6.2/fastcpd/tests/testthat/test-RcppExports.R |only fastcpd-0.7.0/fastcpd/DESCRIPTION | 6 fastcpd-0.7.0/fastcpd/MD5 | 39 - fastcpd-0.7.0/fastcpd/NEWS.md | 20 fastcpd-0.7.0/fastcpd/R/RcppExports.R | 28 - fastcpd-0.7.0/fastcpd/R/catch-routine-registration.R | 7 fastcpd-0.7.0/fastcpd/R/fastcpd-class.R | 28 - fastcpd-0.7.0/fastcpd/R/fastcpd.R | 184 +++++- fastcpd-0.7.0/fastcpd/README.md | 7 fastcpd-0.7.0/fastcpd/man/fastcpd-class.Rd | 16 fastcpd-0.7.0/fastcpd/man/fastcpd.Rd | 208 +++++-- fastcpd-0.7.0/fastcpd/man/print.Rd | 2 fastcpd-0.7.0/fastcpd/man/show.Rd | 2 fastcpd-0.7.0/fastcpd/man/summary.Rd | 4 fastcpd-0.7.0/fastcpd/src/RcppExports.cpp | 3 fastcpd-0.7.0/fastcpd/src/fastcpd.cc | 60 +- fastcpd-0.7.0/fastcpd/src/fastcpd.h | 107 ++- fastcpd-0.7.0/fastcpd/src/test-fastcpd.cc |only fastcpd-0.7.0/fastcpd/src/test-runner.cc | 5 fastcpd-0.7.0/fastcpd/tests/testthat/test-cpp.R |only fastcpd-0.7.0/fastcpd/tests/testthat/test-experiments.R |only fastcpd-0.7.0/fastcpd/tests/testthat/test-fastcpd.R | 432 +--------------- 23 files changed, 545 insertions(+), 613 deletions(-)
Title: R for High-Dimensional Omic Data
Description: Represents high-dimensional data as tables of features, samples and measurements, and a design list for tracking the meaning of individual variables. Using this format, filtering, normalization, and other transformations of a dataset can be carried out in a flexible manner. 'romic' takes advantage of these transformations to create interactive 'shiny' apps for exploratory data analysis such as an interactive heatmap.
Author: Sean Hackett [aut, cre] ,
Calico Life Sciences LLC [cph, fnd]
Maintainer: Sean Hackett <sean@calicolabs.com>
Diff between romic versions 1.1.1 dated 2023-02-02 and 1.1.3 dated 2023-09-21
romic-1.1.1/romic/R/romic.R |only romic-1.1.1/romic/man/romic.Rd |only romic-1.1.1/romic/tests/testthat/test-coerce_to_classes.R |only romic-1.1.1/romic/tests/testthat/test-downsampling.R |only romic-1.1.1/romic/tests/testthat/test-factor_pks.R |only romic-1.1.1/romic/tests/testthat/test-import_export.R |only romic-1.1.1/romic/tests/testthat/test-test-variable_partial_string_matching.R |only romic-1.1.1/romic/tests/testthat/test-triple_omic.R |only romic-1.1.3/romic/DESCRIPTION | 12 romic-1.1.3/romic/MD5 | 78 - romic-1.1.3/romic/NAMESPACE | 1 romic-1.1.3/romic/NEWS.md | 15 romic-1.1.3/romic/R/app_heatmap.R | 492 ---------- romic-1.1.3/romic/R/data_classes.R | 193 +++ romic-1.1.3/romic/R/dim_reduction.R | 58 - romic-1.1.3/romic/R/export.R | 35 romic-1.1.3/romic/R/hclust.R |only romic-1.1.3/romic/R/module_ggbiv.R | 2 romic-1.1.3/romic/R/module_lasso.R | 50 - romic-1.1.3/romic/R/mutates.R | 12 romic-1.1.3/romic/R/romic-package.R |only romic-1.1.3/romic/R/utils.R | 2 romic-1.1.3/romic/build/vignette.rds |binary romic-1.1.3/romic/inst/doc/romic.html | 19 romic-1.1.3/romic/man/add_pcs.Rd | 9 romic-1.1.3/romic/man/convert_wide_to_tidy_omic.Rd | 5 romic-1.1.3/romic/man/create_tidy_omic.Rd | 5 romic-1.1.3/romic/man/downsample_heatmap.Rd | 12 romic-1.1.3/romic/man/export_tomic_as_tidy.Rd | 4 romic-1.1.3/romic/man/export_tomic_as_triple.Rd | 4 romic-1.1.3/romic/man/export_tomic_as_wide.Rd | 5 romic-1.1.3/romic/man/get_tomic_table.Rd |only romic-1.1.3/romic/man/hclust_order.Rd | 2 romic-1.1.3/romic/man/infer_tomic_table_type.Rd | 2 romic-1.1.3/romic/man/plot_heatmap.Rd | 11 romic-1.1.3/romic/man/remove_missing_values.Rd | 5 romic-1.1.3/romic/man/romic-package.Rd |only romic-1.1.3/romic/tests/testthat.R | 10 romic-1.1.3/romic/tests/testthat/_snaps |only romic-1.1.3/romic/tests/testthat/helper.R |only romic-1.1.3/romic/tests/testthat/test-app_heatmap.R |only romic-1.1.3/romic/tests/testthat/test-data_classes.R |only romic-1.1.3/romic/tests/testthat/test-design.R |only romic-1.1.3/romic/tests/testthat/test-export.R |only romic-1.1.3/romic/tests/testthat/test-filters.R |only romic-1.1.3/romic/tests/testthat/test-hclust.R | 17 romic-1.1.3/romic/tests/testthat/test-module_ggbiv.R |only romic-1.1.3/romic/tests/testthat/test-module_gguniv.R |only romic-1.1.3/romic/tests/testthat/test-mutates.R |only romic-1.1.3/romic/tests/testthat/test-utils.R |only 50 files changed, 434 insertions(+), 626 deletions(-)
Title: Causal Inference with Spatio-Temporal Data
Description: Spatio-temporal causal inference based on point process data.
You provide the raw data of locations and timings of treatment and
outcome events, specify counterfactual scenarios, and the package
estimates causal effects over specified spatial and temporal windows.
See Papadogeorgou, et al. (2022) <doi:10.1111/rssb.12548>.
Author: Mitsuru Mukaigawara [cre, aut]
,
Georgia Papadogeorgou [aut] ,
Jason Lyall [aut] ,
Kosuke Imai [aut]
Maintainer: Mitsuru Mukaigawara <mitsuru_mukaigawara@g.harvard.edu>
Diff between geocausal versions 0.1.0 dated 2023-08-21 and 0.2.0 dated 2023-09-20
geocausal-0.1.0/geocausal/build |only geocausal-0.1.0/geocausal/inst |only geocausal-0.1.0/geocausal/vignettes |only geocausal-0.2.0/geocausal/DESCRIPTION | 9 - geocausal-0.2.0/geocausal/MD5 | 29 ++---- geocausal-0.2.0/geocausal/NEWS.md | 6 + geocausal-0.2.0/geocausal/R/get_base_dens.R | 92 +++++++++++++------- geocausal-0.2.0/geocausal/R/get_cf_sum_log_intens.R | 5 + geocausal-0.2.0/geocausal/R/get_dist_focus.R | 22 ++-- geocausal-0.2.0/geocausal/R/get_dist_line.R | 36 ++++--- geocausal-0.2.0/geocausal/R/sim_cf_dens.R | 8 + geocausal-0.2.0/geocausal/README.md | 38 ++++++-- geocausal-0.2.0/geocausal/man/get_base_dens.Rd | 45 +++++++-- geocausal-0.2.0/geocausal/man/sim_cf_dens.Rd | 8 + 14 files changed, 189 insertions(+), 109 deletions(-)
Title: Transport Accessibility Measures
Description: A set of fast and convenient functions to calculate multiple
transport accessibility measures. Given a pre-computed travel cost
matrix and a land use dataset (containing the location of jobs,
healthcare and population, for example), the package allows one to
calculate active and passive accessibility levels using multiple
accessibility measures, such as: cumulative opportunities (using
either travel cost cutoffs or intervals), minimum travel cost to
closest N number of activities, gravity-based (with different decay
functions) and different floating catchment area methods.
Author: Rafael H. M. Pereira [aut] ,
Daniel Herszenhut [aut, cre] ,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Daniel Herszenhut <dhersz@gmail.com>
Diff between accessibility versions 1.1.0 dated 2023-06-22 and 1.2.0 dated 2023-09-20
DESCRIPTION | 6 MD5 | 104 ++++++----- NAMESPACE | 3 NEWS.md | 11 + R/accessibility.R | 32 +++ R/assert_and_assign.R | 105 +++++++++++ R/balancing_cost.R | 7 R/concentration_index.R |only R/cost_to_closest.R | 7 R/cumulative_cutoff.R | 7 R/cumulative_interval.R | 7 R/fgt_poverty.R | 6 R/floating_catchment_area.R | 7 R/gini_index.R | 10 - R/gravity.R | 7 R/palma_ratio.R | 20 +- R/spatial_availability.R | 7 R/theil_t.R |only build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 17 + inst/doc/accessibility.R | 24 +- inst/doc/accessibility.Rmd | 2 inst/doc/accessibility.html | 14 - inst/doc/decay_functions.R | 6 inst/doc/decay_functions.Rmd | 2 inst/doc/decay_functions.html | 4 inst/doc/inequality_and_poverty.R | 46 ++++- inst/doc/inequality_and_poverty.Rmd | 106 +++++++++++ inst/doc/inequality_and_poverty.html | 110 ++++++++++-- inst/extdata/land_use_data.rds |binary man/accessibility.Rd | 4 man/concentration_index.Rd |only man/floating_catchment_area.Rd | 4 man/gini_index.Rd | 15 - man/gravity.Rd | 4 man/palma_ratio.Rd | 19 +- man/roxygen/templates/decay_function.R | 4 man/roxygen/templates/group_by_access.R | 7 man/roxygen/templates/sociodem_data_with_income.R |only man/spatial_availability.Rd | 4 man/theil_t.Rd |only tests/test_rafa/concentr_index.R |only tests/testthat.R | 2 tests/testthat/test-assert_land_use_data_warnings.R |only tests/testthat/test-assert_sociodemographic_data_warnings.R |only tests/testthat/test-balancing_cost.R | 50 ++--- tests/testthat/test-concentration_index.R |only tests/testthat/test-cost_to_closest.R | 35 +-- tests/testthat/test-cumulative_cutoff.R | 51 ++--- tests/testthat/test-cumulative_interval.R | 78 ++++---- tests/testthat/test-floating_catchment_area.R | 41 ++-- tests/testthat/test-gravity.R | 35 +-- tests/testthat/test-spatial_availability.R | 43 ++-- tests/testthat/test-theil_t.R |only vignettes/accessibility.Rmd | 2 vignettes/decay_functions.Rmd | 2 vignettes/inequality_and_poverty.Rmd | 106 +++++++++++ 58 files changed, 873 insertions(+), 310 deletions(-)
Title: Reference Based Multiple Imputation
Description: Implements standard and reference based multiple imputation methods for continuous
longitudinal endpoints (Gower-Page et al. (2022) <doi:10.21105/joss.04251>). In particular,
this package supports deterministic conditional mean imputation and jackknifing as described
in Wolbers et al. (2022) <doi:10.1002/pst.2234>, Bayesian multiple imputation as described
in Carpenter et al. (2013) <doi:10.1080/10543406.2013.834911>, and bootstrapped maximum
likelihood imputation as described in von Hippel and Bartlett (2021) <doi: 10.1214/20-STS793>.
Author: Craig Gower-Page [aut, cre],
Alessandro Noci [aut],
Marcel Wolbers [ctb],
Roche [cph, fnd]
Maintainer: Craig Gower-Page <craig.gower-page@roche.com>
Diff between rbmi versions 1.2.3 dated 2022-11-14 and 1.2.5 dated 2023-09-20
DESCRIPTION | 21 MD5 | 54 - NAMESPACE | 2 NEWS.md | 7 R/dataclasses.R | 2 R/draws.R | 10 R/longData.R | 4 R/lsmeans.R | 8 R/mmrm.R | 4 R/utilities.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/stat_specs.html | 2 inst/stan/MMRM.stan | 22 man/as_mmrm_df.Rd | 2 man/do_not_run.Rd | 2 man/eval_mmrm.Rd | 2 man/fit_mmrm.Rd | 2 man/get_draws_mle.Rd | 2 man/longDataConstructor.Rd | 2 man/ls_design.Rd | 2 man/lsmeans.Rd | 6 man/progressLogger.Rd | 8 src/Makevars | 6 src/stanExports_MMRM.h | 1699 ++++++++++++++++++++++++++------------------ tests/testthat/test-draws.R | 2 tests/testthat/test-mcmc.R | 2 vignettes/stat_specs.Rmd | 2 28 files changed, 1125 insertions(+), 756 deletions(-)
Title: Create and Evaluate NONMEM Models in a Project Context
Description: Systematically creates and modifies NONMEM(R) control streams. Harvests
NONMEM output, builds run logs, creates derivative data, generates diagnostics.
NONMEM (ICON Development Solutions <https://www.iconplc.com/>) is software for
nonlinear mixed effects modeling. See 'package?nonmemica'.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between nonmemica versions 1.0.7 dated 2023-09-15 and 1.0.8 dated 2023-09-20
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/canonical.R | 8 ++++---- build/vignette.rds |binary inst/doc/parameter-table.html | 4 ++-- man/rosetta.Rd | 8 ++++---- 6 files changed, 18 insertions(+), 18 deletions(-)
Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface from within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating time spent and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre],
Matthew Fidler [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMsim versions 0.0.2 dated 2023-09-14 and 0.0.3 dated 2023-09-20
NMsim-0.0.2/NMsim/inst/examples/outputs |only NMsim-0.0.2/NMsim/tests/testthat/testOutput |only NMsim-0.0.2/NMsim/tests/testthat/test_NMsim_default.R |only NMsim-0.0.3/NMsim/DESCRIPTION | 6 NMsim-0.0.3/NMsim/MD5 | 158 ++---------------- NMsim-0.0.3/NMsim/NAMESPACE | 5 NMsim-0.0.3/NMsim/R/NMsim.R | 19 -- NMsim-0.0.3/NMsim/R/NMsim_VarCov.R | 2 NMsim-0.0.3/NMsim/R/NMsim_asis.R | 2 NMsim-0.0.3/NMsim/R/NMsim_default.R | 2 NMsim-0.0.3/NMsim/R/NMsim_known.R | 2 NMsim-0.0.3/NMsim/R/NMsim_typical.R | 2 NMsim-0.0.3/NMsim/README.md | 110 ++++++------ NMsim-0.0.3/NMsim/inst/examples/nonmem/xgxr022.dir1 |only NMsim-0.0.3/NMsim/man/NMsim.Rd | 13 - NMsim-0.0.3/NMsim/man/NMsim_VarCov.Rd | 1 NMsim-0.0.3/NMsim/man/NMsim_asis.Rd | 1 NMsim-0.0.3/NMsim/man/NMsim_default.Rd | 1 NMsim-0.0.3/NMsim/man/NMsim_known.Rd | 1 NMsim-0.0.3/NMsim/man/NMsim_typical.Rd | 1 20 files changed, 98 insertions(+), 228 deletions(-)
Title: Bayesian Dominance Hierarchy Steepness via Elo Rating and
David's Scores
Description: Obtain Bayesian posterior distributions of dominance hierarchy steepness (Neumann and Fischer (2023) <doi:10.1111/2041-210X.14021>). Steepness estimation is based on Bayesian implementations of either Elo-rating or David's scores.
Author: Christof Neumann [aut, cre]
Maintainer: Christof Neumann <christofneumann1@gmail.com>
Diff between EloSteepness versions 0.4.7 dated 2022-12-20 and 0.5.0 dated 2023-09-20
EloSteepness-0.4.7/EloSteepness/src/RcppExports-c2259e70.o.tmp |only EloSteepness-0.5.0/EloSteepness/DESCRIPTION | 16 EloSteepness-0.5.0/EloSteepness/MD5 | 43 EloSteepness-0.5.0/EloSteepness/R/elo_steepness_from_matrix.R | 9 EloSteepness-0.5.0/EloSteepness/R/plot_matrix.R | 5 EloSteepness-0.5.0/EloSteepness/build/vignette.rds |binary EloSteepness-0.5.0/EloSteepness/inst/doc/tutorial.R | 2 EloSteepness-0.5.0/EloSteepness/inst/doc/tutorial.Rmd | 4 EloSteepness-0.5.0/EloSteepness/inst/doc/tutorial.pdf |binary EloSteepness-0.5.0/EloSteepness/inst/stan/ds_steep.stan | 4 EloSteepness-0.5.0/EloSteepness/inst/stan/multi_steep_fixed_sd.stan | 14 EloSteepness-0.5.0/EloSteepness/inst/stan/multi_steep_fixed_sd_fixed_k.stan | 16 EloSteepness-0.5.0/EloSteepness/inst/stan/multi_steep_original.stan | 24 EloSteepness-0.5.0/EloSteepness/man/elo_steepness_from_matrix.Rd | 9 EloSteepness-0.5.0/EloSteepness/man/plot_matrix.Rd | 3 EloSteepness-0.5.0/EloSteepness/src/Makevars | 4 EloSteepness-0.5.0/EloSteepness/src/stanExports_ds_steep.h | 1508 +++--- EloSteepness-0.5.0/EloSteepness/src/stanExports_multi_steep_fixed_sd.h | 2140 ++++---- EloSteepness-0.5.0/EloSteepness/src/stanExports_multi_steep_fixed_sd_fixed_k.h | 2038 ++++---- EloSteepness-0.5.0/EloSteepness/src/stanExports_multi_steep_original.h | 2494 +++++----- EloSteepness-0.5.0/EloSteepness/tests/testthat/Rplots.pdf |only EloSteepness-0.5.0/EloSteepness/tests/testthat/test-plot_matrix.R |only EloSteepness-0.5.0/EloSteepness/vignettes/refs.bib | 8 EloSteepness-0.5.0/EloSteepness/vignettes/tutorial.Rmd | 4 24 files changed, 4703 insertions(+), 3642 deletions(-)
Title: 'ggplot2' Based Plots with Statistical Details
Description: Extension of 'ggplot2', 'ggstatsplot' creates graphics with
details from statistical tests included in the plots themselves. It
provides an easier syntax to generate information-rich plots for
statistical analysis of continuous (violin plots, scatterplots,
histograms, dot plots, dot-and-whisker plots) or categorical (pie and
bar charts) data. Currently, it supports the most common types of
statistical approaches and tests: parametric, nonparametric, robust,
and Bayesian versions of t-test/ANOVA, correlation analyses,
contingency table analysis, meta-analysis, and regression analyses.
References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
,
Chuck Powell [ctb]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ggstatsplot versions 0.12.0 dated 2023-08-07 and 0.12.1 dated 2023-09-20
DESCRIPTION | 22 MD5 | 126 +- NEWS.md | 11 R/combine_plots.R | 2 R/extract_stats.R | 2 R/ggbarstats.R | 16 R/ggbetweenstats.R | 5 R/ggbetweenstats_helpers.R | 14 R/ggcoefstats.R | 6 R/gghistostats_helpers.R | 2 R/ggpiestats.R | 12 R/ggpiestats_ggbarstats_helpers.R | 2 R/ggwithinstats.R | 5 R/globals.R | 2 R/theme_ggstatsplot.R | 2 inst/doc/additional.Rmd | 2 inst/doc/additional.html | 4 inst/doc/ggstatsplot.Rmd | 2 inst/doc/ggstatsplot.html | 6 man/combine_plots.Rd | 2 man/ggbarstats.Rd | 7 man/ggpiestats.Rd | 4 man/grouped_ggbarstats.Rd | 4 man/grouped_ggpiestats.Rd | 4 man/rmd-fragments/ggbarstats_graphics.Rmd | 1 tests/testthat.R | 2 tests/testthat/_snaps/combine_plots/defaults-work-as-expected.svg | 9 tests/testthat/_snaps/ggbarstats/common-legend-when-levels-are-dropped.svg | 9 tests/testthat/_snaps/ggbarstats/grouped-ggbarstats-with-two-way-table.svg | 9 tests/testthat/_snaps/ggbetweenstats/default-plot-as-expected.svg | 9 tests/testthat/_snaps/ggbetweenstats/plot-with-outliers-as-expected.svg | 9 tests/testthat/_snaps/ggcoefstats/meta-analysis-works.svg | 6 tests/testthat/_snaps/ggcorrmat/with-nas.svg | 9 tests/testthat/_snaps/ggcorrmat/without-nas.svg | 9 tests/testthat/_snaps/ggdotplotstats/defaults-work-as-expected.svg | 9 tests/testthat/_snaps/ggdotplotstats/further-modification-with-ggplot-works.svg | 9 tests/testthat/_snaps/gghistostats/defaults-as-expected.svg | 9 tests/testthat/_snaps/gghistostats/modification-with-ggplot2-works.svg | 9 tests/testthat/_snaps/ggpiestats/common-legend-when-levels-are-dropped.svg | 9 tests/testthat/_snaps/ggpiestats/grouped-ggpiestats-with-one-way-table.svg | 9 tests/testthat/_snaps/ggpiestats/grouped-ggpiestats-with-two-way-table.svg | 9 tests/testthat/_snaps/ggscatterstats/aesthetic-modifications-work.svg | 9 tests/testthat/_snaps/ggscatterstats/defaults-work-as-expected.svg | 9 tests/testthat/_snaps/ggwithinstats/grouped-plots-default.svg | 9 tests/testthat/_snaps/pairwise_ggsignif/between-bayes.svg | 427 +++------- tests/testthat/test-ggbarstats.R | 4 tests/testthat/test-ggcoefstats.R | 31 tests/testthat/test-ggpiestats.R | 4 tests/testthat/test-pairwise_ggsignif.R | 2 vignettes/additional.Rmd | 2 vignettes/ggstatsplot.Rmd | 2 vignettes/web_only/faq.Rmd | 2 vignettes/web_only/ggbarstats.Rmd | 53 - vignettes/web_only/ggbetweenstats.Rmd | 2 vignettes/web_only/ggcoefstats.Rmd | 2 vignettes/web_only/ggcorrmat.Rmd | 2 vignettes/web_only/ggdotplotstats.Rmd | 2 vignettes/web_only/gghistostats.Rmd | 8 vignettes/web_only/ggpiestats.Rmd | 57 - vignettes/web_only/ggscatterstats.Rmd | 2 vignettes/web_only/ggwithinstats.Rmd | 2 vignettes/web_only/pairwise.Rmd | 10 vignettes/web_only/principles.Rmd | 2 vignettes/web_only/purrr_examples.Rmd | 2 64 files changed, 523 insertions(+), 521 deletions(-)
Title: Minimal R/Shiny Interface to JavaScript Library 'ECharts'
Description: Deliver the full functionality of 'ECharts' with minimal overhead. 'echarty' users build R lists for 'ECharts' API. Lean set of powerful commands.
Author: Larry Helgason, with initial code from John Coene's library echarts4r
Maintainer: Larry Helgason <larry@helgasoft.com>
Diff between echarty versions 1.5.4 dated 2023-05-28 and 1.6.0 dated 2023-09-20
DESCRIPTION | 10 MD5 | 50 +- NEWS.md | 17 R/echarty.R | 777 +++++++++++++++------------------------- R/examples.R | 101 ++--- R/util.R | 421 ++++++++++++++++++--- demo/eshiny.R | 32 - demo/js2r.R | 6 inst/htmlwidgets/echarty.js | 78 +--- inst/js/echarts.min.js | 90 ++-- inst/js/renderers.js | 274 ++++++++------ man/ec.clmn.Rd | 12 man/ec.data.Rd | 3 man/ec.examples.Rd | 101 ++--- man/ec.fromJson.Rd | 29 - man/ec.init.Rd | 41 +- man/ec.inspect.Rd | 19 man/ec.paxis.Rd | 27 - man/ec.theme.Rd | 2 man/ec.upd.Rd | 9 man/ecr.ebars.Rd | 63 +-- tests/testthat/test-ec.clmn.R | 6 tests/testthat/test-ec.util.R | 187 +++++++++ tests/testthat/test-other.R | 252 +++++++----- tests/testthat/test-presets.R | 46 +- tests/testthat/test-renderers.R | 109 ++++- 26 files changed, 1594 insertions(+), 1168 deletions(-)
Title: Companion Tools for Open-Source Tools for Training Resources
(OTTR)
Description: Tools for converting Open-Source Tools for Training Resources
(OTTR) courses into Leanpub or Coursera courses. 'ottrpal' is for use
with the OTTR Template repository to create courses.
Author: Candace Savonen [aut, cre] ,
John Muschelli [aut] ,
Carrie Wright [ctb],
Howard Baek [ctb]
Maintainer: Candace Savonen <cansav09@gmail.com>
Diff between ottrpal versions 1.1.1 dated 2023-05-18 and 1.2 dated 2023-09-20
ottrpal-1.1.1/ottrpal/man/download_gs_file.Rd |only ottrpal-1.2/ottrpal/DESCRIPTION | 50 ++++++++---------- ottrpal-1.2/ottrpal/MD5 | 52 ++++++++++++------- ottrpal-1.2/ottrpal/NAMESPACE | 26 +++++++++ ottrpal-1.2/ottrpal/NEWS.md | 5 + ottrpal-1.2/ottrpal/R/aaa_utils.R | 1 ottrpal-1.2/ottrpal/R/auth.R |only ottrpal-1.2/ottrpal/R/bookdown_to_leanpub.R | 15 ++--- ottrpal-1.2/ottrpal/R/coursera.R | 18 ++---- ottrpal-1.2/ottrpal/R/data.R |only ottrpal-1.2/ottrpal/R/example_data.R | 2 ottrpal-1.2/ottrpal/R/footnotes.R | 3 - ottrpal-1.2/ottrpal/R/gs_png.R | 52 ------------------- ottrpal-1.2/ottrpal/R/leanpub_checks.R | 1 ottrpal-1.2/ottrpal/R/notes_to_fig_alt.R |only ottrpal-1.2/ottrpal/R/quiz.R | 17 +----- ottrpal-1.2/ottrpal/R/replace_html.R | 2 ottrpal-1.2/ottrpal/R/set_knitr_image_path.R | 3 - ottrpal-1.2/ottrpal/R/set_up.R | 4 - ottrpal-1.2/ottrpal/R/zzz.R |only ottrpal-1.2/ottrpal/build/vignette.rds |binary ottrpal-1.2/ottrpal/inst/doc/getting-started.html | 25 +++++---- ottrpal-1.2/ottrpal/inst/extdata/tmp |only ottrpal-1.2/ottrpal/man/auth_from_secret.Rd |only ottrpal-1.2/ottrpal/man/authorize.Rd |only ottrpal-1.2/ottrpal/man/bookdown_to_embed_leanpub.Rd | 7 +- ottrpal-1.2/ottrpal/man/encrypt_creds_path.Rd |only ottrpal-1.2/ottrpal/man/encrypt_creds_user_path.Rd |only ottrpal-1.2/ottrpal/man/extract_object_id.Rd |only ottrpal-1.2/ottrpal/man/get_gs_pptx.Rd |only ottrpal-1.2/ottrpal/man/get_object_id_notes.Rd |only ottrpal-1.2/ottrpal/man/key_encrypt_creds_path.Rd |only ottrpal-1.2/ottrpal/man/pptx_notes.Rd |only ottrpal-1.2/ottrpal/man/xml_notes.Rd |only 34 files changed, 127 insertions(+), 156 deletions(-)
Title: Organize and Curate Your Content Within 'Posit Connect'
Description: A collection of helper functions and 'htmlwidgets' to help publishers
curate content collections on 'Posit Connect'. The components,
Card, Grid, Table, Search, and Filter can be used to produce a
showcase page or gallery contained within a static or interactive
R Markdown page.
Author: Brian Smith [aut, cre],
Marcos Navarro [aut],
David Aja [ctb],
Kelly O'Briant [ctb],
Posit [cph]
Maintainer: Brian Smith <brian@rstudio.com>
Diff between connectwidgets versions 0.2.0 dated 2023-01-11 and 0.2.1 dated 2023-09-20
DESCRIPTION | 8 - MD5 | 42 ++--- NEWS.md | 9 + R/connect.R | 19 +- R/content_icons.R |only R/rsc_table.R | 71 +++++---- README.md | 8 - inst/doc/publishing.R | 2 inst/doc/publishing.html | 117 +++++++-------- inst/doc/using-crosstalk.R | 6 inst/doc/using-crosstalk.html | 183 +++++++++++------------- inst/htmlwidgets/rsc_card.js | 2 inst/htmlwidgets/rsc_card.js.map | 2 inst/htmlwidgets/rsc_filter.js | 2 inst/htmlwidgets/rsc_filter.js.map | 2 inst/htmlwidgets/rsc_grid.js | 2 inst/htmlwidgets/rsc_grid.js.map | 2 inst/theming/default/_rsc_grid_breakpoints.scss |only inst/theming/default/rsc_grid.scss | 47 ------ inst/theming/rsc_grid.scss | 48 ------ man/connectwidgets.Rd | 1 tests/testthat/test-connect.R | 7 tests/testthat/test-rsc_table.R | 117 ++++++++++++--- 23 files changed, 355 insertions(+), 342 deletions(-)
More information about connectwidgets at CRAN
Permanent link
Title: Client for 'jq', a 'JSON' Processor
Description: Client for 'jq', a 'JSON' processor (<https://jqlang.github.io/jq/>),
written in C. 'jq' allows the following with 'JSON' data: index into, parse,
do calculations, cut up and filter, change key names and values, perform
conditionals and comparisons, and more.
Author: Rich FitzJohn [aut],
Jeroen Ooms [aut, cre],
Scott Chamberlain [aut],
Stefan Milton Bache [aut]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between jqr versions 1.2.3 dated 2022-03-10 and 1.3.0 dated 2023-09-20
jqr-1.2.3/jqr/src/Makevars.ucrt |only jqr-1.3.0/jqr/DESCRIPTION | 10 +++++----- jqr-1.3.0/jqr/MD5 | 25 ++++++++++++------------- jqr-1.3.0/jqr/NAMESPACE | 3 +++ jqr-1.3.0/jqr/NEWS.md | 8 +++++++- jqr-1.3.0/jqr/R/at.R | 2 +- jqr-1.3.0/jqr/R/constructors.R | 2 +- jqr-1.3.0/jqr/R/jqr.R | 11 +++++++---- jqr-1.3.0/jqr/man/at.Rd | 2 +- jqr-1.3.0/jqr/man/build.Rd | 2 +- jqr-1.3.0/jqr/src/Makevars.win | 5 +++-- jqr-1.3.0/jqr/tests/testthat/test-dsl.R | 2 +- jqr-1.3.0/jqr/tests/testthat/test-spec.R | 2 +- jqr-1.3.0/jqr/tools/winlibs.R | 19 ++++++++++++++----- 14 files changed, 57 insertions(+), 36 deletions(-)
Title: R Interface to the Europe PubMed Central RESTful Web Service
Description: An R Client for the Europe PubMed Central RESTful Web Service
(see <https://europepmc.org/RestfulWebService> for more information). It
gives access to both metadata on life science literature and open access
full texts. Europe PMC indexes all PubMed content and other literature
sources including Agricola, a bibliographic database of citations to the
agricultural literature, or Biological Patents. In addition to bibliographic
metadata, the client allows users to fetch citations and reference lists.
Links between life-science literature and other EBI databases, including
ENA, PDB or ChEMBL are also accessible. No registration or API key is
required. See the vignettes for usage examples.
Author: Najko Jahn [aut, cre, cph],
Maelle Salmon [ctb]
Maintainer: Najko Jahn <najko.jahn@gmail.com>
Diff between europepmc versions 0.4.2 dated 2023-08-21 and 0.4.3 dated 2023-09-20
europepmc-0.4.2/europepmc/man/figures |only europepmc-0.4.3/europepmc/DESCRIPTION | 8 europepmc-0.4.3/europepmc/MD5 | 25 europepmc-0.4.3/europepmc/NEWS.md | 4 europepmc-0.4.3/europepmc/README.md | 46 europepmc-0.4.3/europepmc/inst/doc/evergreenreviewgraphs.Rmd | 88 europepmc-0.4.3/europepmc/inst/doc/evergreenreviewgraphs.html | 626 ++++-- europepmc-0.4.3/europepmc/inst/doc/introducing-europepmc.Rmd | 478 ++-- europepmc-0.4.3/europepmc/inst/doc/introducing-europepmc.html | 989 ++++++---- europepmc-0.4.3/europepmc/tests/testthat/test_epmc_hits_trend.R | 2 europepmc-0.4.3/europepmc/vignettes/evergreenreviewgraphs.Rmd | 88 europepmc-0.4.3/europepmc/vignettes/introducing-europepmc.Rmd | 478 ++-- europepmc-0.4.3/europepmc/vignettes/oa_pmc-1.png |binary europepmc-0.4.3/europepmc/vignettes/software_lit-1.png |binary 14 files changed, 1649 insertions(+), 1183 deletions(-)
Title: Miscellaneous Functions for Environmental Analyses
Description: Small toolbox for data analyses in environmental chemistry and
ecotoxicology. Provides, for example, calibration() to calculate calibration
curves and corresponding limits of detection (LODs) and limits of
quantification (LOQs) according to German DIN 32645 (2008). texture() makes
it easy to estimate soil particle size distributions from hydrometer
measurements (ASTM D422-63, 2007).
Author: Zacharias Steinmetz [aut, cre]
,
Julius Albert [ctb] ,
Kilian Kenngott [ctb]
Maintainer: Zacharias Steinmetz <z.steinmetz@rptu.de>
Diff between envalysis versions 0.5.5 dated 2023-08-07 and 0.6.0 dated 2023-09-20
envalysis-0.5.5/envalysis/inst/doc/texture.pdf |only envalysis-0.5.5/envalysis/man/mselect.Rd |only envalysis-0.5.5/envalysis/vignettes/texture.html |only envalysis-0.6.0/envalysis/DESCRIPTION | 17 envalysis-0.6.0/envalysis/MD5 | 129 ++-- envalysis-0.6.0/envalysis/NAMESPACE | 31 - envalysis-0.6.0/envalysis/NEWS.md | 51 + envalysis-0.6.0/envalysis/R/bisdom.R | 6 envalysis-0.6.0/envalysis/R/calibration.R | 305 ++++++---- envalysis-0.6.0/envalysis/R/clayloam.R | 13 envalysis-0.6.0/envalysis/R/din32645.R | 7 envalysis-0.6.0/envalysis/R/envalysis-package.R | 2 envalysis-0.6.0/envalysis/R/icp.R | 15 envalysis-0.6.0/envalysis/R/matrix_effect.R | 2 envalysis-0.6.0/envalysis/R/mselect.R | 94 --- envalysis-0.6.0/envalysis/R/neitzel2003.R | 15 envalysis-0.6.0/envalysis/R/phenolics.R |only envalysis-0.6.0/envalysis/R/rmse.R | 25 envalysis-0.6.0/envalysis/R/se.R | 2 envalysis-0.6.0/envalysis/R/signifig.R | 52 - envalysis-0.6.0/envalysis/R/sorption.R | 41 - envalysis-0.6.0/envalysis/R/texture.R | 113 ++- envalysis-0.6.0/envalysis/R/theme_publish.R | 4 envalysis-0.6.0/envalysis/R/weight_select.R | 56 - envalysis-0.6.0/envalysis/README.md | 28 envalysis-0.6.0/envalysis/build/vignette.rds |binary envalysis-0.6.0/envalysis/data/phenolics.rda |only envalysis-0.6.0/envalysis/inst/doc/calibration.R |only envalysis-0.6.0/envalysis/inst/doc/calibration.Rmd |only envalysis-0.6.0/envalysis/inst/doc/calibration.html |only envalysis-0.6.0/envalysis/inst/doc/texture.R | 34 - envalysis-0.6.0/envalysis/inst/doc/texture.Rmd | 138 ++-- envalysis-0.6.0/envalysis/inst/doc/texture.html |only envalysis-0.6.0/envalysis/inst/doc/theme_publish.R | 29 envalysis-0.6.0/envalysis/inst/doc/theme_publish.Rmd | 55 + envalysis-0.6.0/envalysis/inst/doc/theme_publish.html | 54 + envalysis-0.6.0/envalysis/man/bisdom.Rd | 4 envalysis-0.6.0/envalysis/man/calibration.Rd | 130 ++-- envalysis-0.6.0/envalysis/man/clayloam.Rd | 13 envalysis-0.6.0/envalysis/man/din32645.Rd | 8 envalysis-0.6.0/envalysis/man/envalysis-package.Rd | 3 envalysis-0.6.0/envalysis/man/icp.Rd | 16 envalysis-0.6.0/envalysis/man/matrix_effect.Rd | 1 envalysis-0.6.0/envalysis/man/neitzel2003.Rd | 16 envalysis-0.6.0/envalysis/man/phenolics.Rd |only envalysis-0.6.0/envalysis/man/rmse.Rd | 15 envalysis-0.6.0/envalysis/man/signifig.Rd | 12 envalysis-0.6.0/envalysis/man/sorption.Rd | 22 envalysis-0.6.0/envalysis/man/texture.Rd | 41 - envalysis-0.6.0/envalysis/man/theme_publish.Rd | 4 envalysis-0.6.0/envalysis/man/weight_select.Rd | 29 envalysis-0.6.0/envalysis/tests/testthat/_snaps/calibration.md | 2 envalysis-0.6.0/envalysis/tests/testthat/_snaps/texture.md | 2 envalysis-0.6.0/envalysis/tests/testthat/_snaps/weight_select.md | 2 envalysis-0.6.0/envalysis/tests/testthat/test-calibration.R | 181 ++++- envalysis-0.6.0/envalysis/tests/testthat/test-helper-functions.R | 22 envalysis-0.6.0/envalysis/tests/testthat/test-input-classes.R | 3 envalysis-0.6.0/envalysis/tests/testthat/test-matrix_effect.R | 18 envalysis-0.6.0/envalysis/tests/testthat/test-mselect.R | 6 envalysis-0.6.0/envalysis/tests/testthat/test-signifig.R | 51 - envalysis-0.6.0/envalysis/tests/testthat/test-sorption.R | 44 - envalysis-0.6.0/envalysis/tests/testthat/test-texture.R | 106 ++- envalysis-0.6.0/envalysis/tests/testthat/test-weight_select.R | 9 envalysis-0.6.0/envalysis/vignettes/calibration.Rmd |only envalysis-0.6.0/envalysis/vignettes/calibration_files |only envalysis-0.6.0/envalysis/vignettes/texture.Rmd | 138 ++-- envalysis-0.6.0/envalysis/vignettes/texture_files/figure-html/soiltexture_plot-1.png |only envalysis-0.6.0/envalysis/vignettes/texture_files/figure-html/soiltexture_plot-2.png |only envalysis-0.6.0/envalysis/vignettes/theme_publish.Rmd | 55 + envalysis-0.6.0/envalysis/vignettes/theme_publish_files/figure-html/default_theme-1.png |only envalysis-0.6.0/envalysis/vignettes/theme_publish_files/figure-html/theme_arguments-1.png |only envalysis-0.6.0/envalysis/vignettes/theme_publish_files/figure-html/theme_publish-1.png |binary 72 files changed, 1389 insertions(+), 882 deletions(-)
Title: Utilities for Dates and Times
Description: Utilities for handling dates and times, such
as selecting particular days of the week or month,
formatting timestamps as required by RSS feeds, or
converting timestamp representations of other software
(such as 'MATLAB' and 'Excel') to R. The package is
lightweight (no dependencies, pure R implementations) and
relies only on R's standard classes to represent dates
and times ('Date' and 'POSIXt'); it aims to provide
efficient implementations, through vectorisation and the
use of R's native numeric representations of timestamps
where possible.
Author: Enrico Schumann [aut, cre] ,
Unicode, Inc. [dtc, cph]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between datetimeutils versions 0.6-1 dated 2023-04-05 and 0.6-2 dated 2023-09-20
DESCRIPTION | 11 ++++++----- MD5 | 20 ++++++++++---------- NEWS | 7 +++++++ README.md | 6 +++--- build/partial.rdb |binary build/vignette.rds |binary data/tznames.RData |binary inst/doc/datetimeutils_examples.R | 16 ++++++++-------- inst/doc/datetimeutils_examples.Rnw | 9 +++++---- inst/doc/datetimeutils_examples.pdf |binary vignettes/datetimeutils_examples.Rnw | 9 +++++---- 11 files changed, 44 insertions(+), 34 deletions(-)
Title: Sign-Simplicity-Regression-Solver
Description: Implementation of the SSR-Algorithm. The Sign-Simplicity-Regression model is a nonparametric statistical model which is based on residual signs and simplicity assumptions on the regression function. Goal is to calculate the most parsimonious regression function satisfying the statistical adequacy requirements. Theory and functions are specified in Metzner (2020, ISBN: 979-8-68239-420-3, "Trendbasierte Prognostik") and Metzner (2021, ISBN: 979-8-59347-027-0, "Adäquates Maschinelles Lernen").
Author: Lars Metzner [aut, cre]
Maintainer: Lars Metzner <lars.metzner@ppi.de>
Diff between sisireg versions 1.1.0 dated 2023-09-07 and 1.1.1 dated 2023-09-20
sisireg-1.1.0/sisireg/man/ffi_model.Rd |only sisireg-1.1.0/sisireg/man/ffi_prediction.Rd |only sisireg-1.1.1/sisireg/DESCRIPTION | 6 ++-- sisireg-1.1.1/sisireg/MD5 | 14 +++++------ sisireg-1.1.1/sisireg/R/onnx.R | 34 ++++++++++++++++------------ sisireg-1.1.1/sisireg/R/ssrMLP.R | 18 +++++++------- sisireg-1.1.1/sisireg/man/fii_model.Rd |only sisireg-1.1.1/sisireg/man/fii_prediction.Rd |only sisireg-1.1.1/sisireg/man/onnx_load.Rd | 2 - sisireg-1.1.1/sisireg/man/onnx_save.Rd | 2 - 10 files changed, 41 insertions(+), 35 deletions(-)
Title: Calculate Mean Residual Life (MRL) and Related Values for
Different Distributions
Description: A pair of functions for calculating mean residual life (MRL)
, median residual life, and percentile residual life using the outputs of
either the 'flexsurv' package or parameters
provided by the user. Input information about the distribution, the given
'life' value, the percentile, and the type of residual life,
and the function will return your desired values. For the 'flexsurv' option,
the function allows the user to input their own data for making predictions.
This function is based on Jackson (2016) <doi:10.18637/jss.v070.i08>.
Author: Andrew Crawford [cre, aut],
Zekai Wang [aut],
Ka Lok Lee [aut]
Maintainer: Andrew Crawford <atcrawford18@gmail.com>
Diff between reslife versions 0.1.1 dated 2023-09-18 and 0.1.2 dated 2023-09-20
DESCRIPTION | 10 +++---- MD5 | 12 ++++----- NEWS.md | 4 +-- R/gengamma_rl.R | 2 - build/partial.rdb |binary inst/doc/reslife-demo.html | 60 ++++++++++++++++++++++----------------------- man/reslife-package.Rd | 2 - 7 files changed, 45 insertions(+), 45 deletions(-)
More information about pharmaverseadam at CRAN
Permanent link
More information about mplusParallel.automation at CRAN
Permanent link
Title: Fast, Sensitive, and Accurate Integration of Single Cell Data
Description: Implementation of the Harmony algorithm for single cell integration, described in Korsunsky et al <doi:10.1038/s41592-019-0619-0>. Package includes a standalone Harmony function and interfaces to external frameworks.
Author: Ilya Korsunsky [cre, aut] ,
Martin Hemberg [aut] ,
Nikolaos Patikas [aut, ctb] ,
Hongcheng Yao [aut, ctb] ,
Nghia Millard [aut] ,
Jean Fan [aut, ctb] ,
Kamil Slowikowski [aut, ctb] ,
Miles Smith [ctb],
Soumya Raychaudhuri [aut]
Maintainer: Ilya Korsunsky <ilya.korsunsky@gmail.com>
Diff between harmony versions 0.1.1 dated 2022-11-14 and 1.0.1 dated 2023-09-20
harmony-0.1.1/harmony/README.md |only harmony-0.1.1/harmony/man/HarmonyMatrix.Rd |only harmony-1.0.1/harmony/DESCRIPTION | 27 harmony-1.0.1/harmony/MD5 | 72 - harmony-1.0.1/harmony/NAMESPACE | 3 harmony-1.0.1/harmony/NEWS | 29 harmony-1.0.1/harmony/R/RcppExports.R | 12 harmony-1.0.1/harmony/R/RunHarmony.R | 193 +--- harmony-1.0.1/harmony/R/data.R | 18 harmony-1.0.1/harmony/R/harmony-package.r | 11 harmony-1.0.1/harmony/R/harmony_option.R |only harmony-1.0.1/harmony/R/ui.R | 416 +++++---- harmony-1.0.1/harmony/R/utils.R | 118 -- harmony-1.0.1/harmony/build/partial.rdb |only harmony-1.0.1/harmony/build/vignette.rds |binary harmony-1.0.1/harmony/data/pbmc_stim.RData |only harmony-1.0.1/harmony/inst/doc/Seurat.R |only harmony-1.0.1/harmony/inst/doc/Seurat.Rmd |only harmony-1.0.1/harmony/inst/doc/Seurat.html |only harmony-1.0.1/harmony/inst/doc/detailedWalkthrough.R |only harmony-1.0.1/harmony/inst/doc/detailedWalkthrough.Rmd |only harmony-1.0.1/harmony/inst/doc/detailedWalkthrough.html |only harmony-1.0.1/harmony/inst/doc/quickstart.R | 8 harmony-1.0.1/harmony/inst/doc/quickstart.Rmd | 38 harmony-1.0.1/harmony/inst/doc/quickstart.html | 738 +++++++--------- harmony-1.0.1/harmony/man/RunHarmony.Rd | 107 -- harmony-1.0.1/harmony/man/RunHarmony.default.Rd |only harmony-1.0.1/harmony/man/harmony.Rd | 10 harmony-1.0.1/harmony/man/harmony_options.Rd |only harmony-1.0.1/harmony/man/moe_ridge_get_betas.Rd | 2 harmony-1.0.1/harmony/man/pbmc.ctrl.Rd |only harmony-1.0.1/harmony/man/pbmc.stim.Rd |only harmony-1.0.1/harmony/src/Makevars | 3 harmony-1.0.1/harmony/src/Makevars.win | 1 harmony-1.0.1/harmony/src/RcppExports.cpp | 41 harmony-1.0.1/harmony/src/harmony.cpp | 463 +++++----- harmony-1.0.1/harmony/src/harmony.h | 50 - harmony-1.0.1/harmony/src/harmony_types.h | 6 harmony-1.0.1/harmony/src/timer.cpp |only harmony-1.0.1/harmony/src/timer.h |only harmony-1.0.1/harmony/src/timers.h |only harmony-1.0.1/harmony/src/types.h |only harmony-1.0.1/harmony/src/utils.cpp |only harmony-1.0.1/harmony/src/utils.h | 132 -- harmony-1.0.1/harmony/tests/testthat/test_integration.R | 49 - harmony-1.0.1/harmony/vignettes/Seurat.Rmd |only harmony-1.0.1/harmony/vignettes/detailedWalkthrough.Rmd |only harmony-1.0.1/harmony/vignettes/quickstart.Rmd | 38 48 files changed, 1232 insertions(+), 1353 deletions(-)
Title: Get Data from the Swiss Federal Statistical Office
Description: Search and download data from the Swiss Federal Statistical Office (BFS) APIs <https://www.bfs.admin.ch/>.
Author: Felix Luginbuhl [aut, cre],
Janosch Brenzel-Weiss [ctb],
Joao Martins [ctb],
Philipp Baumann [ctb]
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between BFS versions 0.5.4 dated 2023-09-13 and 0.5.5 dated 2023-09-20
BFS-0.5.4/BFS/man/figures/logo2.png |only BFS-0.5.5/BFS/DESCRIPTION | 24 +++-- BFS-0.5.5/BFS/MD5 | 72 +++++++++------- BFS-0.5.5/BFS/NAMESPACE | 60 +++++++------ BFS-0.5.5/BFS/NEWS.md | 8 + BFS-0.5.5/BFS/R/bfs_download_asset.R | 27 +++--- BFS-0.5.5/BFS/R/bfs_download_geodata.R | 27 +++--- BFS-0.5.5/BFS/R/bfs_get_asset_metadata.R | 35 +++----- BFS-0.5.5/BFS/R/bfs_get_base_maps.R | 84 ++++++++++--------- BFS-0.5.5/BFS/R/bfs_get_catalog.R | 14 +-- BFS-0.5.5/BFS/R/bfs_get_catalog_data.R | 116 +++++++++++++------------- BFS-0.5.5/BFS/R/bfs_get_catalog_geodata.R | 46 +++++----- BFS-0.5.5/BFS/R/bfs_get_catalog_tables.R | 117 +++++++++++++-------------- BFS-0.5.5/BFS/R/bfs_get_data.R | 52 ++++++------ BFS-0.5.5/BFS/R/bfs_get_data_comments.R | 48 ++++++----- BFS-0.5.5/BFS/R/bfs_get_metadata.R | 48 ++++++----- BFS-0.5.5/BFS/R/data.R | 48 +++++------ BFS-0.5.5/BFS/R/globals.R | 2 BFS-0.5.5/BFS/README.md | 108 +++++++++++++++++------- BFS-0.5.5/BFS/man/bfs_download_asset.Rd | 7 - BFS-0.5.5/BFS/man/bfs_download_geodata.Rd | 2 BFS-0.5.5/BFS/man/bfs_get_base_maps.Rd | 97 +++++++++++----------- BFS-0.5.5/BFS/man/bfs_get_catalog.Rd | 4 BFS-0.5.5/BFS/man/bfs_get_catalog_data.Rd | 6 - BFS-0.5.5/BFS/man/bfs_get_catalog_geodata.Rd | 2 BFS-0.5.5/BFS/man/bfs_get_catalog_tables.Rd | 6 - BFS-0.5.5/BFS/man/bfs_get_data.Rd | 2 BFS-0.5.5/BFS/man/bfs_get_metadata.Rd | 6 - BFS-0.5.5/BFS/man/register_bzn.Rd | 8 - BFS-0.5.5/BFS/man/register_dic.Rd | 8 - BFS-0.5.5/BFS/man/register_gde.Rd | 8 - BFS-0.5.5/BFS/man/register_gde_other.Rd | 8 - BFS-0.5.5/BFS/man/register_kt.Rd | 8 - BFS-0.5.5/BFS/man/register_kt_seeanteile.Rd | 8 - BFS-0.5.5/BFS/tests |only 35 files changed, 600 insertions(+), 516 deletions(-)
Title: Non-Parametric Bayesian Spectrum Estimation for Multirate Data
Description: Computes linear Bayesian spectral estimates from multirate data for second-order stationary time series. Provides credible intervals and methods for plotting various spectral estimates. Please see the paper `Should we sample a time series more frequently?' (doi below) for a full description of and motivation for the methodology.
Author: Ben Powell [aut, cre],
Guy Nason [aut]
Maintainer: Ben Powell <ben.powell@york.ac.uk>
Diff between regspec versions 2.6 dated 2022-06-01 and 2.7 dated 2023-09-20
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/CITATION | 12 ++++++------ man/regspec-package.Rd | 9 +-------- 4 files changed, 14 insertions(+), 21 deletions(-)
Title: Crew Launcher Plugins for Traditional High-Performance Computing
Clusters
Description: In computationally demanding analysis projects,
statisticians and data scientists asynchronously
deploy long-running tasks to distributed systems,
ranging from traditional clusters to cloud services.
The 'crew.cluster' package extends the 'mirai'-powered
'crew' package with worker launcher plugins for traditional
high-performance computing systems.
Inspiration also comes from packages 'mirai' by Gao (2023)
<https://github.com/shikokuchuo/mirai>,
'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>,
'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>,
'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>),
and 'batchtools' by Lang, Bischl, and Surmann (2017).
<doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre]
,
Michael Gilbert Levin [aut] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between crew.cluster versions 0.1.1 dated 2023-06-15 and 0.1.2 dated 2023-09-20
crew.cluster-0.1.1/crew.cluster/R/utils_packages.R |only crew.cluster-0.1.1/crew.cluster/tests/testthat/helper-utils.R |only crew.cluster-0.1.1/crew.cluster/tests/testthat/test-utils_packages.R |only crew.cluster-0.1.2/crew.cluster/DESCRIPTION | 8 crew.cluster-0.1.2/crew.cluster/MD5 | 81 ++++------ crew.cluster-0.1.2/crew.cluster/NAMESPACE | 1 crew.cluster-0.1.2/crew.cluster/NEWS.md | 8 crew.cluster-0.1.2/crew.cluster/R/crew_controller_lsf.R | 12 + crew.cluster-0.1.2/crew.cluster/R/crew_controller_pbs.R | 12 + crew.cluster-0.1.2/crew.cluster/R/crew_controller_sge.R | 12 + crew.cluster-0.1.2/crew.cluster/R/crew_controller_slurm.R | 18 +- crew.cluster-0.1.2/crew.cluster/R/crew_launcher_cluster.R | 12 + crew.cluster-0.1.2/crew.cluster/R/crew_launcher_lsf.R | 10 + crew.cluster-0.1.2/crew.cluster/R/crew_launcher_pbs.R | 10 + crew.cluster-0.1.2/crew.cluster/R/crew_launcher_sge.R | 10 + crew.cluster-0.1.2/crew.cluster/R/crew_launcher_slurm.R | 49 +++++- crew.cluster-0.1.2/crew.cluster/R/crew_package.R | 2 crew.cluster-0.1.2/crew.cluster/inst/WORDLIST | 2 crew.cluster-0.1.2/crew.cluster/man/crew_class_launcher_cluster.Rd | 7 crew.cluster-0.1.2/crew.cluster/man/crew_class_launcher_lsf.Rd | 7 crew.cluster-0.1.2/crew.cluster/man/crew_class_launcher_pbs.Rd | 7 crew.cluster-0.1.2/crew.cluster/man/crew_class_launcher_sge.Rd | 7 crew.cluster-0.1.2/crew.cluster/man/crew_class_launcher_slurm.Rd | 14 + crew.cluster-0.1.2/crew.cluster/man/crew_controller_lsf.Rd | 32 +++ crew.cluster-0.1.2/crew.cluster/man/crew_controller_pbs.Rd | 32 +++ crew.cluster-0.1.2/crew.cluster/man/crew_controller_sge.Rd | 32 +++ crew.cluster-0.1.2/crew.cluster/man/crew_controller_slurm.Rd | 45 ++++- crew.cluster-0.1.2/crew.cluster/man/crew_launcher_cluster.Rd | 24 ++ crew.cluster-0.1.2/crew.cluster/man/crew_launcher_lsf.Rd | 24 ++ crew.cluster-0.1.2/crew.cluster/man/crew_launcher_pbs.Rd | 24 ++ crew.cluster-0.1.2/crew.cluster/man/crew_launcher_sge.Rd | 24 ++ crew.cluster-0.1.2/crew.cluster/man/crew_launcher_slurm.Rd | 37 +++- crew.cluster-0.1.2/crew.cluster/tests/sge/minimal.R | 2 crew.cluster-0.1.2/crew.cluster/tests/sge/persistent.R | 1 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_controller_lsf.R | 2 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_controller_pbs.R | 1 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_controller_sge.R | 1 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_controller_slurm.R | 10 - crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_launcher_cluster.R | 4 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_launcher_lsf.R | 8 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_launcher_pbs.R | 6 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_launcher_sge.R | 6 crew.cluster-0.1.2/crew.cluster/tests/testthat/test-crew_launcher_slurm.R | 15 - 43 files changed, 457 insertions(+), 162 deletions(-)
Title: Ensembles of Caret Models
Description: Functions for creating ensembles of caret models: caretList()
and caretStack(). caretList() is a convenience function for fitting multiple
caret::train() models to the same dataset. caretStack() will make linear or
non-linear combinations of these models, using a caret::train() model as a
meta-model, and caretEnsemble() will make a robust linear combination of
models using a GLM.
Author: Zachary A. Deane-Mayer [aut, cre],
Jared E. Knowles [aut]
Maintainer: Zachary A. Deane-Mayer <zach.mayer@gmail.com>
Diff between caretEnsemble versions 2.0.2 dated 2023-02-08 and 2.0.3 dated 2023-09-20
DESCRIPTION | 8 - MD5 | 18 +-- NEWS.md | 4 R/caretEnsemble-package.R | 1 README.md | 4 build/vignette.rds |binary inst/doc/caretEnsemble-intro.R | 32 ++--- inst/doc/caretEnsemble-intro.html | 228 +++++++++++++++++++------------------- man/caretEnsemble.Rd | 1 tests/testthat/test-lintr.R | 4 10 files changed, 153 insertions(+), 147 deletions(-)
Title: A Procedure for Multicollinearity Testing using Bootstrap
Description: Functions for detecting multicollinearity. This test gives statistical support to two of the most famous methods for detecting multicollinearity in applied work: Klein’s rule and Variance Inflation Factor (VIF). See the URL for the papers associated with this package, as for instance, Morales-Oñate and Morales-Oñate (2015) <doi:10.33333/rp.vol51n2.05>.
Author: Victor Morales-Onate [aut, cre]
,
Bolivar Morales-Onate [aut]
Maintainer: Victor Morales-Onate <victor.morales@uv.cl>
Diff between MTest versions 1.0.0 dated 2023-07-18 and 1.0.1 dated 2023-09-20
DESCRIPTION | 10 +-- MD5 | 12 ++-- NAMESPACE | 5 + R/MTest.R | 141 +++++++++++++++++++++++++++++++++----------------- R/pairwiseKStest.R | 34 +++++++----- man/MTest.Rd | 4 + man/pairwiseKStest.Rd | 3 - 7 files changed, 136 insertions(+), 73 deletions(-)
Title: Programmatically Collect Normalized News from (Almost) Any
Website
Description: Programmatically collect normalized news from
(almost) any website. An 'R' clone of the
<https://github.com/kotartemiy/newscatcher> 'Python' module.
Author: Novica Nakov [aut, cre],
Teofil Nakov [ctb],
Artem Bugara [ctb],
Discindo [cph]
Maintainer: Novica Nakov <nnovica@gmail.com>
Diff between newscatcheR versions 0.1.1 dated 2022-04-29 and 0.1.2 dated 2023-09-20
newscatcheR-0.1.1/newscatcheR/R/newscatcheR.R |only newscatcheR-0.1.1/newscatcheR/man/newscatcheR.Rd |only newscatcheR-0.1.2/newscatcheR/DESCRIPTION | 8 newscatcheR-0.1.2/newscatcheR/LICENSE | 4 newscatcheR-0.1.2/newscatcheR/MD5 | 68 newscatcheR-0.1.2/newscatcheR/NAMESPACE | 16 newscatcheR-0.1.2/newscatcheR/NEWS.md | 3 newscatcheR-0.1.2/newscatcheR/R/check_url.R | 62 newscatcheR-0.1.2/newscatcheR/R/describe_url.R | 62 newscatcheR-0.1.2/newscatcheR/R/filter_helpers.R | 92 - newscatcheR-0.1.2/newscatcheR/R/filter_urls.R | 166 - newscatcheR-0.1.2/newscatcheR/R/get_headlines.R | 62 newscatcheR-0.1.2/newscatcheR/R/get_news.R | 106 - newscatcheR-0.1.2/newscatcheR/R/newscatcheR-package.R |only newscatcheR-0.1.2/newscatcheR/R/package_rss.R | 34 newscatcheR-0.1.2/newscatcheR/README.md | 346 +--- newscatcheR-0.1.2/newscatcheR/build/vignette.rds |binary newscatcheR-0.1.2/newscatcheR/inst/doc/newscatcheR.R | 64 newscatcheR-0.1.2/newscatcheR/inst/doc/newscatcheR.Rmd | 158 - newscatcheR-0.1.2/newscatcheR/inst/doc/newscatcheR.html | 837 +++++----- newscatcheR-0.1.2/newscatcheR/man/check_url.Rd | 42 newscatcheR-0.1.2/newscatcheR/man/describe_url.Rd | 50 newscatcheR-0.1.2/newscatcheR/man/filter_urls.Rd | 72 newscatcheR-0.1.2/newscatcheR/man/get_headlines.Rd | 82 newscatcheR-0.1.2/newscatcheR/man/get_news.Rd | 74 newscatcheR-0.1.2/newscatcheR/man/newscatcheR-package.Rd |only newscatcheR-0.1.2/newscatcheR/man/package_rss.Rd | 56 newscatcheR-0.1.2/newscatcheR/man/show_countries.Rd | 44 newscatcheR-0.1.2/newscatcheR/man/show_languages.Rd | 42 newscatcheR-0.1.2/newscatcheR/man/show_topics.Rd | 44 newscatcheR-0.1.2/newscatcheR/tests/testthat.R | 8 newscatcheR-0.1.2/newscatcheR/tests/testthat/test-check_url.R | 20 newscatcheR-0.1.2/newscatcheR/tests/testthat/test-decribe_url.R | 18 newscatcheR-0.1.2/newscatcheR/tests/testthat/test-filter_urls.R | 114 - newscatcheR-0.1.2/newscatcheR/tests/testthat/test-get_headlines.R | 30 newscatcheR-0.1.2/newscatcheR/tests/testthat/test-get_news.R | 60 newscatcheR-0.1.2/newscatcheR/vignettes/newscatcheR.Rmd | 158 - 37 files changed, 1499 insertions(+), 1503 deletions(-)
Title: Data Analysis Part of 'IOHprofiler'
Description: The data analysis module for the Iterative Optimization Heuristics
Profiler ('IOHprofiler'). This module provides statistical analysis methods for the
benchmark data generated by optimization heuristics, which can be visualized through a
web-based interface. The benchmark data is usually generated by the
experimentation module, called 'IOHexperimenter'. 'IOHanalyzer' also supports
the widely used 'COCO' (Comparing Continuous Optimisers) data format for benchmarking.
Author: Hao Wang [aut] ,
Diederick Vermetten [cre, aut]
,
Carola Doerr [aut] ,
Thomas Baeck [aut]
Maintainer: Diederick Vermetten <d.l.vermetten@liacs.leidenuniv.nl>
Diff between IOHanalyzer versions 0.1.6.3 dated 2022-03-09 and 0.1.8.2 dated 2023-09-20
DESCRIPTION | 17 MD5 | 125 ++++--- NAMESPACE | 31 + R/DataSet.R | 167 +++++++-- R/DataSetList.R | 442 ++++++++++++++++++++++--- R/IOHanalyzer.R | 20 - R/RcppExports.R | 11 R/plot.R | 157 +++++--- R/plotDataSetList.R | 457 +++++++++++++++++++++++++- R/readFiles.R | 509 +++++++++++++++++++++++------ R/stats.R | 40 +- README.md | 12 inst/shiny-server/global.R | 25 + inst/shiny-server/markdown/welcome.html |only inst/shiny-server/markdown/welcome.md | 6 inst/shiny-server/server/EAF_plots.R |only inst/shiny-server/server/FCEPDF.R | 43 ++ inst/shiny-server/server/FCEPlot.R | 38 +- inst/shiny-server/server/FCE_ECDF.R | 31 + inst/shiny-server/server/FV_PAR.R | 94 +++-- inst/shiny-server/server/RTPMF.R | 49 ++ inst/shiny-server/server/RT_ECDF.R | 35 + inst/shiny-server/server/settings_page.R | 37 +- inst/shiny-server/server/upload.R | 317 ++++++++++-------- inst/shiny-server/ui.R | 54 ++- inst/shiny-server/ui/DIM_fID_panel.R | 12 inst/shiny-server/ui/EAF_boxes.R |only inst/shiny-server/ui/fv_CDP_box.R |only inst/shiny-server/ui/fv_box.R | 45 +- inst/shiny-server/ui/fv_ecdf_box.R | 17 inst/shiny-server/ui/fv_par_box.R | 73 +++- inst/shiny-server/ui/settings.R | 10 inst/shiny-server/ui/sidebar_menu.R | 58 +-- inst/shiny-server/ui/upload_box.R | 160 +++++++-- man/DataSet.Rd | 6 man/IOH_plot_ly_default.Rd | 2 man/IOHanalyzer.Rd | 21 + man/Plot.FV.ECDF_AUC.Rd | 1 man/Plot.FV.ECDF_Per_Target.Rd | 1 man/Plot.FV.ECDF_Single_Func.Rd | 1 man/Plot.RT.ECDF_AUC.Rd | 1 man/Plot.RT.ECDF_Multi_Func.Rd | 1 man/Plot.RT.ECDF_Per_Target.Rd | 1 man/Plot.RT.ECDF_Single_Func.Rd | 1 man/Plot.cumulative_difference_plot.Rd |only man/generate_data.AUC.Rd | 1 man/generate_data.CDP.Rd |only man/generate_data.EAF.Rd |only man/generate_data.EAF_Difference.Rd |only man/generate_data.EAF_diff_Approximate.Rd |only man/generate_data.ECDF_From_EAF.Rd |only man/generate_data.ECDF_raw.Rd | 1 man/generate_data.Parameter_correlation.Rd |only man/generate_data.Single_Function.Rd | 6 man/get_FV.Rd |only man/get_FV_summary.Rd | 7 man/get_RT.Rd |only man/get_dsc_omnibus.Rd | 2 man/get_dsc_posthoc.Rd | 2 man/get_dsc_rank.Rd | 2 man/get_shapley_values.Rd | 4 man/plot_eaf_data.Rd |only man/plot_eaf_differences.Rd |only man/plot_general_data.Rd | 9 man/read_IOH_v1plus.Rd |only man/read_pure_csv.Rd |only man/scan_index_file.Rd | 4 man/seq_FV.Rd | 13 man/set_color_scheme.Rd | 2 src/RcppExports.cpp | 15 src/align.cc | 31 + tests/testthat.R | 4 72 files changed, 2575 insertions(+), 656 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions used in
'mlr3' and its companion packages. Comes with helper functions for
functional programming, for printing, to work with 'data.table', as
well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Michel Lang [cre, aut] ,
Patrick Schratz [aut]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3misc versions 0.12.0 dated 2023-05-12 and 0.13.0 dated 2023-09-20
DESCRIPTION | 33 +++++++++++++++++---------------- MD5 | 29 ++++++++++++++++------------- NAMESPACE | 4 ++++ NEWS.md | 7 +++++++ R/crate.R | 4 ++-- R/dictionary_sugar_safe.R |only R/leanify.R | 4 ++++ man/crate.Rd | 4 ++-- man/dictionary_sugar_get_safe.Rd |only man/dictionary_sugar_inc_get_safe.Rd |only man/encapsulate.Rd | 2 +- src/count_missing.c | 23 ++++++++++++----------- src/init.c | 1 + src/keep_in_bounds.c | 5 +++-- src/to_decimal.c | 9 +++++---- src/which_max.c | 15 ++++++++------- tests/testthat/test_Dictionary.R | 33 +++++++++++++++++++++------------ 17 files changed, 103 insertions(+), 70 deletions(-)
Title: Interface to 'Zenodo' REST API
Description: Provides an Interface to 'Zenodo' (<https://zenodo.org>) REST API,
including management of depositions, attribution of DOIs by 'Zenodo' and
upload and download of files.
Author: Emmanuel Blondel [aut, cre] ,
Julien Barde [ctb] ,
Stephen Eglen [ctb] ,
Hans Van Calster [ctb] ,
Floris Vanderhaeghe [ctb] ,
Jemma Stachelek [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between zen4R versions 0.8 dated 2023-01-19 and 0.9 dated 2023-09-20
DESCRIPTION | 18 - MD5 | 38 +- NAMESPACE | 5 NEWS.md | 24 + R/ZenodoManager.R | 15 R/ZenodoRecord.R | 101 ++++-- R/ZenodoRequest.R | 57 ++- R/zen4R.R | 3 R/zen4R_downloader.R | 12 R/zen4R_exporter.R | 12 R/zen4R_getter.R |only R/zen4R_licenses.R |only R/zen4R_versioning.R | 12 README.md | 6 build/vignette.rds |binary inst/doc/zen4R.html | 685 +++++++++++------------------------------- man/ZenodoManager.Rd | 5 man/ZenodoRecord.Rd | 50 ++- man/ZenodoRequest.Rd | 3 man/get_licenses.Rd |only man/get_zenodo.Rd |only tests/testthat/test_records.R | 21 - 22 files changed, 456 insertions(+), 611 deletions(-)
Title: Time Series Analysis and Control Package
Description: Functions for statistical analysis, prediction and control of time
series based mainly on Akaike and Nakagawa (1988) <ISBN 978-90-277-2786-2>.
Author: The Institute of Statistical Mathematics
Maintainer: Masami Saga <msaga@mtb.biglobe.ne.jp>
Diff between timsac versions 1.3.8-2 dated 2023-07-12 and 1.3.8-3 dated 2023-09-20
DESCRIPTION | 8 +- MD5 | 86 ++++++++++----------- NEWS.md | 5 + src/auspecf.f | 1 src/autarmf.f | 31 ++++++- src/autcorf.f | 1 src/bayseaf.f | 125 ++++++++++++++++++++++--------- src/bispecf.f | 8 ++ src/blocarf.f | 3 src/blomarf.f | 3 src/bsubstf.f | 52 ++++++++++--- src/canarmf.f | 27 ++++-- src/canocaf.f | 42 ++++++++-- src/comsub.f | 223 +++++++++++++++++++++++++++++++++++++++++++++++---------- src/covgenf.f | 5 + src/decomp6f.f | 216 +++++++++++++++++++++++++++++++++++++++---------------- src/exsarf.f | 23 ++++- src/fftcorf.f | 1 src/fpeautf.f | 1 src/fpecf.f | 3 src/markovf.f | 98 ++++++++++++++++++++----- src/mlocarf.f | 8 +- src/mlomarf.f | 4 - src/mulbarf.f | 1 src/mulcorf.f | 1 src/mulfref.f | 10 ++ src/mulmarf.f | 1 src/mulnosf.f | 2 src/mulrspf.f | 4 - src/mulspef.f | 10 ++ src/nonstf.f | 8 +- src/optdesf.f | 6 + src/optsimf.f | 3 src/perarsf.f | 6 + src/prdctrf.f | 37 ++++----- src/raspecf.f | 2 src/sglfref.f | 9 ++ src/simconf.f | 34 +++++--- src/spgrhf.f | 6 + src/thirmof.f | 1 src/unibarf.f | 1 src/unimarf.f | 1 src/wnoisef.f | 5 + src/xsarmaf.f | 23 +++++ 44 files changed, 856 insertions(+), 289 deletions(-)
Title: Rendering Parameterized SQL and Translation to Dialects
Description: A rendering tool for parameterized SQL that also translates into
different SQL dialects. These dialects include 'Microsoft SQL Server', 'Oracle',
'PostgreSql', 'Amazon RedShift', 'Apache Impala', 'IBM Netezza', 'Google BigQuery', 'Microsoft PDW', 'Snowflake',
'Azure Synapse Analytics Dedicated', 'Apache Spark', and 'SQLite'.
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between SqlRender versions 1.15.2 dated 2023-08-10 and 1.16.0 dated 2023-09-20
DESCRIPTION | 10 +++--- MD5 | 22 ++++++------- NEWS.md | 20 ++++++++++++ R/RenderSql.R | 3 + inst/csv/replacementPatterns.csv | 16 +++++++--- inst/doc/UsingSqlRender.pdf |binary tests/testthat/test-replacement-patterns-file-format.R | 4 +- tests/testthat/test-translate-bigquery.R | 7 +++- tests/testthat/test-translate-postgresql.R | 10 ++++++ tests/testthat/test-translate-snowflake.R | 27 +++++++++++++++-- tests/testthat/test-translate-sqlite.R | 10 ++++++ tests/testthat/test-translate-synapse.R | 5 +++ 12 files changed, 109 insertions(+), 25 deletions(-)
Title: Robust Bayesian T-Test
Description: An implementation of Bayesian model-averaged t-test that allows
users to draw inference about the presence vs absence of the effect,
heterogeneity of variances, and outliers. The 'RoBTT' packages estimates model
ensembles of models created as a combination of the competing hypotheses and uses
Bayesian model-averaging to combine the models using posterior model probabilities.
Users can obtain the model-averaged posterior distributions and inclusion Bayes
factors which account for the uncertainty in the data generating process
(Maier et al., 2022, <doi:10.31234/osf.io/d5zwc>).
Users can define a wide range of informative priors for all parameters
of interest. The package provides convenient functions for summary, visualizations,
and fit diagnostics.
Author: Frantisek Bartos [aut, cre] ,
Maximilian Maier [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between RoBTT versions 1.2.0 dated 2023-06-26 and 1.2.1 dated 2023-09-20
DESCRIPTION | 10 ++-- MD5 | 50 ++++++++++---------- NEWS.md | 3 + R/main.R | 5 +- R/plot.R | 3 - R/summary.R | 4 - R/utilities.R | 1 build/partial.rdb |binary inst/doc/Introduction_to_RoBTT.html | 4 - inst/stan/beta.stan | 8 +-- inst/stan/gamma.stan | 8 +-- inst/stan/include/common_functions.stan | 6 +- inst/stan/lognormal.stan | 8 +-- inst/stan/normal.stan | 8 +-- inst/stan/t.stan | 24 ++++----- man/RoBTT.Rd | 2 man/check_RoBTT.Rd | 40 ++++++++-------- man/plot.RoBTT.Rd | 2 man/prior_none.Rd | 80 ++++++++++++++++---------------- man/rho2logsdr.Rd | 40 ++++++++-------- man/summary.RoBTT.Rd | 3 - src/stanExports_beta.h | 22 ++++---- src/stanExports_gamma.h | 22 ++++---- src/stanExports_lognormal.h | 22 ++++---- src/stanExports_normal.h | 22 ++++---- src/stanExports_t.h | 48 +++++++++---------- 26 files changed, 228 insertions(+), 217 deletions(-)
Title: Fractional Factorial Designs with 2-Level Factors
Description: Regular and non-regular Fractional Factorial 2-level designs
can be created. Furthermore, analysis tools for Fractional
Factorial designs with 2-level factors are offered (main
effects and interaction plots for all factors simultaneously,
cube plot for looking at the simultaneous effects of three
factors, full or half normal plot, alias structure in a more
readable format than with the built-in function alias).
Author: Ulrike Groemping
Maintainer: Ulrike Groemping <ulrike.groemping@bht-berlin.de>
Diff between FrF2 versions 2.3-2 dated 2023-08-15 and 2.3-3 dated 2023-09-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- build/partial.rdb |binary inst/NEWS | 3 +++ man/FrF2-package.Rd | 12 ++++++++++-- man/aliases.Rd | 12 ++++++++++-- 6 files changed, 32 insertions(+), 13 deletions(-)
Title: Fast Extraction from Raster Datasets using Polygons
Description: Quickly and accurately summarizes raster values over polygonal areas ("zonal statistics").
Author: Daniel Baston [aut, cre],
ISciences, LLC [cph]
Maintainer: Daniel Baston <dbaston@isciences.com>
Diff between exactextractr versions 0.9.1 dated 2022-11-16 and 0.10.0 dated 2023-09-20
exactextractr-0.10.0/exactextractr/DESCRIPTION | 13 exactextractr-0.10.0/exactextractr/MD5 | 64 ++-- exactextractr-0.10.0/exactextractr/NEWS.md | 4 exactextractr-0.10.0/exactextractr/R/exact_extract.R | 8 exactextractr-0.10.0/exactextractr/R/exact_extract_helpers.R | 2 exactextractr-0.10.0/exactextractr/R/exactextractr-package.R |only exactextractr-0.10.0/exactextractr/README.md | 10 exactextractr-0.10.0/exactextractr/configure | 18 - exactextractr-0.10.0/exactextractr/inst/doc/vig1_population.html | 5 exactextractr-0.10.0/exactextractr/man/exact_extract.Rd | 8 exactextractr-0.10.0/exactextractr/man/exactextractr-package.Rd |only exactextractr-0.10.0/exactextractr/src/Makevars.in | 2 exactextractr-0.10.0/exactextractr/src/Makevars.ucrt | 2 exactextractr-0.10.0/exactextractr/src/Makevars.win | 2 exactextractr-0.10.0/exactextractr/src/exact_extract.cpp | 3 exactextractr-0.10.0/exactextractr/src/exactextract/CMakeLists.txt | 79 ++--- exactextractr-0.10.0/exactextractr/src/exactextract/README.md | 36 +- exactextractr-0.10.0/exactextractr/src/exactextract/src/cell.cpp | 10 exactextractr-0.10.0/exactextractr/src/exactextract/src/cell.h | 2 exactextractr-0.10.0/exactextractr/src/exactextract/src/coordinate.h | 6 exactextractr-0.10.0/exactextractr/src/exactextract/src/geos_utils.cpp | 21 + exactextractr-0.10.0/exactextractr/src/exactextract/src/measures.cpp |only exactextractr-0.10.0/exactextractr/src/exactextract/src/measures.h |only exactextractr-0.10.0/exactextractr/src/exactextract/src/processor.h | 16 + exactextractr-0.10.0/exactextractr/src/exactextract/src/raster_cell_intersection.cpp | 137 ++++++---- exactextractr-0.10.0/exactextractr/src/exactextract/src/raster_cell_intersection.h | 17 - exactextractr-0.10.0/exactextractr/src/exactextract/src/raster_stats.h | 21 + exactextractr-0.10.0/exactextractr/src/exactextract/src/traversal_areas.cpp | 2 exactextractr-0.10.0/exactextractr/src/exactextract/src/variance.h | 4 exactextractr-0.10.0/exactextractr/src/exactextract/test/test_raster_cell_intersection.cpp | 74 +++++ exactextractr-0.10.0/exactextractr/src/exactextract/test/test_stats.cpp | 30 ++ exactextractr-0.10.0/exactextractr/tests/testthat/test_exact_extract.R | 14 + exactextractr-0.10.0/exactextractr/tests/testthat/test_helper_blocksize.R | 34 +- exactextractr-0.9.1/exactextractr/R/package.R |only exactextractr-0.9.1/exactextractr/man/exactextractr.Rd |only exactextractr-0.9.1/exactextractr/src/exactextract/src/area.cpp |only exactextractr-0.9.1/exactextractr/src/exactextract/src/area.h |only 37 files changed, 439 insertions(+), 205 deletions(-)
Title: Recurrent Event Regression
Description: A comprehensive collection of practical and easy-to-use tools for regression analysis of recurrent events, with or without the presence of a (possibly) informative terminal event described in Chiou et al. (2023) <doi:10.18637/jss.v105.i05>. The modeling framework is based on a joint frailty scale-change model, that includes models described in Wang et al. (2001) <doi:10.1198/016214501753209031>, Huang and Wang (2004) <doi:10.1198/016214504000001033>, Xu et al. (2017) <doi:10.1080/01621459.2016.1173557>, and Xu et al. (2019) <doi:10.5705/SS.202018.0224> as special cases. The implemented estimating procedure does not require any parametric assumption on the frailty distribution. The package also allows the users to specify different model forms for both the recurrent event process and the terminal event.
Author: Sy Han Chiou [aut, cre],
Chiung-Yu Huang [aut]
Maintainer: Sy Han (Steven) Chiou <schiou@smu.edu>
Diff between reReg versions 1.4.5 dated 2023-01-27 and 1.4.6 dated 2023-09-20
DESCRIPTION | 12 +++++------ MD5 | 12 +++++------ NEWS.md | 6 ++++- R/plot.R | 8 +++---- R/reReg.R | 55 ++++++++++++++++++++++++++++++++++++++++++++++++--- man/reReg-package.Rd | 2 - src/Makevars | 2 - 7 files changed, 75 insertions(+), 22 deletions(-)
Title: Lab for Developing and Testing Recommender Algorithms
Description: Provides a research infrastructure to develop and evaluate
collaborative filtering recommender algorithms. This includes a sparse
representation for user-item matrices, many popular algorithms, top-N recommendations,
and cross-validation. Hahsler (2022) <doi:10.48550/arXiv.2205.12371>.
Author: Michael Hahsler [aut, cre, cph]
,
Bregt Vereet [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between recommenderlab versions 1.0.5 dated 2023-09-16 and 1.0.6 dated 2023-09-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 +++++- R/ratingMatrix.R | 4 ++-- R/realRatingMatrix.R | 2 +- inst/doc/recommenderlab.pdf |binary 6 files changed, 17 insertions(+), 13 deletions(-)
More information about recommenderlab at CRAN
Permanent link
Title: Mixture Models: Parametric, Semiparametric, and Robust
Description: Various functions are provided to estimate parametric mixture models
(with Gaussian, t, Laplace, log-concave distributions, etc.) and
non-parametric mixture models. The package performs hypothesis tests
and addresses label switching issues in mixture models.
The package also allows for parameter estimation in mixture of regressions,
proportion-varying mixture of regressions, and robust mixture of regressions.
Author: Suyeon Kang [aut, cre] ,
Xin Shen [aut] ,
Weixin Yao [aut] ,
Sijia Xiang [aut],
Yan Ge [aut, trl]
Maintainer: Suyeon Kang <suyeon.kang@ufl.edu>
Diff between MixSemiRob versions 1.0.0 dated 2023-04-28 and 1.1.0 dated 2023-09-20
MixSemiRob-1.0.0/MixSemiRob/LICENSE |only MixSemiRob-1.0.0/MixSemiRob/R/CWRM.R |only MixSemiRob-1.0.0/MixSemiRob/R/EMlogconcave.R |only MixSemiRob-1.0.0/MixSemiRob/R/Hypothesis_test.R |only MixSemiRob-1.0.0/MixSemiRob/R/SIM.R |only MixSemiRob-1.0.0/MixSemiRob/R/data_description.R |only MixSemiRob-1.0.0/MixSemiRob/R/description.R |only MixSemiRob-1.0.0/MixSemiRob/R/freq.R |only MixSemiRob-1.0.0/MixSemiRob/R/mixbino.R |only MixSemiRob-1.0.0/MixSemiRob/R/mixreg_laplace.R |only MixSemiRob-1.0.0/MixSemiRob/R/mixregression.R |only MixSemiRob-1.0.0/MixSemiRob/R/paretomix.R |only MixSemiRob-1.0.0/MixSemiRob/R/pfmix.R |only MixSemiRob-1.0.0/MixSemiRob/R/root_selection.R |only MixSemiRob-1.0.0/MixSemiRob/R/smnr.R |only MixSemiRob-1.0.0/MixSemiRob/man/EMlogconc.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/EMlogconcHD.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/Hypothesis_test.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/KDEEM.H.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/KDEEM.LSE.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/KDEEM.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/MixReg_Pvary.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/RM2_mixreg.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/backfitglobal.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/backfitlocal.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/complhfrequency.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/distlatfrequency.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/fcdf.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/gen_mixreg.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/gen_mixreg1.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixbino.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixbinosemi.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixbinosemifull.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixbinosemionestep.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixbspline.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixlin.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixlinrb_bi.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixlinrb_bione.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixlint.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixlintv.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixmnorm.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixonekn.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixreg_CWRM.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixreg_Lap.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mixscale.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/mphd.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/paretomix1.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/pfmix.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/root_selection.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/sim.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/simonestep.Rd |only MixSemiRob-1.0.0/MixSemiRob/man/trimmix.Rd |only MixSemiRob-1.1.0/MixSemiRob/DESCRIPTION | 74 MixSemiRob-1.1.0/MixSemiRob/MD5 | 130 MixSemiRob-1.1.0/MixSemiRob/NAMESPACE | 84 MixSemiRob-1.1.0/MixSemiRob/NEWS.md | 13 MixSemiRob-1.1.0/MixSemiRob/R/EMlogconc.R |only MixSemiRob-1.1.0/MixSemiRob/R/KDEEM.R | 698 ++--- MixSemiRob-1.1.0/MixSemiRob/R/data.R |only MixSemiRob-1.1.0/MixSemiRob/R/gofTest.R |only MixSemiRob-1.1.0/MixSemiRob/R/labelFrequency.R |only MixSemiRob-1.1.0/MixSemiRob/R/mixpflik.R |only MixSemiRob-1.1.0/MixSemiRob/R/mixreg.R |only MixSemiRob-1.1.0/MixSemiRob/R/mixregLaplace.R |only MixSemiRob-1.1.0/MixSemiRob/R/mixscale.R | 687 ++--- MixSemiRob-1.1.0/MixSemiRob/R/mphd.R | 2469 +++++++++--------- MixSemiRob-1.1.0/MixSemiRob/R/semiregBinom.R |only MixSemiRob-1.1.0/MixSemiRob/R/semiregGLEM.R |only MixSemiRob-1.1.0/MixSemiRob/R/semiregSingleIndex.R |only MixSemiRob-1.1.0/MixSemiRob/R/varyprop.R | 805 +++-- MixSemiRob-1.1.0/MixSemiRob/data/AFDP.rda |binary MixSemiRob-1.1.0/MixSemiRob/data/NBA.rda |binary MixSemiRob-1.1.0/MixSemiRob/data/ROE.rda |binary MixSemiRob-1.1.0/MixSemiRob/data/elbow.rda |binary MixSemiRob-1.1.0/MixSemiRob/data/ethanol.rda |only MixSemiRob-1.1.0/MixSemiRob/data/tone.rda |only MixSemiRob-1.1.0/MixSemiRob/man/AFDP.Rd | 29 MixSemiRob-1.1.0/MixSemiRob/man/EMnormal.Rd | 74 MixSemiRob-1.1.0/MixSemiRob/man/NBA.Rd | 47 MixSemiRob-1.1.0/MixSemiRob/man/ROE.Rd | 36 MixSemiRob-1.1.0/MixSemiRob/man/complh.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/distlat.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/elbow.Rd | 29 MixSemiRob-1.1.0/MixSemiRob/man/ethanol.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/kdeem.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/kdeem.h.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/kdeem.lse.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixLogconc.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixLogconcHD.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixMPHD.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixOnekn.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixScale.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixTest.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixnorm.Rd | 72 MixSemiRob-1.1.0/MixSemiRob/man/mixpf.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixreg.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregBisq.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregLap.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregPvary.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregPvaryGen.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregRM2.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregT.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/mixregTrim.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrBin.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrBinFull.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrBinOne.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrFull.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrGen.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrGlobal.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrLocal.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/semimrOne.Rd |only MixSemiRob-1.1.0/MixSemiRob/man/sinvreg.Rd | 32 MixSemiRob-1.1.0/MixSemiRob/man/tone.Rd |only 113 files changed, 2814 insertions(+), 2465 deletions(-)
Title: Irucka Embry's Miscellaneous USGS Functions
Description: A collection of Irucka Embry's miscellaneous USGS functions
(processing .exp and .psf files, statistical error functions,
"+" dyadic operator for use with NA, creating ADAPS and QW
spreadsheet files, calculating saturated enthalpy). Irucka created these
functions while a Cherokee Nation Technology Solutions (CNTS) United States
Geological Survey (USGS) Contractor and/or USGS employee.
Author: Irucka Embry [aut, cre], Anne Hoos [ctb], and Timothy H. Diehl [ctb]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between ie2misc versions 0.9.0 dated 2022-11-24 and 0.9.1 dated 2023-09-20
ie2misc-0.9.0/ie2misc/R/ie2misc.R |only ie2misc-0.9.1/ie2misc/DESCRIPTION | 10 ++++----- ie2misc-0.9.1/ie2misc/MD5 | 32 +++++++++++++++--------------- ie2misc-0.9.1/ie2misc/NEWS.md | 9 +++++++- ie2misc-0.9.1/ie2misc/R/dr.R | 2 - ie2misc-0.9.1/ie2misc/R/ie2misc-package.R |only ie2misc-0.9.1/ie2misc/R/madstat.R | 2 - ie2misc-0.9.1/ie2misc/R/mae.R | 2 - ie2misc-0.9.1/ie2misc/R/rmse.R | 2 - ie2misc-0.9.1/ie2misc/R/vnse.R | 2 - ie2misc-0.9.1/ie2misc/README.md | 30 +++++++++++++++++++++++----- ie2misc-0.9.1/ie2misc/inst/WORDLIST |only ie2misc-0.9.1/ie2misc/man/dr.Rd | 2 - ie2misc-0.9.1/ie2misc/man/ie2misc.Rd | 12 ++++++++++- ie2misc-0.9.1/ie2misc/man/madstat.Rd | 2 - ie2misc-0.9.1/ie2misc/man/mae.Rd | 2 - ie2misc-0.9.1/ie2misc/man/rmse.Rd | 2 - ie2misc-0.9.1/ie2misc/man/vnse.Rd | 2 - ie2misc-0.9.1/ie2misc/tests |only 19 files changed, 76 insertions(+), 37 deletions(-)
Title: High Mach Finds Routes for Supersonic Aircraft
Description: For supersonic aircraft, flying subsonic over land,
find the best route between airports. Allow for coastal buffer and
potentially closed regions. Use a minimal model of aircraft
performance: the focus is on time saved versus subsonic flight, rather
than on vertical flight profile. For modelling and forecasting, not for planning your
flight!
Author: David Marsh [aut, cre],
Enrico Spinielli [ctb],
EUROCONTROL [fnd, cph]
Maintainer: David Marsh <david6marsh@gmail.com>
Diff between himach versions 0.3.1 dated 2022-12-05 and 0.3.2 dated 2023-09-20
himach-0.3.1/himach/R/himach.R |only himach-0.3.1/himach/man/himach.Rd |only himach-0.3.2/himach/DESCRIPTION | 16 himach-0.3.2/himach/MD5 | 36 himach-0.3.2/himach/NAMESPACE | 1 himach-0.3.2/himach/NEWS.md | 5 himach-0.3.2/himach/R/himach-package.R |only himach-0.3.2/himach/R/maps.R | 1 himach-0.3.2/himach/R/utils.R | 2 himach-0.3.2/himach/README.md | 26 himach-0.3.2/himach/build/vignette.rds |binary himach-0.3.2/himach/inst/doc/Supersonic_Routes.Rmd | 2 himach-0.3.2/himach/inst/doc/Supersonic_Routes.html | 396 +++---- himach-0.3.2/himach/inst/doc/Supersonic_Routes_in_depth.R | 115 ++ himach-0.3.2/himach/inst/doc/Supersonic_Routes_in_depth.Rmd | 149 ++ himach-0.3.2/himach/inst/doc/Supersonic_Routes_in_depth.html | 573 +++++++---- himach-0.3.2/himach/man/himach-package.Rd |only himach-0.3.2/himach/tests/testthat/_snaps/utils.md | 25 himach-0.3.2/himach/tests/testthat/test_routes.R | 4 himach-0.3.2/himach/vignettes/Supersonic_Routes.Rmd | 2 himach-0.3.2/himach/vignettes/Supersonic_Routes_in_depth.Rmd | 149 ++ 21 files changed, 1044 insertions(+), 458 deletions(-)
Title: A Suite of High-Performance Packages for Statistics and Data
Manipulation
Description: Easy installation, loading and management, of high-performance packages
for statistical computing and data manipulation in R.
The core 'fastverse' consists of 4 packages: 'data.table', 'collapse',
'kit' and 'magrittr', that jointly only depend on 'Rcpp'.
The 'fastverse' can be freely and permanently extended with
additional packages, both globally or for individual projects.
Separate package verses can also be created. Fast packages
for many common tasks such as time series, dates and times, strings,
spatial data, statistics, data serialization, larger-than-memory
processing, and compilation of R code are listed in the README file:
<https://github.com/fastverse/fastverse#suggested-extensions>.
Author: Sebastian Krantz [aut, cre],
Hadley Wickham [ctb]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between fastverse versions 0.3.1 dated 2023-01-29 and 0.3.2 dated 2023-09-20
fastverse-0.3.1/fastverse/man/fastverse.Rd |only fastverse-0.3.2/fastverse/DESCRIPTION | 15 fastverse-0.3.2/fastverse/MD5 | 16 fastverse-0.3.2/fastverse/NEWS.md | 6 fastverse-0.3.2/fastverse/R/fastverse.R | 3 fastverse-0.3.2/fastverse/R/update.R | 5 fastverse-0.3.2/fastverse/README.md | 20 fastverse-0.3.2/fastverse/build/vignette.rds |binary fastverse-0.3.2/fastverse/inst/doc/fastverse_intro.html | 521 +++++++--------- fastverse-0.3.2/fastverse/man/fastverse-package.Rd |only 10 files changed, 297 insertions(+), 289 deletions(-)
Title: Doubly Robust Inference for Cox Marginal Structural Model with
Informative Censoring
Description: Doubly robust estimation and inference of log hazard ratio under the Cox marginal structural model with informative censoring. An augmented inverse probability weighted estimator that involves 3 working models, one for conditional failure time T, one for conditional censoring time C and one for propensity score. Both models for T and C can depend on both a binary treatment A and additional baseline covariates Z, while the propensity score model only depends on Z. With the help of cross-fitting techniques, achieves the rate-doubly robust property that allows the use of most machine learning or non-parametric methods for all 3 working models, which are not permitted in classic inverse probability weighting or doubly robust estimators. When the proportional hazard assumption is violated, CoxAIPW estimates a causal estimated that is a weighted average of the time-varying log hazard ratio. Reference: Luo, J. (2023). Statistical Robustness - Distributed Linear Regression, Informative Censori [...truncated...]
Author: Jiyu Luo [cre, aut],
Dennis Rava [aut],
Ronghui Xu [aut]
Maintainer: Jiyu Luo <charlesluo1002@gmail.com>
Diff between CoxAIPW versions 0.0.2 dated 2023-05-31 and 0.0.3 dated 2023-09-20
DESCRIPTION | 8 MD5 | 8 NEWS.md | 13 R/CoxAIPW.R | 1197 ++++++++++++++++++++++++++++++++++++++------------------- man/CoxAIPW.Rd | 23 - 5 files changed, 851 insertions(+), 398 deletions(-)
Title: Calibration Performance
Description: Plots calibration curves and computes statistics for assessing calibration performance. See De Cock Campo (2023) <arXiv:2309.08559> and Van Calster et al. (2016) <doi:10.1016/j.jclinepi.2015.12.005>.
Author: De Cock Bavo [aut, cre],
Nieboer Daan [aut],
Van Calster Ben [aut],
Steyerberg Ewout [aut],
Vergouwe Yvonne [aut]
Maintainer: De Cock Bavo <bavo.decock@kuleuven.be>
Diff between CalibrationCurves versions 1.0.0 dated 2023-01-19 and 2.0.0 dated 2023-09-20
DESCRIPTION | 20 +- MD5 | 46 ++++- NAMESPACE | 6 R/genCalCurve.R |only R/printFunction.R | 35 ++++ R/rcspline.plot.noprint.R | 2 R/val.prob.ci.2.R | 252 ++++++++++++++----------------- R/valProbggplot.R | 118 +++++++++++--- README.md | 31 ++- build |only data |only inst/CITATION | 48 +++-- inst/doc |only inst/figures |only man/CalibrationCurves.Rd | 34 +++- man/dot-rcspline.plot.Rd | 2 man/genCalCurve.Rd |only man/poissontraindata.Rd |only man/print.GeneralizedCalibrationCurve.Rd |only man/traindata.Rd |only man/val.prob.ci.2.Rd | 12 + man/valProbggplot.Rd | 14 + vignettes |only 23 files changed, 404 insertions(+), 216 deletions(-)
More information about CalibrationCurves at CRAN
Permanent link
Title: An R Package for Extended Behavior Genetics Analysis
Description: The BGmisc R package offers a comprehensive suite of functions tailored for extended behavior genetics analysis, including model identification, calculating relatedness, pedigree conversion, pedigree simulation, and more.
Author: S. Mason Garrison [aut, cre] ,
Michael D. Hunter [aut] ,
Xuanyu Lyu [aut] ,
Jonathan D. Trattner [aut] ,
S. Alexandra Burt [aut]
Maintainer: S. Mason Garrison <garrissm@wfu.edu>
Diff between BGmisc versions 0.1 dated 2020-12-04 and 1.0 dated 2023-09-20
DESCRIPTION | 42 +++-- MD5 | 92 +++++++++--- NAMESPACE | 33 +++- NEWS.md | 12 + R/BGmisc-package.R | 28 ++- R/convertPedigree.R |only R/dataDoc.R |only R/evenInsert.R |only R/famSizeCal.R |only R/family.R |only R/formula.R | 152 ++++++++++++--------- R/helper.R | 197 ++++++++++++++++++--------- R/identification.R | 302 +++++++++++++++++++++--------------------- R/plotPedigree.R |only R/simulatePedigree.R |only README.md | 45 +++++- build |only data |only inst/WORDLIST | 18 +- inst/doc |only man/BGmisc_package.Rd | 33 ++-- man/Null.Rd | 42 ++--- man/SimPed.Rd |only man/allGens.Rd |only man/calculateRelatedness.Rd |only man/comp2vech.Rd | 54 ++++--- man/efunc.Rd | 36 ++--- man/evenInsert.Rd |only man/famSizeCal.Rd |only man/fitComponentModel.Rd | 81 +++++------ man/hazard.Rd |only man/identifyComponentModel.Rd | 65 ++++----- man/inbreeding.Rd |only man/inferRelatedness.Rd |only man/nullToNA.Rd | 36 ++--- man/ped2add.Rd |only man/ped2ce.Rd |only man/ped2cn.Rd |only man/ped2com.Rd |only man/ped2fam.Rd |only man/ped2graph.Rd |only man/ped2mit.Rd |only man/plotPedigree.Rd |only man/related_coef.Rd | 68 ++++----- man/relatedness.Rd | 65 ++++----- man/rmvn.Rd | 40 ++--- man/simulatePedigree.Rd |only man/sizeAllGens.Rd |only man/try_na.Rd | 36 ++--- man/vech.Rd | 52 +++---- tests |only vignettes |only 52 files changed, 887 insertions(+), 642 deletions(-)
Title: Aggregation Trees
Description: Nonparametric data-driven approach to discovering heterogeneous subgroups in a selection-on-observables framework.
aggTrees allows researchers to assess whether there exists relevant heterogeneity in treatment effects by generating a sequence of optimal groupings,
one for each level of granularity. For each grouping, we obtain point estimation and inference about the Group Average Treatment Effects.
Please reference the use as Di Francesco (2022) <doi:10.2139/ssrn.4304256>.
Author: Riccardo Di Francesco [aut, cre, cph]
Maintainer: Riccardo Di Francesco <difrancesco.riccardo96@gmail.com>
Diff between aggTrees versions 2.0.1 dated 2023-08-08 and 2.0.2 dated 2023-09-20
DESCRIPTION | 18 +++++++++--------- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/utils.R | 5 +++-- inst/doc/aggTrees-vignette.Rmd | 1 - inst/doc/aggTrees-vignette.html | 3 --- vignettes/aggTrees-vignette.Rmd | 1 - 7 files changed, 22 insertions(+), 22 deletions(-)
Title: Vedic Calendar System
Description: Provides platform for Vedic calendar system having several
functionalities to facilitate conversion between Gregorian and Vedic
calendar systems, and helpful in examining its impact in the
time series analysis domain.
Author: Neeraj Dhanraj Bokde [aut, cre, cph],
Prajwal Kailasnath Patil [aut],
Saradindu Sengupta [aut],
Andres Elias Feijoo Lorenzo [aut]
Maintainer: Neeraj Dhanraj Bokde <neerajdhanraj@gmail.com>
Diff between VedicDateTime versions 0.1.7 dated 2023-07-18 and 0.1.9 dated 2023-09-20
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- NEWS.md | 8 ++++++++ inst/CITATION |only inst/doc/VedicDateTime.pdf |binary 5 files changed, 16 insertions(+), 7 deletions(-)
Title: Collection of Tools for PD Rating Model Development and
Validation
Description: The goal of this package is to cover the most common steps in probability of default (PD) rating model development and validation.
The main procedures available are those that refer to univariate, bivariate, multivariate analysis, calibration and validation.
Along with accompanied 'monobin' and 'monobinShiny' packages, 'PDtoolkit' provides functions which are suitable for different
data transformation and modeling tasks such as:
imputations, monotonic binning of numeric risk factors, binning of categorical risk factors, weights of evidence (WoE) and
information value (IV) calculations, WoE coding (replacement of risk factors modalities with WoE values), risk factor clustering,
area under curve (AUC) calculation and others. Additionally, package provides set of validation functions for testing homogeneity,
heterogeneity, discriminatory and predictive power of the model.
Author: Andrija Djurovic [aut, cre]
Maintainer: Andrija Djurovic <djandrija@gmail.com>
Diff between PDtoolkit versions 1.1.1 dated 2023-08-16 and 1.2.0 dated 2023-09-20
DESCRIPTION | 6 MD5 | 24 - NEWS.md | 5 R/05_STEP_MIV.R | 3 R/12_PREDICTIVE_POWER.R | 11 R/13_POWER_OF_PP_TESTS.R | 13 R/16_PARTITIONS.R | 3 README.md | 877 +++++++++++++++++++++++++++-------------------- build/partial.rdb |binary man/create.partitions.Rd | 3 man/power.Rd | 10 man/pp.testing.Rd | 9 man/stepMIV.Rd | 3 13 files changed, 563 insertions(+), 404 deletions(-)
Title: Supporting Functions for Packages Maintained by 'YuLab-SMU'
Description: Miscellaneous functions commonly used by 'YuLab-SMU'.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between yulab.utils versions 0.0.9 dated 2023-09-01 and 0.1.0 dated 2023-09-20
DESCRIPTION | 9 +-- MD5 | 15 +++-- NAMESPACE | 11 ++++ NEWS.md | 7 ++ R/file.R | 2 R/install_zip.R | 35 ++++++++++--- R/pkg-utils.R | 123 ++++++++++++++++++++++++++++++++++++++++++++++++ man/get_dependencies.Rd |only man/packageTitle.Rd |only man/pload.Rd |only 10 files changed, 182 insertions(+), 20 deletions(-)
Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models,
make surface plots, obtain the path of steepest ascent,
and do canonical analysis. A good reference on these methods
is Chapter 10 of Wu, C-F J and Hamada, M (2009)
"Experiments: Planning, Analysis, and Parameter Design Optimization"
ISBN 978-0-471-69946-0. An early version of the package is
documented in Journal of Statistical Software <doi:10.18637/jss.v032.i07>.
Author: Russell Lenth [aut, cre]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between rsm versions 2.10.3 dated 2021-10-06 and 2.10.4 dated 2023-09-20
rsm-2.10.3/rsm/R/old-ccd-bbd.R |only rsm-2.10.4/rsm/DESCRIPTION | 8 ++++---- rsm-2.10.4/rsm/MD5 | 23 +++++++++++------------ rsm-2.10.4/rsm/NAMESPACE | 8 +++++--- rsm-2.10.4/rsm/R/emmeans-support.R | 2 +- rsm-2.10.4/rsm/build/partial.rdb |binary rsm-2.10.4/rsm/build/vignette.rds |binary rsm-2.10.4/rsm/inst/CITATION | 15 +++++++-------- rsm-2.10.4/rsm/inst/NEWS | 4 ++++ rsm-2.10.4/rsm/inst/doc/rs-illus.pdf |binary rsm-2.10.4/rsm/inst/doc/rsm-plots.pdf |binary rsm-2.10.4/rsm/inst/doc/rsm.pdf |binary rsm-2.10.4/rsm/man/rsm.Rd | 4 ++-- 13 files changed, 34 insertions(+), 30 deletions(-)
Title: Tools to Calibrate and Work with NEON Atmospheric Isotope Data
Description: Functions for downloading,
calibrating, and analyzing atmospheric isotope data bundled
into the eddy covariance data products of the National Ecological
Observatory Network (NEON) <https://www.neonscience.org>.
Calibration tools are provided for carbon and water isotope products.
Carbon isotope calibration details are found in Fiorella et al. (2021)
<doi:10.1029/2020JG005862>, and the readme
file at <https://github.com/lanl/NEONiso>. Tools for calibrating water
isotope products have been added as of 0.6.0, but have known deficiencies
and should be considered very experimental currently.
Author: Rich Fiorella [aut, cre]
Maintainer: Rich Fiorella <rfiorella@lanl.gov>
Diff between NEONiso versions 0.6.3 dated 2023-08-23 and 0.6.4 dated 2023-09-20
DESCRIPTION | 6 MD5 | 44 ++--- NEWS.md | 8 - R/calibrate_ambient_carbon_linreg.R | 226 ++++++++++++++--------------- R/calibrate_carbon.R | 20 +- R/isotope_conversions.R | 4 R/output_functions.R | 2 R/reference_data_regression.R | 19 +- R/restructure_data.R | 6 R/standard_corrections.R | 4 R/utility_functions.R | 10 - inst/doc/example_workflow.R | 2 inst/doc/example_workflow.Rmd | 2 inst/doc/example_workflow.html | 72 ++++----- man/calibrate_carbon.Rd | 5 man/fit_carbon_regression.Rd | 6 tests/testthat/test-data_extraction.R | 6 tests/testthat/test-data_ingestion.R | 4 tests/testthat/test-data_regression.R | 18 +- tests/testthat/test-high_level_functions.R | 10 - tests/testthat/test-output_values.R | 18 +- tests/testthat/test-standard_corrections.R | 4 vignettes/example_workflow.Rmd | 2 23 files changed, 260 insertions(+), 238 deletions(-)
Title: Univariate GARCH Models
Description: ARFIMA, in-mean, external regressors and various GARCH flavors, with methods for fit, forecast, simulation, inference and plotting.
Author: Alexios Galanos [aut, cre],
Tobias Kley [ctb]
Maintainer: Alexios Galanos <alexios@4dscape.com>
Diff between rugarch versions 1.4-9 dated 2022-10-26 and 1.5-1 dated 2023-09-19
ChangeLog | 6 DESCRIPTION | 10 - MD5 | 16 +- NAMESPACE | 1 R/rugarch-solvers.R | 144 +++++++++++------------ R/rugarch-tests.R | 2 inst/CITATION | 6 inst/doc/Introduction_to_the_rugarch_package.pdf |binary src/distributions.c | 56 ++++---- 9 files changed, 124 insertions(+), 117 deletions(-)
Title: Repeated Measures with Attrition: Sample Sizes and Power Levels
for 2 Groups
Description: For the calculation of sample size or power in a two-group repeated measures design, accounting for attrition and accommodating a variety of correlation structures for the repeated measures; details of the method can be found in the scientific paper: Donald Hedeker, Robert D. Gibbons, Christine Waternaux (1999) <doi:10.3102/10769986024001070>.
Author: Yiheng Wei [aut] ,
Soumya Sahu [aut, cre],
Donald Hedeker [aut]
Maintainer: Soumya Sahu <ssahu6@uic.edu>
Diff between rmass2 versions 0.0.0.1 dated 2023-08-21 and 0.0.0.2 dated 2023-09-19
DESCRIPTION | 9 +++-- MD5 | 15 ++++++--- NEWS.md | 6 +++ R/functions.R | 55 ++++++++++++++++++++++++--------- R/rmass2.R | 95 +++++++++++++++++++++++++++++++++++----------------------- build |only inst |only man/rmass2.Rd | 40 ++++++++++++++++++------ vignettes |only 9 files changed, 149 insertions(+), 71 deletions(-)
Title: Possible Adverse Events/Reactions from the
Vaccinations/Experimental Gene Therapies
Description: Provides data about the possible adverse events/reactions
resulting from being injected with a vaccine/experimental gene therapy.
Currently, this data set only includes information from six reference
sources. Refer to the CITATION.cff file for the complete citations of
the reference sources. For information about vaccination$/immunization$
hazards, visit <https://www.questionuniverse.com/rethink.html#vaccine>,
<https://www.ecoccs.com/healing.html#vaccines>,
<https://www.questionuniverse.com/rethink_current_crisis.html#cov_vaccin>,
and <https://www.questionuniverse.com/vaccination.html>.
Author: Irucka Embry [aut, cre]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between jab.adverse.reactions versions 1.0.1 dated 2022-01-13 and 1.0.3 dated 2023-09-19
jab.adverse.reactions-1.0.1/jab.adverse.reactions/LICENSE |only jab.adverse.reactions-1.0.1/jab.adverse.reactions/man/jab.adverse.reactions.Rd |only jab.adverse.reactions-1.0.3/jab.adverse.reactions/DESCRIPTION | 10 +-- jab.adverse.reactions-1.0.3/jab.adverse.reactions/MD5 | 11 +-- jab.adverse.reactions-1.0.3/jab.adverse.reactions/NEWS.md | 13 +++- jab.adverse.reactions-1.0.3/jab.adverse.reactions/R/jab.adverse.reactions.R | 7 +- jab.adverse.reactions-1.0.3/jab.adverse.reactions/README.md | 31 ++++++---- jab.adverse.reactions-1.0.3/jab.adverse.reactions/man/jab.adverse.reactions-package.Rd |only 8 files changed, 46 insertions(+), 26 deletions(-)
More information about jab.adverse.reactions at CRAN
Permanent link
Title: Combine Categories Using Greenacre's Method
Description: Implements a method of iteratively collapsing the rows of a
contingency table, two at a time, by selecting the pair of categories whose
combination yields a new table with the smallest loss of chi-squared, as
described by Greenacre, M.J. (1988) <doi:10.1007/BF01901670>. The result is
compatible with the class of object returned by the 'stats' package's
hclust() function and can be used similarly (plotted as a dendrogram,
cut, etc.). Additional functions are provided for automatic cutting and
diagnostic plotting.
Author: Jeff Jetton [aut, cre]
Maintainer: Jeff Jetton <jeff.jetton@gmail.com>
Diff between greenclust versions 1.1.0 dated 2020-01-10 and 1.1.1 dated 2023-09-19
DESCRIPTION | 9 +++---- LICENSE | 2 - MD5 | 29 ++++++++++++------------- NEWS.md | 6 +++++ R/greenclust.R | 7 +++++- R/greencut.R | 2 - R/greenplot.R | 2 - README.md | 21 ++++++++++-------- build |only man/figures/README-example_clusterplot_1-1.png |binary man/figures/README-example_greenplot-1.png |binary man/greenclust.Rd | 2 - man/greencut.Rd | 2 - man/greenplot.Rd | 2 - tests/testthat/Rplots.pdf |binary tests/testthat/test-greenclust-main.R | 9 ++++++- 16 files changed, 57 insertions(+), 36 deletions(-)
Title: String Interpolation for Documents, Reports and Apps
Description: Extra strength 'glue' for data-driven templates. String
interpolation for 'Shiny' apps or 'R Markdown' and 'knitr'-powered
'Quarto' documents, built on the 'glue' and 'whisker' packages.
Author: Garrick Aden-Buie [aut, cre] ,
Kushagra Gour [ctb] ,
The mustache.js community [ctb]
Maintainer: Garrick Aden-Buie <garrick@adenbuie.com>
Diff between epoxy versions 0.1.1 dated 2023-06-11 and 1.0.0 dated 2023-09-19
DESCRIPTION | 14 - MD5 | 112 ++++++---- NAMESPACE | 3 NEWS.md | 84 +++++++ R/engines.R | 137 +++++++++--- R/epoxy.R | 56 ++++- R/epoxy_mustache.R |only R/epoxy_transform_html.R | 5 R/epoxy_transform_inline.R | 107 ++++++---- R/epoxy_use.R |only R/shiny.R | 128 ++++++++---- R/transformers.R | 6 R/utils-knitr.R |only R/utils.R | 5 README.md | 4 build/vignette.rds |binary inst/doc/epoxy-report.R | 2 inst/doc/epoxy-report.Rmd | 71 +++--- inst/doc/epoxy-report.html | 70 +++--- inst/doc/epoxy-script.R | 2 inst/doc/epoxy-shiny.R | 2 inst/doc/inline-reporting.R | 2 inst/doc/inline-reporting.Rmd | 72 +++--- inst/doc/inline-reporting.html | 48 ++-- inst/examples/ui_epoxy_html/app.R | 2 inst/examples/ui_epoxy_mustache/app.R | 6 inst/srcjs/output-epoxy-mustache.js | 139 ++++++++----- inst/srcjs/output-epoxy.js | 222 ++++++++++++++------- man/epoxy.Rd | 83 ++++--- man/epoxy_mustache.Rd |only man/epoxy_transform.Rd | 4 man/epoxy_transform_inline.Rd | 53 ++--- man/epoxy_use.Rd |only man/examples/epoxy.R | 63 ++--- man/examples/epoxy_mustache.R |only man/examples/epoxy_transform.R | 4 man/figures/logo.png |binary man/fragments/setup.Rmd | 2 man/ui_epoxy_html.Rd | 36 ++- man/ui_epoxy_markdown.Rd | 36 ++- man/ui_epoxy_mustache.Rd | 26 ++ man/use_epoxy_knitr_engines.Rd | 13 + tests/testthat/_snaps/transformers.md | 2 tests/testthat/apps |only tests/testthat/helpers.R | 29 ++ tests/testthat/rmds |only tests/testthat/test-engines.R | 60 ++++- tests/testthat/test-epoxy.R | 196 ++++++++++++++++++ tests/testthat/test-epoxy_mustache.R |only tests/testthat/test-epoxy_transform_html.R | 16 + tests/testthat/test-epoxy_transform_inline.R | 34 ++- tests/testthat/test-epoxy_use.R |only tests/testthat/test-shiny.R | 37 ++- tests/testthat/test-shiny_ui_epoxy_html-list.R |only tests/testthat/test-shiny_ui_epoxy_html-no-shiny.R |only tests/testthat/test-shiny_ui_epoxy_mustache.R | 2 tests/testthat/test-utils-knitr.R |only vignettes/epoxy-report.Rmd | 71 +++--- vignettes/inline-reporting.Rmd | 72 +++--- 59 files changed, 1466 insertions(+), 672 deletions(-)
Title: Bayesian Inference on Univariate Normal Mixtures
Description: A program for Bayesian analysis of univariate normal mixtures with an unknown number
of components, following the approach of Richardson and Green (1997) <doi:10.1111/1467-9868.00095>.
This makes use of reversible jump Markov chain Monte Carlo methods that are capable of jumping
between the parameter sub-spaces corresponding to different numbers of components in the mixture.
A sample from the full joint distribution of all unknown variables is thereby generated,
and this can be used as a basis for a thorough presentation of many aspects of the posterior
distribution.
Author: Peter Green [aut, cre]
Maintainer: Peter Green <P.J.Green@bristol.ac.uk>
Diff between Nmix versions 2.0.4 dated 2023-07-19 and 2.0.5 dated 2023-09-19
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/Nmix.R | 7 +++++-- R/plot.nmix.R | 11 +++++++++-- build/partial.rdb |binary man/Nmix.Rd | 1 + src/Nmix-sub3z.f | 41 +++++++++++++++++++++++++++-------------- src/Nmix_init.c | 4 ++-- 8 files changed, 55 insertions(+), 31 deletions(-)
Title: Parameter Estimation of Item Response Theory with Estimation of
Latent Distribution
Description: Item response theory (IRT) parameter estimation using marginal maximum likelihood and expectation-maximization algorithm
(Bock & Aitkin, 1981 <doi:10.1007/BF02293801>).
Within parameter estimation algorithm, several methods for latent distribution estimation are available
(Li, 2022 <http://www.riss.kr/link?id=T16374105>).
Reflecting some features of the true latent distribution, these latent distribution estimation methods can possibly enhance the estimation accuracy and free the normality assumption on the latent distribution.
Author: Seewoo Li [aut, cre, cph]
Maintainer: Seewoo Li <cu@yonsei.ac.kr>
Diff between IRTest versions 1.7.0 dated 2023-08-17 and 1.11.0 dated 2023-09-19
DESCRIPTION | 8 MD5 | 87 +- NAMESPACE | 6 NEWS.md | 40 R/DataGeneration.R | 32 R/IRTest_Dich.R | 73 - R/IRTest_Mix.R | 109 +- R/IRTest_Poly.R | 95 +- R/category_collapsing.R |only R/dist2.R | 6 R/information.R |only R/item_fit.R | 26 R/latent_distribution.R |only R/non_exporting_functions.R | 275 +++++- R/original_par_2GM.R | 2 R/plot.irtest.R | 71 - R/plot_item.R | 12 R/print.irtest.R | 35 R/reliability.R | 124 ++- R/summary.irtest.R | 28 README.md | 268 +++--- inst/CITATION | 8 inst/doc/vignette_for_IRTest.R | 326 ++++++-- inst/doc/vignette_for_IRTest.Rmd | 481 +++++++++-- inst/doc/vignette_for_IRTest.html | 1243 ++++++++++++++++++++----------- man/DataGeneration.Rd | 4 man/IRTest_Dich.Rd | 36 man/IRTest_Mix.Rd | 40 man/IRTest_Poly.Rd | 46 - man/cat_clps.Rd |only man/figures/README-plotLD-1.png |binary man/figures/README-results-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-6-1.png |only man/inform_f_item.Rd |only man/inform_f_test.Rd |only man/item_fit.Rd | 2 man/latent_distribution.Rd |only man/original_par_2GM.Rd | 2 man/plot.irtest.Rd | 35 man/print.irtest.Rd | 33 man/recategorize.Rd |only man/reliability.Rd | 38 man/summary.irtest.Rd | 9 tests/testthat/test-IRTest_Mix.R | 8 tests/testthat/test-IRTest_Poly.R | 10 tests/testthat/test-summary_n_print.R | 18 vignettes/vignette_for_IRTest.Rmd | 481 +++++++++-- 49 files changed, 2845 insertions(+), 1272 deletions(-)
Title: Affinity Propagation Clustering
Description: Implements Affinity Propagation clustering introduced by Frey and
Dueck (2007) <DOI:10.1126/science.1136800>. The algorithms are largely
analogous to the 'Matlab' code published by Frey and Dueck.
The package further provides leveraged affinity propagation and an
algorithm for exemplar-based agglomerative clustering that can also be
used to join clusters obtained from affinity propagation. Various
plotting functions are available for analyzing clustering results.
Author: Ulrich Bodenhofer [aut, cre],
Johannes Palme [ctb],
Chrats Melkonian [ctb],
Andreas Kothmeier [aut],
Nikola Kostic [ctb]
Maintainer: Ulrich Bodenhofer <bodenhofer@bioinf.jku.at>
Diff between apcluster versions 1.4.10 dated 2022-05-31 and 1.4.11 dated 2023-09-19
DESCRIPTION | 15 +++++++++------ MD5 | 18 +++++++++--------- R/AllClasses.R | 8 +++++++- R/apcluster-methods.R | 2 +- R/apclusterK-methods.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 14 +++++++------- inst/NEWS | 5 +++++ inst/doc/apcluster.pdf |binary 10 files changed, 39 insertions(+), 25 deletions(-)
Title: Connect to Your 'Skilljar' Data
Description: Functions that simplify calls to the 'Skilljar' API. See
<https://api.skilljar.com/docs/> for documentation on the 'Skilljar' API.
This package is not supported by 'Skilljar'.
Author: Chris Umphlett [aut, cre]
Maintainer: Chris Umphlett <christopher.umphlett@gmail.com>
Diff between skilljaR versions 0.1.1 dated 2023-06-09 and 0.1.2 dated 2023-09-19
DESCRIPTION | 6 +++--- MD5 | 6 ++++-- NAMESPACE | 1 + R/get_user_domain.R |only man/get_user_domain.Rd |only 5 files changed, 8 insertions(+), 5 deletions(-)
Title: Spatial Entropy Measures
Description: The heterogeneity of spatial data presenting a finite number of categories can be measured via computation of spatial entropy. Functions are available for the computation of the main entropy and spatial entropy measures in the literature. They include the traditional version of Shannon's entropy (Shannon, 1948 <doi:10.1002/j.1538-7305.1948.tb01338.x>), Batty's spatial entropy (Batty, 1974 <doi:10.1111/j.1538-4632.1974.tb01014.x>), O'Neill's entropy (O'Neill et al., 1998 <doi:10.1007/BF00162741>), Li and Reynolds' contagion index (Li and Reynolds, 1993 <doi:10.1007/BF00125347>), Karlstrom and Ceccato's entropy (Karlstrom and Ceccato, 2002 <urn:nbn:se:kth:diva-61351>), Leibovici's entropy (Leibovici, 2009 <doi:10.1007/978-3-642-03832-7_24>), Parresol and Edwards' entropy (Parresol and Edwards, 2014 <doi:10.3390/e16041842>) and Altieri's entropy (Altieri et al., 2018, <doi:10.1007/s10651-017-0383-1>). Full references for all measures can be [...truncated...]
Author: L. Altieri, D. Cocchi, G. Roli
Maintainer: Altieri Linda <linda.altieri@unibo.it>
Diff between SpatEntropy versions 2.2-0 dated 2022-11-22 and 2.2-1 dated 2023-09-19
DESCRIPTION | 10 - MD5 | 56 +++--- NAMESPACE | 1 R/SpatEntropy.R | 1 R/altieri_entropy.R | 67 +++++-- R/batty_karlstrom_entropy.R | 379 ++++++++++++++++++++++++++++++------------- R/data.R | 271 ++++++++++++++++++++++++++++-- R/oneill_leibovici_entropy.R | 161 +++++++++++++----- R/shannon.R | 47 +++-- data/bologna.RData |only data/bolognaTess.RData |only data/bolognaW.RData |only data/raintrees2.RData |only man/SpatEntropy.Rd | 1 man/altieri.Rd | 11 - man/areapart.Rd | 22 +- man/batty.Rd | 46 ++--- man/bologna.Rd |only man/bolognaTess.Rd |only man/bolognaW.Rd |only man/contagion.Rd | 14 + man/karlstrom.Rd | 52 ++++- man/leibovici.Rd | 32 ++- man/oneill.Rd | 19 +- man/parredw.Rd | 18 +- man/raintrees.Rd | 12 - man/raintrees2.Rd |only man/raintreesCOV.Rd | 7 man/shannon.Rd | 9 - man/shannonZ.Rd | 8 man/turin.Rd | 6 man/turinTess.Rd | 8 man/turinW.Rd | 2 33 files changed, 912 insertions(+), 348 deletions(-)
Title: Modelling Spatial Variation in Disease Risk for Areal Data
Description: Formatting of population and case data, calculation of Standardized
Incidence Ratios, and fitting the BYM model using 'INLA'. For details see Brown (2015) <doi:10.18637/jss.v063.i12>.
Author: Patrick Brown [aut, cre, cph],
Lutong Zhou [aut]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between diseasemapping versions 2.0.1 dated 2023-09-17 and 2.0.2 dated 2023-09-19
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- build/diseasemapping.pdf |binary build/stage23.rdb |binary inst/doc/bym.R | 14 +++++++++----- inst/doc/bym.Rnw | 15 ++++++++++----- inst/doc/bym.pdf |binary man/bym.Rd | 11 ++++++++--- man/diseasemapping-package.Rd | 2 +- tests/bym.R | 26 ++++++++++++++------------ vignettes/bym.Rnw | 15 ++++++++++----- 11 files changed, 66 insertions(+), 45 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Title: 'Rcpp'-Based Helper Functions to Pass 'Int64' and 'nanotime'
Values Between 'R' and 'C++'
Description: 'Int64' values can be created and accessed via the 'bit64' package and its 'integer64'
class which package the 'int64' representation cleverly into a 'double'. The 'nanotime' packages
builds on this to support nanosecond-resolution timestamps. This packages helps conversions between
'R' and 'C++' via several helper functions provided via a single header file. A complete example
client package is included as an illustration.
Author: Dirk Eddelbuettel [aut, cre]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppInt64 versions 0.0.2 dated 2023-09-12 and 0.0.3 dated 2023-09-19
ChangeLog | 32 +++++++++++ DESCRIPTION | 21 ++++--- MD5 | 26 +++++---- R/RcppExports.R | 22 +++++++- README.md | 61 +++++++++++++++++++++- build/partial.rdb |binary inst/NEWS.Rd | 14 ++++- inst/include/rcppint64_bits/as_wrap.h | 8 +- inst/include/rcppint64_bits/functions.h | 86 +++++++++++++++++++++++++++++++- inst/tinytest/cpp/nanotime_tests.cpp |only inst/tinytest/test-nanotime.R |only man/Int64toInt64.Rd | 2 man/NanotimeToNanotime.Rd |only src/RcppExports.cpp | 12 ++++ src/int64.cpp | 2 src/nanotime.cpp |only 16 files changed, 252 insertions(+), 34 deletions(-)
Title: Datasets from the Survival TV Series Alone
Description: A collection of datasets on the Alone survival TV series in tidy format.
Included in the package are 4 datasets detailing the survivors, their loadouts,
episode details and season information.
Author: Daniel Oehm [aut, cre]
Maintainer: Daniel Oehm <danieloehm@gmail.com>
Diff between alone versions 0.2 dated 2023-05-29 and 0.3 dated 2023-09-19
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ data/episodes.rda |binary data/loadouts.rda |binary data/seasons.rda |binary data/survivalists.rda |binary 7 files changed, 14 insertions(+), 9 deletions(-)
Title: Fast Best Subset Selection
Description: Extremely efficient toolkit for solving the best subset selection problem <https://www.jmlr.org/papers/v23/21-1060.html>. This package is its R interface. The package implements and generalizes algorithms designed in <doi:10.1073/pnas.2014241117> that exploits a novel sequencing-and-splicing technique to guarantee exact support recovery and globally optimal solution in polynomial times for linear model. It also supports best subset selection for logistic regression, Poisson regression, Cox proportional hazard model, Gamma regression, multiple-response regression, multinomial logistic regression, ordinal regression, (sequential) principal component analysis, and robust principal component analysis. The other valuable features such as the best subset of group selection <doi:10.1287/ijoc.2022.1241> and sure independence screening <doi:10.1111/j.1467-9868.2008.00674.x> are also provided.
Author: Jin Zhu [aut, cre] ,
Zezhi Wang [aut],
Liyuan Hu [aut],
Junhao Huang [aut],
Kangkang Jiang [aut],
Yanhang Zhang [aut],
Borui Tang [aut],
Shiyun Lin [aut],
Junxian Zhu [aut],
Canhong Wen [aut],
Heping Zhang [aut] ,
Xueqin Wang [aut] ,
spectra contribu [...truncated...]
Maintainer: Jin Zhu <zhuj37@mail2.sysu.edu.cn>
Diff between abess versions 0.4.7 dated 2023-02-19 and 0.4.8 dated 2023-09-19
DESCRIPTION | 10 LICENSE | 744 ++++++------ MD5 | 154 +- NAMESPACE | 100 - NEWS.md | 109 - R/RcppExports.R | 30 R/abess-package.R | 112 - R/abess.R | 1272 ++++++++++---------- R/abesspca.R | 801 ++++++------- R/abessrpca.R | 411 +++--- R/coef.abess.R | 144 +- R/coef.abesspca.R | 138 +- R/coef.abessrpca.R | 94 - R/deviance.abess.R | 98 - R/extract.abess.R | 198 +-- R/generate.data.R | 822 ++++++------- R/generate.matrix.R | 280 ++-- R/generate.spc.matrix.R | 162 +- R/initialization.R | 2463 ++++++++++++++++++++-------------------- R/plot.abess.R | 338 ++--- R/plot.abesspca.R | 368 ++--- R/plot.abessrpca.R | 144 +- R/predict.abess.R | 232 +-- R/print.abess.R | 76 - R/print.abesspca.R | 88 - R/print.abessrpca.R | 80 - R/utility.R | 248 ++-- README.md | 208 +-- build/partial.rdb |binary build/vignette.rds |binary configure.win | 22 inst/CITATION | 92 - inst/COPYRIGHTS | 758 ++++++------ inst/doc/v01-abess-guide.R | 277 ++-- inst/doc/v01-abess-guide.Rmd | 503 ++++---- inst/doc/v01-abess-guide.html | 1459 +++++++++++------------ man/abess-package.Rd | 90 - man/abess.Rd | 780 ++++++------ man/abesspca.Rd | 439 +++---- man/abessrpca.Rd | 333 ++--- man/coef.abess.Rd | 76 - man/coef.abesspca.Rd | 84 - man/coef.abessrpca.Rd | 60 man/deviance.abess.Rd | 66 - man/extract.abess.Rd | 94 - man/generate.data.Rd | 302 ++-- man/generate.matrix.Rd | 180 +- man/generate.spc.matrix.Rd | 104 - man/plot.abess.Rd | 114 - man/plot.abesspca.Rd | 94 - man/plot.abessrpca.Rd | 76 - man/predict.abess.Rd | 82 - man/print.abess.Rd | 70 - man/print.abesspca.Rd | 64 - man/print.abessrpca.Rd | 54 man/trim32.Rd | 52 src/Algorithm.h | 13 src/AlgorithmGLM.h | 184 +- src/RcppExports.cpp | 11 src/api.cpp | 46 src/api.h | 3 src/normalize.cpp | 14 src/utilities.h | 41 src/workflow.h | 5 tests/testthat/Rplots.pdf |binary tests/testthat/test-exception.R | 392 +++--- tests/testthat/test-generic.R | 514 ++++---- tests/testthat/test-glm-group.R | 588 ++++----- tests/testthat/test-glm.R | 1338 ++++++++++----------- tests/testthat/test-rpca.R | 50 tests/testthat/test-screening.R | 386 +++--- tests/testthat/test-sparse.R | 260 ++-- tests/testthat/test-spca.R | 578 ++++----- tests/testthat/utility.R | 1224 +++++++++---------- vignettes/Hitters.csv | 646 +++++----- vignettes/lung.csv | 458 +++---- vignettes/train.csv | 1784 ++++++++++++++-------------- vignettes/v01-abess-guide.Rmd | 503 ++++---- 78 files changed, 12725 insertions(+), 12562 deletions(-)
Title: Analysis of Selection Index in Plant Breeding
Description: The aim of most plant breeding programmes is simultaneous improvement of several characters. An objective method involving simultaneous selection for several attributes then becomes necessary. It has been recognised that most rapid improvements in the economic value is expected from selection applied simultaneously to all the characters which determine the economic value of a plant, and appropriate assigned weights to each character according to their economic importance, heritability and correlations between characters. So the selection for economic value is a complex matter. If the component characters are combined together into an index in such a way that when selection is applied to the index, as if index is the character to be improved, most rapid improvement of economic value is expected. Such an index was first proposed by Smith (1937 <doi:10.1111/j.1469-1809.1936.tb02143.x>) based on the Fisher's (1936 <doi:10.1111/j.1469-1809.1936.tb02137.x>) "discriminant function [...truncated...]
Author: Zankrut Goyani [aut, cre, cph]
Maintainer: Zankrut Goyani <zankrut20@gmail.com>
Diff between selection.index versions 1.1.4 dated 2022-06-13 and 1.2.0 dated 2023-09-19
DESCRIPTION | 17 MD5 | 63 +- NAMESPACE | 23 NEWS.md | 44 - R/comb.indices.R | 98 +-- R/gen.advance.R | 42 - R/gen.varcov.R | 120 ++-- R/meanPerformance.R |only R/phen.varcov.R | 122 ++-- R/rcomb.indices.R | 126 ++-- R/seldata.R | 42 - R/weight.R | 28 - R/weight.mat.R | 28 - README.md | 296 +++++------ build/vignette.rds |binary inst/doc/Examples.R | 64 +- inst/doc/Examples.Rmd | 128 ++-- inst/doc/Examples.html | 906 +++++++++++++++++----------------- man/comb.indices.Rd | 68 +- man/gen.advance.Rd | 52 - man/gen.varcov.Rd | 48 - man/meanPerformance.Rd |only man/phen.varcov.Rd | 48 - man/rcomb.indices.Rd | 72 +- man/seldata.Rd | 58 +- man/weight.Rd | 44 - man/weight.mat.Rd | 40 - tests/testthat.R | 8 tests/testthat/test-comb.indices.R | 12 tests/testthat/test-gen.advance.R | 18 tests/testthat/test-genphen.R | 14 tests/testthat/test-meanPerformance.R |only tests/testthat/test-rcomb.indices.R | 12 vignettes/Examples.Rmd | 128 ++-- 34 files changed, 1390 insertions(+), 1379 deletions(-)
More information about selection.index at CRAN
Permanent link
Title: A Swiss-Army Knife for Data I/O
Description: Streamlined data import and export by making assumptions that
the user is probably willing to make: 'import()' and 'export()' determine
the data structure from the file extension, reasonable defaults are used for
data import and export (e.g., 'stringsAsFactors=FALSE'), web-based import is
natively supported (including from SSL/HTTPS), compressed files can be read
directly without explicit decompression, and fast import packages are used where
appropriate. An additional convenience function, 'convert()', provides a simple
method for converting between file types.
Author: Jason Becker [aut],
Chung-hong Chan [aut, cre] ,
David Schoch [aut] ,
Geoffrey CH Chan [ctb],
Thomas J. Leeper [aut] ,
Christopher Gandrud [ctb],
Andrew MacDonald [ctb],
Ista Zahn [ctb],
Stanislaus Stadlmann [ctb],
Ruaridh Williamson [ctb],
Patrick K [...truncated...]
Maintainer: Chung-hong Chan <chainsawtiney@gmail.com>
Diff between rio versions 1.0.0 dated 2023-09-14 and 1.0.1 dated 2023-09-19
rio-1.0.0/rio/tests/testthat/iris.html |only rio-1.0.1/rio/DESCRIPTION | 12 ++-- rio-1.0.1/rio/MD5 | 41 ++++++++-------- rio-1.0.1/rio/NEWS.md | 4 + rio-1.0.1/rio/R/import.R | 5 +- rio-1.0.1/rio/R/import_methods.R | 2 rio-1.0.1/rio/R/set_class.R | 2 rio-1.0.1/rio/R/sysdata.rda |binary rio-1.0.1/rio/README.md | 4 - rio-1.0.1/rio/inst/doc/extension.R | 2 rio-1.0.1/rio/inst/doc/labelled.R | 2 rio-1.0.1/rio/inst/doc/labelled.html | 4 - rio-1.0.1/rio/inst/doc/remap.R | 4 - rio-1.0.1/rio/inst/doc/rio.R | 10 ++-- rio-1.0.1/rio/inst/doc/rio.html | 52 ++++++++++----------- rio-1.0.1/rio/man/import.Rd | 2 rio-1.0.1/rio/man/import_list.Rd | 2 rio-1.0.1/rio/tests/testthat/test_format_feather.R | 3 + rio-1.0.1/rio/tests/testthat/test_format_parquet.R | 1 rio-1.0.1/rio/tests/testthat/test_identical.R | 1 rio-1.0.1/rio/tests/testthat/test_import_list.R | 2 rio-1.0.1/rio/tests/testthat/test_set_class.R | 12 ++++ 22 files changed, 98 insertions(+), 69 deletions(-)
Title: Methods for Multivariate Quadrature
Description: Provides methods to construct multivariate grids, which can be used
for multivariate quadrature. This grids can be based on different quadrature
rules like Newton-Cotes formulas (trapezoidal-, Simpson's- rule, ...) or Gauss
quadrature (Gauss-Hermite, Gauss-Legendre, ...). For the construction of the
multidimensional grid the product-rule or the combination- technique can be
applied.
Author: Constantin Weiser
Maintainer: Constantin Weiser <constantin.weiser@gmail.com>
Diff between mvQuad versions 1.0-6 dated 2016-07-19 and 1.0-8 dated 2023-09-19
DESCRIPTION | 12 MD5 | 17 - R/mvQuad.R | 14 README.md |only build/vignette.rds |binary inst/CITATION | 13 inst/NEWS | 7 inst/doc/mvQuad_intro.R | 18 - inst/doc/mvQuad_intro.html | 756 +++++++++++++++++++++++++++++++++++---------- man/mvQuad-package.Rd | 8 10 files changed, 633 insertions(+), 212 deletions(-)
Title: Simplify 'ggplot2' Visualisation
Description: Simplify 'ggplot2' visualisation with 'ggblanket' wrapper functions.
Author: David Hodge [aut, cre, cph] ,
Nik Mitchell [ctb]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between ggblanket versions 5.0.0 dated 2023-09-12 and 5.1.0 dated 2023-09-19
DESCRIPTION | 15 +- MD5 | 98 +++++++++--------- NAMESPACE | 2 NEWS.md | 7 + R/dark_mode.R | 18 +-- R/gg_area.R | 2 R/gg_bar.R | 2 R/gg_bin_2d.R | 2 R/gg_blank.R | 2 R/gg_boxplot.R | 2 R/gg_col.R | 2 R/gg_contour.R | 2 R/gg_contour_filled.R | 2 R/gg_crossbar.R | 2 R/gg_density.R | 2 R/gg_density_2d.R | 2 R/gg_density_2d_filled.R | 2 R/gg_errorbar.R | 2 R/gg_freqpoly.R | 2 R/gg_hex.R | 2 R/gg_histogram.R | 2 R/gg_jitter.R | 2 R/gg_label.R | 3 R/gg_line.R | 2 R/gg_linerange.R | 2 R/gg_path.R | 2 R/gg_point.R | 2 R/gg_pointrange.R | 2 R/gg_polygon.R | 2 R/gg_qq.R | 2 R/gg_raster.R | 2 R/gg_rect.R | 2 R/gg_ribbon.R | 2 R/gg_segment.R | 2 R/gg_smooth.R | 2 R/gg_step.R | 2 R/gg_text.R | 3 R/gg_tile.R | 2 R/gg_violin.R | 2 R/light_mode.R | 16 +-- R/pal.R | 46 ++++++-- inst/doc/ggblanket.R | 143 ++++++++++++--------------- inst/doc/ggblanket.Rmd | 151 +++++++++++++--------------- inst/doc/ggblanket.html | 245 ++++++++++++++++++++++------------------------- man/dark_mode.Rd | 8 - man/gg_label.Rd | 1 man/gg_text.Rd | 1 man/light_mode.Rd | 8 - man/pal_dark_mode.Rd |only man/pal_light_mode.Rd |only vignettes/ggblanket.Rmd | 151 +++++++++++++--------------- 51 files changed, 481 insertions(+), 499 deletions(-)
Title: Additional Layout Algorithms for Network Visualizations
Description: Several new layout algorithms to visualize networks are provided which are not part of 'igraph'.
Most are based on the concept of stress majorization by Gansner et al. (2004) <doi:10.1007/978-3-540-31843-9_25>.
Some more specific algorithms allow the user to emphasize hidden group structures in networks or focus on specific nodes.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between graphlayouts versions 1.0.0 dated 2023-05-01 and 1.0.1 dated 2023-09-19
DESCRIPTION | 10 MD5 | 56 ++-- NEWS.md | 4 R/annotate_functions.R | 98 ++++---- R/graph_manipulate.R | 25 +- R/layout_backbone.R | 148 +++++------- R/layout_dynamic.R | 98 ++++---- R/layout_manipulate.R | 41 +-- R/layout_multilevel.R | 323 +++++++++++++------------- R/layout_spectral.R | 40 +-- R/layout_stress.R | 536 +++++++++++++++++++++----------------------- R/layout_umap.R | 18 - R/layouts.R | 80 +++--- build/vignette.rds |binary inst/doc/graphlayouts.html | 209 ++++++++--------- man/annotate_circle.Rd | 16 - man/figures/dynamic_ex.png |binary man/graph_manipulate.Rd | 2 man/graphlayouts-package.Rd | 2 man/layout_backbone.Rd | 17 - man/layout_centrality.Rd | 12 man/layout_dynamic.Rd | 8 man/layout_focus.Rd | 4 man/layout_focus_group.Rd | 6 man/layout_manipulate.Rd | 8 man/layout_multilevel.Rd | 14 - man/layout_spectral.Rd | 10 man/layout_stress.Rd | 10 man/layout_umap.Rd | 4 29 files changed, 897 insertions(+), 902 deletions(-)
Title: 'DT' Extension for CRUD (Create, Read, Update, Delete)
Applications in 'shiny'
Description: The core of this package is a function eDT() which enhances DT::datatable() such that it can be used to interactively modify data in 'shiny'. By the use of generic 'dplyr' methods it supports many types of data storage, with relational databases ('dbplyr') being the main use case.
Author: Jasper Schelfhout [aut, cre],
Maxim Nazarov [rev],
Daan Seynaeve [rev]
Maintainer: Jasper Schelfhout <jasper.schelfhout@openanalytics.eu>
Diff between editbl versions 0.9.5 dated 2023-09-05 and 0.9.6 dated 2023-09-19
DESCRIPTION | 20 +++++++++++++------- MD5 | 21 +++++++++++---------- R/demoApp.R | 25 ++++++++++++++++--------- R/eDT.R | 7 ++++++- R/tbl_dbi.R | 36 ++++++++++++++++++++++++++++++------ README.md |only man/eDT.Rd | 7 ++++++- man/eDTOutput.Rd | 7 ++++++- man/rows_delete.tbl_dbi.Rd | 12 ++++++++++-- man/rows_insert.tbl_dbi.Rd | 11 ++++++++++- man/rows_update.tbl_dbi.Rd | 12 ++++++++++-- man/runDemoApp.Rd | 25 ++++++++++++++++--------- 12 files changed, 134 insertions(+), 49 deletions(-)
Title: Search and Retrieve Data from Eurostat Database
Description: Eurostat is the statistical office of the European Union and provides high quality statistics for Europe.
Large set of the data is disseminated through the Eurostat database (<https://ec.europa.eu/eurostat/web/main/data/database>).
The tools are using the REST API with the Statistical Data and Metadata eXchange (SDMX) Web Services
(<https://wikis.ec.europa.eu/pages/viewpage.action?pageId=44165555>) to search and download data from
the Eurostat database using the SDMX standard.
Author: Matyas Meszaros [aut, cre],
Sebastian Weinand [ctb]
Maintainer: Matyas Meszaros <matyas.meszaros@ec.europa.eu>
Diff between restatapi versions 0.21.2 dated 2023-08-08 and 0.22.1 dated 2023-09-19
DESCRIPTION | 8 MD5 | 28 - NEWS.md | 15 R/extract_data.R | 3 R/get_compressed_sdmx.R | 16 R/get_eurostat_bulk.R | 2 R/get_eurostat_codelist.R | 8 R/get_eurostat_data.R | 46 +- R/get_eurostat_dsd.R | 21 - R/get_eurostat_raw.R | 14 R/get_eurostat_toc.R | 8 inst/tinytest/test_restatapi.R | 792 +++++++++++++++++------------------------ man/get_eurostat_bulk.Rd | 2 man/get_eurostat_data.Rd | 2 man/get_eurostat_raw.Rd | 6 15 files changed, 459 insertions(+), 512 deletions(-)
Title: Latent Dirichlet Allocation Coupled with Time Series Analyses
Description: Combines Latent Dirichlet Allocation (LDA) and Bayesian multinomial time series methods in a two-stage analysis to quantify dynamics in high-dimensional temporal data. LDA decomposes multivariate data into lower-dimension latent groupings, whose relative proportions are modeled using generalized Bayesian time series models that include abrupt changepoints and smooth dynamics. The methods are described in Blei et al. (2003) <doi:10.1162/jmlr.2003.3.4-5.993>, Western and Kleykamp (2004) <doi:10.1093/pan/mph023>, Venables and Ripley (2002, ISBN-13:978-0387954578), and Christensen et al. (2018) <doi:10.1002/ecy.2373>.
Author: Juniper L. Simonis [aut, cre] ,
Erica M. Christensen [aut] ,
David J. Harris [aut] ,
Renata M. Diaz [aut] ,
Hao Ye [aut] ,
Ethan P. White [aut] ,
S.K. Morgan Ernest [aut] ,
Weecology [cph]
Maintainer: Juniper L. Simonis <juniper.simonis@weecology.org>
Diff between LDATS versions 0.2.7 dated 2020-03-19 and 0.3.0 dated 2023-09-19
DESCRIPTION | 24 MD5 | 113 +-- NEWS.md | 21 R/LDA.R | 6 R/LDATS.R | 14 R/LDA_TS.R | 6 R/TS.R | 10 R/data.R | 8 R/ptMCMC.R | 10 README.md | 26 build/vignette.rds |binary inst/WORDLIST | 84 +- inst/doc/LDATS_codebase.R | 6 inst/doc/LDATS_codebase.Rmd | 4 inst/doc/LDATS_codebase.html | 191 +++-- inst/doc/paper-comparison.R | 490 -------------- inst/doc/paper-comparison.Rmd | 281 ++++---- inst/doc/paper-comparison.html | 1153 +++++++++++++++++++--------------- inst/doc/rodents-example.R | 38 - inst/doc/rodents-example.Rmd | 4 inst/doc/rodents-example.html | 481 ++++++++------ man/LDATS.Rd | 15 man/LDA_TS.Rd | 32 man/LDA_TS_control.Rd | 28 man/LDA_set.Rd | 5 man/LDA_set_control.Rd | 3 man/TS.Rd | 30 man/TS_control.Rd | 23 man/TS_on_LDA.Rd | 24 man/TS_summary_plot.Rd | 32 man/check_document_covariate_table.Rd | 7 man/count_trips.Rd | 2 man/diagnose_ptMCMC.Rd | 2 man/est_changepoints.Rd | 10 man/est_regressors.Rd | 5 man/jornada.Rd | 10 man/logLik.LDA_VEM.Rd | 4 man/multinom_TS.Rd | 21 man/multinom_TS_chunk.Rd | 10 man/plot.LDA_TS.Rd | 11 man/plot.LDA_VEM.Rd | 34 - man/plot.TS_fit.Rd | 16 man/prep_cpts.Rd | 3 man/prep_ptMCMC_inputs.Rd | 10 man/rodents.Rd | 10 man/set_LDA_TS_plot_cols.Rd | 11 man/set_TS_summary_plot_cols.Rd | 11 man/step_chains.Rd | 2 man/swap_chains.Rd | 4 man/verify_changepoint_locations.Rd | 3 vignettes/LDATS_codebase.Rmd | 4 vignettes/output |only vignettes/paper-comparison.Rmd | 281 ++++---- vignettes/rodents-example.Rmd | 4 54 files changed, 1879 insertions(+), 1758 deletions(-)
Title: Volume Approximation and Sampling of Convex Polytopes
Description: Provides an R interface for 'volesti' C++ package. 'volesti' computes estimations of volume
of polytopes given by (i) a set of points, (ii) linear inequalities or (iii) Minkowski sum of segments
(a.k.a. zonotopes). There are three algorithms for volume estimation as well as algorithms
for sampling, rounding and rotating polytopes. Moreover, 'volesti' provides algorithms for
estimating copulas useful in computational finance. Methods implemented in 'volesti' are described
in A. Chalkis and V. Fisikopoulos (2022) <doi:10.32614/RJ-2021-077> and references therein.
Author: Vissarion Fisikopoulos <vissarion.fisikopoulos@gmail.com> [aut, cph, cre],
Apostolos Chalkis <tolis.chal@gmail.com> [cph, aut],
contributors in file inst/AUTHORS
Maintainer: Vissarion Fisikopoulos <vissarion.fisikopoulos@gmail.com>
Diff between volesti versions 1.1.2-6 dated 2023-04-11 and 1.1.2-7 dated 2023-09-19
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ src/external/lpsolve/build/lp_solve/lusol.c | 11 +++++++++++ 4 files changed, 22 insertions(+), 7 deletions(-)
Title: Seeding the Default RNG with a Numeric Vector
Description: A function setVectorSeed() is provided. Its argument
is a numeric vector of an arbitrary nonzero length, whose
components have integer values from [0, 2^32-1]. The input
vector is transformed using AES (Advanced Encryption Standard)
algorithm into an initial state of Mersenne-Twister random
number generator. The function provides a better alternative
to the R base function set.seed(), if the input vector is
a single integer. Initializing a stream of random numbers
with a vector is a convenient way to obtain several streams,
each of which is identified by several integer indices.
Author: Petr Savicky
Maintainer: Petr Savicky <savicky@cs.cas.cz>
Diff between rngSetSeed versions 0.3-2 dated 2014-12-03 and 0.3-3 dated 2023-09-19
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- man/generateInitialization.Rd | 6 +++--- man/rngSetSeed-package.Rd | 1 + 4 files changed, 11 insertions(+), 10 deletions(-)
Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre] ,
Hadley Wickham [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 1.0.2 dated 2023-08-15 and 1.0.3 dated 2023-09-19
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Title: Simulating Forest Growth using the 3-PG Model
Description: Provides a flexible and easy-to-use interface for the Physiological Processes Predicting Growth (3-PG) model written in Fortran. The r3PG serves as a flexible and easy-to-use interface for the 3-PGpjs (monospecific, evenaged and evergreen forests) described in Landsberg & Waring (1997) <doi:10.1016/S0378-1127(97)00026-1> and the 3-PGmix (deciduous, uneven-aged or mixed-species forests) described in Forrester & Tang (2016) <doi:10.1016/j.ecolmodel.2015.07.010>.
Author: Volodymyr Trotsiuk [aut, cre] ,
Florian Hartig [aut] ,
David Forrester [aut],
Ramiro Silveyra Gonzalez [aut]
Maintainer: Volodymyr Trotsiuk <volodymyr.trotsiuk@wsl.ch>
Diff between r3PG versions 0.1.5 dated 2023-07-04 and 0.1.6 dated 2023-09-19
DESCRIPTION | 8 MD5 | 12 - R/r3PG.R | 1 man/r3PG.Rd | 1 src/i_decl_var.h | 412 +++++++++++++++++++++++++------------------------- src/md_3PG.f95 | 268 ++++++++++++++++---------------- src/md_decl_const.f95 | 20 +- 7 files changed, 362 insertions(+), 360 deletions(-)