Title: Extended Two-Way Fixed Effects
Description: Convenience functions for implementing extended two-way
fixed effect regressions a la Wooldridge (2021, 2022)
<doi:10.2139/ssrn.3906345>, <doi:10.2139/ssrn.4183726>.
Author: Grant McDermott [aut, cre] ,
Frederic Kluser [ctb]
Maintainer: Grant McDermott <gmcd@amazon.com>
Diff between etwfe versions 0.3.5 dated 2023-12-01 and 0.4.0 dated 2024-02-26
DESCRIPTION | 10 MD5 | 24 NAMESPACE | 9 NEWS.md | 15 R/emfx.R | 56 + R/etwfe.R | 56 + README.md | 9 inst/doc/etwfe.Rmd | 14 inst/doc/etwfe.html | 1602 ++++++++++++++++++++++----------------------- inst/tinytest/test_etwfe.R | 107 +-- man/emfx.Rd | 159 ++-- man/etwfe.Rd | 155 ++-- vignettes/etwfe.Rmd | 14 13 files changed, 1164 insertions(+), 1066 deletions(-)
Title: Markov Chain Monte Carlo Small Area Estimation
Description: Fit multi-level models with possibly correlated
random effects using Markov Chain Monte Carlo simulation.
Such models allow smoothing over space and time and are useful in,
for example, small area estimation.
Author: Harm Jan Boonstra [aut, cre],
Grzegorz Baltissen [ctb]
Maintainer: Harm Jan Boonstra <hjboonstra@gmail.com>
Diff between mcmcsae versions 0.7.6 dated 2023-12-02 and 0.7.7 dated 2024-02-26
mcmcsae-0.7.6/mcmcsae/man/bart.Rd |only mcmcsae-0.7.6/mcmcsae/man/mcmcsae-TMVN-method.Rd |only mcmcsae-0.7.7/mcmcsae/DESCRIPTION | 24 mcmcsae-0.7.7/mcmcsae/MD5 | 140 ++--- mcmcsae-0.7.7/mcmcsae/NAMESPACE | 13 mcmcsae-0.7.7/mcmcsae/NEWS | 17 mcmcsae-0.7.7/mcmcsae/R/MCMCsim.R | 80 +-- mcmcsae-0.7.7/mcmcsae/R/MatrixUtils.R | 57 +- mcmcsae-0.7.7/mcmcsae/R/RcppExports.R | 4 mcmcsae-0.7.7/mcmcsae/R/TMVN_methods.R | 14 mcmcsae-0.7.7/mcmcsae/R/TMVN_sampler.R | 27 - mcmcsae-0.7.7/mcmcsae/R/cMVN_sampler.R |only mcmcsae-0.7.7/mcmcsae/R/cholesky.R | 13 mcmcsae-0.7.7/mcmcsae/R/conjugate_gradients.R | 108 +--- mcmcsae-0.7.7/mcmcsae/R/family.R | 74 ++ mcmcsae-0.7.7/mcmcsae/R/formulas.R | 24 mcmcsae-0.7.7/mcmcsae/R/mc_bart.R | 166 +++++- mcmcsae-0.7.7/mcmcsae/R/mc_block.R | 204 ++++---- mcmcsae-0.7.7/mcmcsae/R/mc_gen.R | 276 +++++++---- mcmcsae-0.7.7/mcmcsae/R/mc_gl.R | 4 mcmcsae-0.7.7/mcmcsae/R/mc_mec.R | 18 mcmcsae-0.7.7/mcmcsae/R/mc_reg.R | 177 ++++--- mcmcsae-0.7.7/mcmcsae/R/mc_vfac.R | 10 mcmcsae-0.7.7/mcmcsae/R/mc_vreg.R | 9 mcmcsae-0.7.7/mcmcsae/R/mcmcsae.R | 1 mcmcsae-0.7.7/mcmcsae/R/model_eval.R | 53 +- mcmcsae-0.7.7/mcmcsae/R/modelmatrix.R | 4 mcmcsae-0.7.7/mcmcsae/R/models.R | 112 +++- mcmcsae-0.7.7/mcmcsae/R/opts.R | 14 mcmcsae-0.7.7/mcmcsae/R/parallel.R | 15 mcmcsae-0.7.7/mcmcsae/R/prediction.R | 14 mcmcsae-0.7.7/mcmcsae/R/priors.R | 28 - mcmcsae-0.7.7/mcmcsae/R/random.R | 8 mcmcsae-0.7.7/mcmcsae/R/samplers.R | 476 +++++++++++-------- mcmcsae-0.7.7/mcmcsae/R/sbc.R | 109 +++- mcmcsae-0.7.7/mcmcsae/R/sparse_template.R | 144 ++++- mcmcsae-0.7.7/mcmcsae/R/tabMatrix.R | 21 mcmcsae-0.7.7/mcmcsae/R/utils.R | 19 mcmcsae-0.7.7/mcmcsae/inst/doc/area_level.html | 64 +- mcmcsae-0.7.7/mcmcsae/man/MCMCsim.Rd | 4 mcmcsae-0.7.7/mcmcsae/man/SBC_test.Rd | 42 + mcmcsae-0.7.7/mcmcsae/man/TMVN-methods.Rd |only mcmcsae-0.7.7/mcmcsae/man/aggrMatrix.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/anyNA-tabMatrix-method.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/brt.Rd |only mcmcsae-0.7.7/mcmcsae/man/correlation.Rd | 59 ++ mcmcsae-0.7.7/mcmcsae/man/create_TMVN_sampler.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/create_cMVN_sampler.Rd |only mcmcsae-0.7.7/mcmcsae/man/create_sampler.Rd | 19 mcmcsae-0.7.7/mcmcsae/man/gen.Rd | 10 mcmcsae-0.7.7/mcmcsae/man/gen_control.Rd |only mcmcsae-0.7.7/mcmcsae/man/mcmcsae-family.Rd | 9 mcmcsae-0.7.7/mcmcsae/man/mcmcsae-package.Rd | 1 mcmcsae-0.7.7/mcmcsae/man/mec.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/pr_MLiG.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/pr_normal.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/read_draws.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/reg.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/sampler_control.Rd | 14 mcmcsae-0.7.7/mcmcsae/man/setup_cluster.Rd | 2 mcmcsae-0.7.7/mcmcsae/man/tabMatrix-indexing.Rd | 2 mcmcsae-0.7.7/mcmcsae/src/RcppExports.cpp | 7 mcmcsae-0.7.7/mcmcsae/src/TN.cpp | 14 mcmcsae-0.7.7/mcmcsae/src/c_export.cpp | 6 mcmcsae-0.7.7/mcmcsae/src/chMatrix.c | 11 mcmcsae-0.7.7/mcmcsae/src/mcmcsae_init.c | 151 ++---- mcmcsae-0.7.7/mcmcsae/src/random.cpp | 10 mcmcsae-0.7.7/mcmcsae/src/speed_ups.cpp | 94 +-- mcmcsae-0.7.7/mcmcsae/src/tabMatrix.cpp | 18 mcmcsae-0.7.7/mcmcsae/tests/testthat/test_FH.R | 2 mcmcsae-0.7.7/mcmcsae/tests/testthat/test_bart.R |only mcmcsae-0.7.7/mcmcsae/tests/testthat/test_checks.R | 7 mcmcsae-0.7.7/mcmcsae/tests/testthat/test_gammareg.R | 4 mcmcsae-0.7.7/mcmcsae/tests/testthat/test_gen.R | 3 mcmcsae-0.7.7/mcmcsae/tests/testthat/test_linalg.R | 20 75 files changed, 1943 insertions(+), 1123 deletions(-)
Title: Computing Power and Sample Size for the False Discovery Rate in
Multiple Applications
Description: Defines a collection of functions to compute average power and sample size for studies that use the false discovery rate as the final measure of statistical significance. A three-rectangle approximation method of a p-value histogram is proposed to derive a formula to compute the statistical power for analyses that involve the FDR. The methodology paper of this package is under review.
Author: Yonghui Ni [aut, cre],
Stanley Pounds [aut]
Maintainer: Yonghui Ni <Yonghui.Ni@STJUDE.ORG>
Diff between FDRsamplesize2 versions 0.1.0 dated 2023-11-27 and 0.2.0 dated 2024-02-26
DESCRIPTION | 6 - LICENSE | 2 MD5 | 81 +++++++++-------- NAMESPACE | 89 +++++++++---------- NEWS.md |only R/average_power.R | 20 ++-- R/power.R | 12 +- R/samplesize.R | 196 ++++++++++++++++++++++++++++++++++++------ README.md | 12 ++ man/FDRsamplesize2-package.Rd | 40 ++++---- man/alpha.power.fdr.Rd | 4 man/average.power.coxph.Rd | 4 man/average.power.hart.Rd | 2 man/average.power.li.Rd | 84 +++++++++--------- man/average.power.oneway.Rd | 60 ++++++------ man/average.power.ranksum.Rd | 56 ++++++------ man/average.power.signrank.Rd | 62 ++++++------- man/average.power.signtest.Rd | 56 ++++++------ man/average.power.t.test.Rd | 76 ++++++++-------- man/average.power.tcorr.Rd | 62 ++++++------- man/average.power.twoprop.Rd | 62 ++++++------- man/fdr.avepow.Rd |only man/fdr.power.alpha.Rd |only man/find.sample.size.Rd | 3 man/n.fdr.coxph.Rd | 7 + man/n.fdr.fisher.Rd | 4 man/n.fdr.negbin.Rd | 7 + man/n.fdr.oneway.Rd | 78 ++++++++-------- man/n.fdr.poisson.Rd | 96 ++++++++++---------- man/n.fdr.ranksum.Rd | 80 ++++++++--------- man/n.fdr.signrank.Rd | 86 +++++++++--------- man/n.fdr.signtest.Rd | 7 + man/n.fdr.tcorr.Rd | 74 +++++++-------- man/n.fdr.ttest.Rd | 102 ++++++++++----------- man/n.fdr.twoprop.Rd | 89 +++++++++---------- man/power.cox.Rd | 2 man/power.fisher.Rd | 56 ++++++------ man/power.hart.Rd | 70 +++++++-------- man/power.ranksum.Rd | 62 ++++++------- man/power.signrank.Rd | 68 +++++++------- man/power.signtest.Rd | 62 ++++++------- man/power.tcorr.Rd | 56 ++++++------ tests/testthat.R | 24 ++--- 43 files changed, 1099 insertions(+), 920 deletions(-)
More information about FDRsamplesize2 at CRAN
Permanent link
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 1.2-0 dated 2023-09-21 and 1.2.1 dated 2024-02-26
DESCRIPTION | 12 MD5 | 28 R/rbioacc-package.R | 3 R/zzz_internals.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/MWE.R | 2 inst/doc/Tutorial.R | 2 inst/doc/Tutorial.html | 10 man/dot-is_equal_rmInf.Rd | 4 man/rbioacc-package.Rd | 28 src/stanExports_TK.h | 3567 +++++++++++++++++++++---------------------- src/stanExports_TK_predict.h | 2494 ++++++++++++++---------------- src/stanExports_odeTK.h | 3119 ++++++++++++++++++------------------- vignettes/Tutorial_files |only 15 files changed, 4536 insertions(+), 4737 deletions(-)
Title: Single Cell Analysis and Differential Expression
Description: Analyzing and interactively exploring large-scale single-cell RNA-seq datasets. 'pagoda2' primarily performs normalization and differential gene expression analysis, with an interactive application for exploring single-cell RNA-seq datasets. It performs basic tasks such as cell size normalization, gene variance normalization, and can be used to identify subpopulations and run differential expression within individual samples. 'pagoda2' was written to rapidly process modern large-scale scRNAseq datasets of approximately 1e6 cells. The companion web application allows users to explore which gene expression patterns form the different subpopulations within your data. The package also serves as the primary method for preprocessing data for conos, <https://github.com/kharchenkolab/conos>. This package interacts with data available through the 'p2data' package, which is available in a 'drat' repository. To access this data package, see the instructions at <https://github.com/kharche [...truncated...]
Author: Nikolas Barkas [aut],
Viktor Petukhov [aut],
Peter Kharchenko [aut],
Simon Steiger [ctb],
Rasmus Rydbirk [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between pagoda2 versions 1.0.11 dated 2023-08-08 and 1.0.12 dated 2024-02-26
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/Pagoda2.R | 2 +- R/helpers.R | 2 +- README.md | 8 ++++---- src/Makevars | 2 +- src/Makevars.win | 2 +- 7 files changed, 17 insertions(+), 17 deletions(-)
Title: MHC Allele-Based Differencing Between Populations
Description: Tools for the analysis of population differences
using the Major Histocompatibility Complex (MHC) genotypes of samples
having a variable number of alleles (1-4) recorded for each
individual. A hierarchical Dirichlet-Multinomial model on the
genotype counts is used to pool small samples from multiple
populations for pairwise tests of equality. Bayesian inference is
implemented via the 'rstan' package. Bootstrapped and posterior
p-values are provided for chi-squared and likelihood ratio tests of
equal genotype probabilities.
Author: Martin Lysy [cre, aut],
Peter W.J. Kim [aut],
Terin Robinson [ctb]
Maintainer: Martin Lysy <mlysy@uwaterloo.ca>
Diff between MADPop versions 1.1.6 dated 2023-10-13 and 1.1.7 dated 2024-02-26
DESCRIPTION | 8 MD5 | 8 inst/doc/MADPop-quicktut.html | 26 inst/stan/DirichletMultinomial.stan | 55 + src/stanExports_DirichletMultinomial.h | 1015 ++++++++++++++------------------- 5 files changed, 503 insertions(+), 609 deletions(-)
Title: Panomics Marketplace - Quality Control and Statistical Analysis
for Panomics Data
Description: Provides functionality for quality control processing and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data, as well as RNA-seq based count data and nuclear magnetic resonance (NMR) data. This includes data transformation, specification of groups that are to be compared against each other, filtering of features and/or samples, data normalization, data summarization (correlation, PCA), and statistical comparisons between defined groups. Implements methods described in: Webb-Robertson et al. (2014) <doi:10.1074/mcp.M113.030932>. Webb-Robertson et al. (2011) <doi:10.1002/pmic.201100078>. Matzke et al. (2011) <doi:10.1093/bioinformatics/btr479>. Matzke et al. (2013) <doi:10.1002/pmic.201200269>. Polpitiya et al. (2008) <doi:10.1093/bioinformatics/btn217>. Webb-Robertson et al. (2010) <doi:10.1021/pr1005247>.
Author: Lisa Bramer [aut, cre],
Kelly Stratton [aut],
Daniel Claborne [aut],
Evan Glasscock [ctb],
Rachel Richardson [ctb],
David Degnan [ctb],
Evan Martin [ctb]
Maintainer: Lisa Bramer <lisa.bramer@pnnl.gov>
Diff between pmartR versions 2.4.2 dated 2023-12-12 and 2.4.3 dated 2024-02-26
DESCRIPTION | 21 - MD5 | 65 ++-- NAMESPACE | 4 R/applyFilt.R | 16 - R/as.trelliData.R | 447 ++++++++++++++++++++-------- R/edata_replace.R | 64 +++- R/filter_objects.R | 22 - R/plot_fns.R | 168 +++++----- R/pmartR.R | 2 R/summary_trelliData.R | 15 R/trelliPlots.R | 325 ++++++++++++++------ R/trelliPlots_seqData.R |only README.md | 23 + man/as.trelliData.Rd | 24 + man/as.trelliData.edata.Rd | 34 +- man/edata_replace.Rd | 5 man/trelli_abundance_boxplot.Rd | 5 man/trelli_abundance_heatmap.Rd | 2 man/trelli_abundance_histogram.Rd | 2 man/trelli_foldchange_bar.Rd | 6 man/trelli_foldchange_boxplot.Rd | 22 + man/trelli_foldchange_heatmap.Rd | 10 man/trelli_foldchange_volcano.Rd | 2 man/trelli_missingness_bar.Rd | 5 man/trelli_precheck.Rd | 11 man/trelli_pvalue_filter.Rd | 35 ++ man/trelli_rnaseq_boxplot.Rd |only man/trelli_rnaseq_heatmap.Rd |only man/trelli_rnaseq_histogram.Rd |only man/trelli_rnaseq_nonzero_bar.Rd |only tests/testthat/test_as_trelliData.R | 48 +++ tests/testthat/test_as_trelliData_edata.R | 40 ++ tests/testthat/test_as_trelliData_summary.R | 30 + tests/testthat/test_edata_replace.R | 136 ++++++++ tests/testthat/test_trelliPlots.R | 234 +++++++++++++- tests/testthat/test_trelliPlots_seqData.R |only tests/testthat/test_trelli_pvalue_filter.R |only 37 files changed, 1418 insertions(+), 405 deletions(-)
Title: Reading Ontologies into R
Description: Functions for reading ontologies into R as lists and manipulating sets of ontological terms - 'ontologyX: A suite of R packages for working with ontological data', Greene et al 2017 <doi:10.1093/bioinformatics/btw763>.
Author: Daniel Greene <dg333@cam.ac.uk>
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Diff between ontologyIndex versions 2.11 dated 2023-05-30 and 2.12 dated 2024-02-26
DESCRIPTION | 13 +++++++------ MD5 | 28 ++++++++++++++-------------- R/data.R | 19 ++++++++----------- build/vignette.rds |binary data/go.RData |binary data/hpo.RData |binary data/mpo.RData |binary inst/doc/intro-to-ontologyX.R | 2 +- inst/doc/intro-to-ontologyX.html | 31 ++++++++++++++++++++++--------- inst/doc/reading-ontologies.html | 17 ++++++++++++----- man/check.Rd | 2 +- man/go.Rd | 2 +- man/hpo.Rd | 2 +- man/mpo.Rd | 2 +- man/ontologyIndex-package.Rd | 10 ---------- 15 files changed, 68 insertions(+), 60 deletions(-)
Title: A Toolkit for Behavioral Scientists
Description: A collection of functions for analyzing data typically collected
or used by behavioral scientists. Examples of the functions include
a function that compares groups in a factorial experimental design,
a function that conducts two-way analysis of variance (ANOVA),
and a function that cleans a data set generated by Qualtrics surveys.
Some of the functions will require installing additional package(s).
Such packages and other references are cited within the section
describing the relevant functions. Many functions in this package
rely heavily on these two popular R packages:
Dowle et al. (2021) <https://CRAN.R-project.org/package=data.table>.
Wickham et al. (2021) <https://CRAN.R-project.org/package=ggplot2>.
Author: Jin Kim [aut, cre]
Maintainer: Jin Kim <jin.kim1@northeastern.edu>
Diff between kim versions 0.5.421 dated 2023-10-09 and 0.5.422 dated 2024-02-26
kim-0.5.421/kim/tests |only kim-0.5.422/kim/DESCRIPTION | 12 kim-0.5.422/kim/MD5 | 51 ++-- kim-0.5.422/kim/NAMESPACE | 1 kim-0.5.422/kim/NEWS.md | 6 kim-0.5.422/kim/R/assign_fn_parameters_as_vars.R |only kim-0.5.422/kim/R/bracket.R | 26 +- kim-0.5.422/kim/R/cohen_d_over_n.R | 4 kim-0.5.422/kim/R/floodlight_2_by_continuous.R | 35 ++ kim-0.5.422/kim/R/floodlight_2_by_continuous_for_logistic.R | 6 kim-0.5.422/kim/R/floodlight_2_by_continuous_mlm_logistic.R | 6 kim-0.5.422/kim/R/floodlight_for_contrasts.R | 6 kim-0.5.422/kim/R/floodlight_multi_by_continuous.R | 6 kim-0.5.422/kim/R/histogram_w_outlier_bins.R | 2 kim-0.5.422/kim/R/loglinear_analysis.R | 7 kim-0.5.422/kim/R/plot_group_means.R | 146 ++++++++---- kim-0.5.422/kim/R/scatterplot.R | 144 +++++++++-- kim-0.5.422/kim/R/spotlight_2_by_continuous.R | 47 ++- kim-0.5.422/kim/R/two_way_anova.R | 37 ++- kim-0.5.422/kim/build/partial.rdb |binary kim-0.5.422/kim/inst/CITATION | 8 kim-0.5.422/kim/man/assign_fn_parameters_as_vars.Rd |only kim-0.5.422/kim/man/bracket.Rd | 2 kim-0.5.422/kim/man/floodlight_2_by_continuous.Rd | 8 kim-0.5.422/kim/man/plot_group_means.Rd | 43 +++ kim-0.5.422/kim/man/scatterplot.Rd | 38 ++- kim-0.5.422/kim/man/spotlight_2_by_continuous.Rd | 16 - kim-0.5.422/kim/man/two_way_anova.Rd | 37 ++- 28 files changed, 506 insertions(+), 188 deletions(-)
Title: Mechanical Loading Prediction Through Accelerometer Data
Description: Functions to read, process and analyse accelerometer
data related to mechanical loading variables. This package is
developed and tested for use with raw accelerometer data from
triaxial 'ActiGraph' <https://theactigraph.com> accelerometers.
Author: Lucas Veras [aut, cre]
Maintainer: Lucas Veras <lucasdsveras@gmail.com>
Diff between impactr versions 0.4.1 dated 2022-08-08 and 0.4.2 dated 2024-02-26
DESCRIPTION | 10 MD5 | 22 NEWS.md | 42 - R/impactr_data.R | 4 README.md | 24 build/partial.rdb |binary build/vignette.rds |binary inst/doc/impactr.R | 2 inst/doc/impactr.html | 850 ++++++++++++++++--------- man/new_impactr_data.Rd | 2 man/new_impactr_peaks.Rd | 4 tests/testthat/_snaps/impactr_data_printing.md | 18 12 files changed, 634 insertions(+), 344 deletions(-)
Title: Datasets from the Datasaurus Dozen
Description: The Datasaurus Dozen is a set of datasets with the same
summary statistics. They retain the same summary statistics despite
having radically different distributions. The datasets represent a
larger and quirkier object lesson that is typically taught via
Anscombe's Quartet (available in the 'datasets' package). Anscombe's
Quartet contains four very different distributions with the same
summary statistics and as such highlights the value of visualisation
in understanding data, over and above summary statistics. As well as
being an engaging variant on the Quartet, the data is generated in a
novel way. The simulated annealing process used to derive datasets
from the original Datasaurus is detailed in "Same Stats, Different
Graphs: Generating Datasets with Varied Appearance and Identical
Statistics through Simulated Annealing" <doi:10.1145/3025453.3025912>.
Author: Colin Gillespie [cre, aut],
Steph Locke [aut],
Alberto Cairo [dtc],
Rhian Davies [aut],
Justin Matejka [dtc],
George Fitzmaurice [dtc],
Lucy D'Agostino McGowan [aut],
Richard Cotton [ctb],
Tim Book [ctb],
Jumping Rivers [fnd]
Maintainer: Colin Gillespie <colin@jumpingrivers.com>
Diff between datasauRus versions 0.1.6 dated 2022-05-04 and 0.1.8 dated 2024-02-26
datasauRus-0.1.6/datasauRus/inst/extdata/BoxPlots.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/DatasaurusDozen-wide.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/DatasaurusDozen.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/SimpsonsParadox.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/TwelveFromSlant-long.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/TwelveFromSlant-wide.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/TwelveFromSlant_alternate-long.tsv |only datasauRus-0.1.6/datasauRus/inst/extdata/TwelveFromSlant_alternate-wide.tsv |only datasauRus-0.1.8/datasauRus/DESCRIPTION | 21 datasauRus-0.1.8/datasauRus/MD5 | 53 - datasauRus-0.1.8/datasauRus/NEWS.md | 8 datasauRus-0.1.8/datasauRus/R/datasaurus-package.R | 36 datasauRus-0.1.8/datasauRus/README.md | 2 datasauRus-0.1.8/datasauRus/data/box_plots_long.rda |only datasauRus-0.1.8/datasauRus/inst/doc/Datasaurus.Rmd | 2 datasauRus-0.1.8/datasauRus/inst/doc/Datasaurus.html | 398 +++++++--- datasauRus-0.1.8/datasauRus/inst/extdata/Boxplots-Long.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/Boxplots-Wide.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/DatasaurusDozen-Long.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/DatasaurusDozen-Wide.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/SimpsonsParadox-Long.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/TwelveFromSlant-Long.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/TwelveFromSlant-Wide.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/TwelveFromSlant_Alternate-Long.tsv |only datasauRus-0.1.8/datasauRus/inst/extdata/TwelveFromSlant_Alternate-Wide.tsv |only datasauRus-0.1.8/datasauRus/man/box_plots.Rd | 2 datasauRus-0.1.8/datasauRus/man/box_plots_long.Rd |only datasauRus-0.1.8/datasauRus/man/datasaurus_dozen.Rd | 2 datasauRus-0.1.8/datasauRus/man/datasaurus_dozen_wide.Rd | 2 datasauRus-0.1.8/datasauRus/man/simpsons_paradox.Rd | 2 datasauRus-0.1.8/datasauRus/man/simpsons_paradox_wide.Rd | 2 datasauRus-0.1.8/datasauRus/man/twelve_from_slant_alternate_long.Rd | 2 datasauRus-0.1.8/datasauRus/man/twelve_from_slant_alternate_wide.Rd | 2 datasauRus-0.1.8/datasauRus/man/twelve_from_slant_long.Rd | 2 datasauRus-0.1.8/datasauRus/man/twelve_from_slant_wide.Rd | 2 datasauRus-0.1.8/datasauRus/tests/testthat/test-rawfiles.R | 2 datasauRus-0.1.8/datasauRus/vignettes/Datasaurus.Rmd | 2 37 files changed, 395 insertions(+), 147 deletions(-)
Title: Wrapper for MUMPS Library
Description: Some basic features of 'MUMPS' (Multifrontal Massively Parallel
sparse direct Solver) are wrapped in a class whose methods can be used
for sequentially solving a sparse linear system (symmetric or not)
with one or many right hand sides (dense or sparse).
There is a possibility to do separately symbolic analysis,
LU (or LDL^t) factorization and system solving.
Third part ordering libraries are included and can be used: 'PORD', 'METIS', 'SCOTCH'.
'MUMPS' method was first described in Amestoy et al. (2001) <doi:10.1137/S0895479899358194>
and Amestoy et al. (2006) <doi:10.1016/j.parco.2005.07.004>.
Author: Serguei Sokol [aut, cre],
Emmanuel Agullo [ctb],
Patrick Amestoy [ctb, cph],
Maurice Bremond [ctb],
Alfredo Buttari [ctb],
Philippe Combes [ctb],
Marie Durand [ctb],
Aurelia Fevre [ctb],
Abdou Guermouche [ctb],
Guillaume Joslin [ctb],
Jacko Koster [c [...truncated...]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.2.1-27 dated 2024-02-05 and 5.2.1-28 dated 2024-02-26
DESCRIPTION | 10 ++++++---- MD5 | 8 ++++---- NEWS | 7 ++++++- inst/COPYRIGHTS | 2 +- src/lib/scotch_6.0.9/src/esmumps/Makefile | 1 + 5 files changed, 18 insertions(+), 10 deletions(-)
Title: Fast and Scalable Approximate k-Nearest Neighbor Search Methods
using 'N2' Library
Description: Implements methods to perform fast approximate K-nearest neighbor search on input matrix. Algorithm based on the 'N2' implementation of an approximate nearest neighbor search using hierarchical Navigable Small World (NSW) graphs. The original algorithm is described in "Efficient and Robust Approximate Nearest Neighbor Search Using Hierarchical Navigable Small World Graphs", Y. Malkov and D. Yashunin, <doi:10.1109/TPAMI.2018.2889473>, <arXiv:1603.09320>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
Dirk Eddelbuettel [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between N2R versions 1.0.2 dated 2024-02-26 and 1.0.3 dated 2024-02-26
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- README.md | 2 +- src/n2/Makefile | 4 ++-- src/n2/Makefile.win | 4 ++-- 5 files changed, 12 insertions(+), 12 deletions(-)
Title: R Markdown and Bookdown Templates to Publish Documents
Description: Producing high-quality documents suitable for publication directly from R is made possible by the R Markdown ecosystem.
'memoiR' makes it easy.
It provides templates to knit memoirs, articles and slideshows with helpers to publish the documents on GitHub Pages and activate continuous integration.
Author: Eric Marcon [aut, cre]
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between memoiR versions 1.2-4 dated 2023-09-14 and 1.2-7 dated 2024-02-26
DESCRIPTION | 11 - MD5 | 24 +- NEWS.md | 17 + R/memoiR.R | 13 - README.md | 14 - build/vignette.rds |binary inst/rmarkdown/templates/beamer_presentation/skeleton/skeleton.Rmd | 33 ++- inst/rmarkdown/templates/memoir/skeleton/82-syntax.Rmd | 95 +++++++--- inst/rmarkdown/templates/memoir/skeleton/index.Rmd | 24 +- inst/rmarkdown/templates/simple_article/skeleton/skeleton.Rmd | 86 ++++++--- inst/rmarkdown/templates/stylish_article/skeleton/skeleton.Rmd | 86 ++++++--- man/memoiR-package.Rd | 1 tests/testthat/test_build.R | 39 ++-- 13 files changed, 299 insertions(+), 144 deletions(-)
Title: Data for the 'Mastering Health Data Science Using R' Online
Textbook
Description: Contains nine datasets used in the chapters and exercises of Paul, Alice (2023) "Health Data Science in R" <https://alicepaul.github.io/health-data-science-using-r/>.
Author: Alice Paul [aut, cre],
Hannah Englinton [aut],
Jialin Liu [ctb],
Joanna Walsh [aut],
Xinbei Yu [ctb]
Maintainer: Alice Paul <alice_paul@brown.edu>
Diff between HDSinRdata versions 0.1.0 dated 2023-08-18 and 0.1.1 dated 2024-02-26
DESCRIPTION | 26 ++++++++++++++++---------- MD5 | 23 ++++++++++++++--------- NEWS.md |only R/covidcases.R | 2 +- R/lockdowndates.R | 10 +++++++--- R/tb_diagnosis.R |only build |only data/covidcases.rda |binary data/lockdowndates.rda |binary data/tb_diagnosis.rda |only man/HDSinRdata-package.Rd | 8 ++++---- man/covidcases.Rd | 2 +- man/lockdowndates.Rd | 10 +++++++--- man/mobility.Rd | 2 +- man/tb_diagnosis.Rd |only 15 files changed, 51 insertions(+), 32 deletions(-)
Title: Clustering on Network of Samples
Description: Wires together large collections of single-cell RNA-seq datasets, which allows for both the identification of recurrent cell clusters and the propagation of information between datasets in multi-sample or atlas-scale collections. 'Conos' focuses on the uniform mapping of homologous cell types across heterogeneous sample collections. For instance, users could investigate a collection of dozens of peripheral blood samples from cancer patients combined with dozens of controls, which perhaps includes samples of a related tissue such as lymph nodes. This package interacts with data available through the 'conosPanel' package, which is available in a 'drat' repository. To access this data package, see the instructions at <https://github.com/kharchenkolab/conos>. The size of the 'conosPanel' package is approximately 12 MB.
Author: Viktor Petukhov [aut],
Nikolas Barkas [aut],
Peter Kharchenko [aut],
Weiliang Qiu [ctb],
Evan Biederstedt [aut, cre]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between conos versions 1.5.1 dated 2024-01-23 and 1.5.2 dated 2024-02-26
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- README.md | 2 +- src/Makevars | 2 +- src/Makevars.win | 2 +- 5 files changed, 10 insertions(+), 10 deletions(-)
Title: "Risk Model Regression and Analysis with Complex Non-Linear
Models"
Description: Performs survival analysis using general non-linear models. Risk models can be the sum or product of terms. Each term is the product of exponential/linear functions of covariates. Additionally sub-terms can be defined as a sum of exponential, linear threshold, and step functions. Cox Proportional hazards <https://en.wikipedia.org/wiki/Proportional_hazards_model>, Poisson <https://en.wikipedia.org/wiki/Poisson_regression>, and Fine-Grey competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grant 80NSSC19M0161 through a subcontract from the National Council on Radiation Protection and Measurements (NCRP). The computing for this project was performed on the Beocat Research Cluster at Kansas State University, which is funded in part by NSF grants CNS-1006860, EPS-1006860, EPS-0919443, ACI-1440548, CHE-1726332, and NIH P20GM113109.
Author: Eric Giunta [aut, cre] ,
Amir Bahadori [ctb] ,
Dan Andresen [ctb],
Linda Walsh [ctb] ,
Benjamin French [ctb] ,
Lawrence Dauer [ctb],
John Boice Jr [ctb] ,
Kansas State University [cph],
NASA [fnd],
NCRP [fnd],
NRC [fnd]
Maintainer: Eric Giunta <egiunta@ksu.edu>
Diff between Colossus versions 1.0.0 dated 2024-02-20 and 1.0.1 dated 2024-02-26
DESCRIPTION | 9 ++- MD5 | 14 ++--- NEWS.md | 23 ++------- README.md | 7 ++ build/vignette.rds |binary inst/doc/starting-description.html | 2 src/Main_Functions.cpp | 4 - tools/config/configure.R | 89 ++++++++++++++++++++++++++++++++++--- 8 files changed, 110 insertions(+), 38 deletions(-)
Title: Bayesian Dynamic Factor Analysis (DFA) with 'Stan'
Description: Implements Bayesian dynamic factor analysis with 'Stan'. Dynamic
factor analysis is a dimension reduction tool for multivariate time series.
'bayesdfa' extends conventional dynamic factor models in several ways.
First, extreme events may be estimated in the latent trend by modeling
process error with a student-t distribution. Second, alternative constraints
(including proportions are allowed). Third, the estimated
dynamic factors can be analyzed with hidden Markov models to evaluate
support for latent regimes.
Author: Eric J. Ward [aut, cre],
Sean C. Anderson [aut],
Luis A. Damiano [aut],
Michael J. Malick [aut],
Mary E. Hunsicker, [ctb],
Mike A. Litzow [ctb],
Mark D. Scheuerell [ctb],
Elizabeth E. Holmes [ctb],
Nick Tolimieri [ctb],
Trustees of Columbia Universit [...truncated...]
Maintainer: Eric J. Ward <eric.ward@noaa.gov>
Diff between bayesdfa versions 1.3.2 dated 2024-01-12 and 1.3.3 dated 2024-02-26
DESCRIPTION | 10 MD5 | 31 NEWS.md | 4 R/find_regimes.R | 10 inst/doc/a1_bayesdfa.html | 282 inst/doc/a2_combining_data.html | 4 inst/doc/a3_covariates.html | 4 inst/doc/a4_smooth.html | 4 inst/doc/a5_estimate_process_sigma.html | 4 inst/doc/a6_compositional.html | 6 inst/doc/a7_bigdata.html | 4 man/bayesdfa-package.Rd | 29 src/stanExports_corr.h | 647 +- src/stanExports_dfa.h | 9523 +++++++++++++++----------------- src/stanExports_hmm_gaussian.h | 2126 +++---- src/stanExports_regime_1.h | 775 +- tests/testthat/Rplots.pdf |only 17 files changed, 6562 insertions(+), 6901 deletions(-)
Title: Network Analysis of Dependencies of CRAN Packages
Description: The dependencies of CRAN packages can be analysed in a network fashion. For each package we can obtain the packages that it depends, imports, suggests, etc. By iterating this procedure over a number of packages, we can build, visualise, and analyse the dependency network, enabling us to have a bird's-eye view of the CRAN ecosystem. One aspect of interest is the number of reverse dependencies of the packages, or equivalently the in-degree distribution of the dependency network. This can be fitted by the power law and/or an extreme value mixture distribution <arXiv:2008.03073>, of which functions are provided.
Author: Clement Lee [aut, cre]
Maintainer: Clement Lee <clement.lee.tm@outlook.com>
Diff between crandep versions 0.3.5 dated 2024-01-19 and 0.3.6 dated 2024-02-26
DESCRIPTION | 8 +- MD5 | 28 ++++---- NAMESPACE | 4 + NEWS.md | 11 +++ R/RcppExports.R | 4 - R/optim.R | 58 ++++++++++++++++++ inst/doc/cran.html | 64 ++++++++++---------- inst/doc/degree.R | 13 ++++ inst/doc/degree.Rmd | 18 +++++ inst/doc/degree.html | 131 ++++++++++++++++++++++------------------- inst/doc/introduction.html | 6 - man/lpost_pow.Rd |only man/marg_pow.Rd |only src/RcppExports.cpp | 10 +-- src/algo.cpp | 143 +++++++++++++++++++++++++-------------------- vignettes/degree.Rmd | 18 +++++ 16 files changed, 333 insertions(+), 183 deletions(-)
More information about bigrquerystorage at CRAN
Permanent link
Title: Retrieve Data using the API of the 'Pandora' Data Platform
Description: API wrapper that contains functions to retrieve data from the 'Pandora' databases. Web services for API: <https://pandora.earth/>.
Author: Jan Abel [cre],
Antonia Runge [aut],
Andreas Neudecker [aut],
Ricardo Fernandes [aut]
Maintainer: Jan Abel <jan.abel@inwt-statistics.de>
Diff between Pandora versions 23.12.0 dated 2023-12-19 and 24.2.0 dated 2024-02-26
DESCRIPTION | 11 - MD5 | 13 - NEWS.md | 6 inst/doc/how-to-use-pandora-data.Rmd | 1 inst/doc/how-to-use-pandora-data.html | 339 ++++++++++++++++------------------ tests/testthat/helpers.R |only tests/testthat/test-getData.R | 141 ++++++++------ vignettes/how-to-use-pandora-data.Rmd | 1 8 files changed, 269 insertions(+), 243 deletions(-)
Title: Sourcing Archaeological Materials by Chemical Composition
Description: Exploration and analysis of compositional data in the
framework of Aitchison (1986, ISBN: 978-94-010-8324-9). This package
provides tools for chemical fingerprinting and source tracking of
ancient materials.
Author: Nicolas Frerebeau [aut, cre] ,
Anne Philippe [aut] ,
Brice Lebrun [ctb] ,
Arthur Leck [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between nexus versions 0.1.0 dated 2023-11-29 and 0.2.0 dated 2024-02-26
nexus-0.1.0/nexus/inst/doc/bibliography.R |only nexus-0.1.0/nexus/inst/doc/bibliography.Rmd |only nexus-0.1.0/nexus/inst/doc/bibliography.html |only nexus-0.1.0/nexus/man/policy.Rd |only nexus-0.1.0/nexus/vignettes/bibliography.Rmd |only nexus-0.2.0/nexus/DESCRIPTION | 26 nexus-0.2.0/nexus/MD5 | 141 - nexus-0.2.0/nexus/NAMESPACE | 21 nexus-0.2.0/nexus/NEWS.md | 13 nexus-0.2.0/nexus/R/AllClasses.R | 14 nexus-0.2.0/nexus/R/AllGenerics.R | 114 - nexus-0.2.0/nexus/R/coerce.R | 14 nexus-0.2.0/nexus/R/graph.R | 6 nexus-0.2.0/nexus/R/mix.R | 2 nexus-0.2.0/nexus/R/mutators.R | 12 nexus-0.2.0/nexus/R/nexus-package.R | 5 nexus-0.2.0/nexus/R/outliers.R | 42 nexus-0.2.0/nexus/R/plot.R | 138 + nexus-0.2.0/nexus/R/reexport.R | 16 nexus-0.2.0/nexus/R/statistics.R | 88 nexus-0.2.0/nexus/R/subset.R | 19 nexus-0.2.0/nexus/R/transform.R | 50 nexus-0.2.0/nexus/README.md | 29 nexus-0.2.0/nexus/build/vignette.rds |binary nexus-0.2.0/nexus/inst/CITATION | 5 nexus-0.2.0/nexus/inst/doc/nexus.R | 4 nexus-0.2.0/nexus/inst/doc/nexus.Rmd | 30 nexus-0.2.0/nexus/inst/doc/nexus.html | 1060 +++------- nexus-0.2.0/nexus/inst/examples/ex-aggregate.R | 6 nexus-0.2.0/nexus/inst/examples/ex-barplot.R | 4 nexus-0.2.0/nexus/inst/examples/ex-graph.R | 4 nexus-0.2.0/nexus/inst/examples/ex-hist.R |only nexus-0.2.0/nexus/inst/examples/ex-mean.R | 3 nexus-0.2.0/nexus/inst/examples/ex-pca.R | 3 nexus-0.2.0/nexus/inst/examples/ex-split.R |only nexus-0.2.0/nexus/inst/tinytest/_snaps/ilr_base_classic.rds |only nexus-0.2.0/nexus/inst/tinytest/_snaps/outliers.rds |binary nexus-0.2.0/nexus/inst/tinytest/_snaps/quantile.rds |only nexus-0.2.0/nexus/inst/tinytest/_tinysnapshot/plot_barplot.svg | 10 nexus-0.2.0/nexus/inst/tinytest/_tinysnapshot/plot_barplot_group.svg | 262 +- nexus-0.2.0/nexus/inst/tinytest/_tinysnapshot/plot_barplot_order.svg | 10 nexus-0.2.0/nexus/inst/tinytest/_tinysnapshot/plot_barplot_vertical.svg | 10 nexus-0.2.0/nexus/inst/tinytest/_tinysnapshot/plot_hist.svg |only nexus-0.2.0/nexus/inst/tinytest/test_plot.R | 6 nexus-0.2.0/nexus/inst/tinytest/test_statistics.R | 11 nexus-0.2.0/nexus/inst/tinytest/test_transform.R | 3 nexus-0.2.0/nexus/man/CompositionMatrix-class.Rd | 8 nexus-0.2.0/nexus/man/OutlierIndex-class.Rd | 10 nexus-0.2.0/nexus/man/aggregate.Rd | 19 nexus-0.2.0/nexus/man/as_graph.Rd | 5 nexus-0.2.0/nexus/man/barplot.Rd | 15 nexus-0.2.0/nexus/man/covariance.Rd | 1 nexus-0.2.0/nexus/man/dist.Rd | 1 nexus-0.2.0/nexus/man/figures/README-groups-1.png |only nexus-0.2.0/nexus/man/groups.Rd | 1 nexus-0.2.0/nexus/man/hist.Rd |only nexus-0.2.0/nexus/man/identifiers.Rd | 1 nexus-0.2.0/nexus/man/mahalanobis.Rd | 1 nexus-0.2.0/nexus/man/margin.Rd | 1 nexus-0.2.0/nexus/man/mean.Rd | 4 nexus-0.2.0/nexus/man/metric_var.Rd | 4 nexus-0.2.0/nexus/man/missing.Rd |only nexus-0.2.0/nexus/man/nexus-package.Rd | 5 nexus-0.2.0/nexus/man/pca.Rd | 3 nexus-0.2.0/nexus/man/plot.Rd | 1 nexus-0.2.0/nexus/man/plot_logratio.Rd | 1 nexus-0.2.0/nexus/man/quantile.Rd |only nexus-0.2.0/nexus/man/reexports.Rd | 9 nexus-0.2.0/nexus/man/replace_NA.Rd | 8 nexus-0.2.0/nexus/man/replace_zero.Rd | 6 nexus-0.2.0/nexus/man/samples.Rd | 1 nexus-0.2.0/nexus/man/scale.Rd | 1 nexus-0.2.0/nexus/man/split.Rd |only nexus-0.2.0/nexus/man/subset.Rd | 12 nexus-0.2.0/nexus/man/totals.Rd | 1 nexus-0.2.0/nexus/man/transform_ilr.Rd | 11 nexus-0.2.0/nexus/man/variation.Rd | 1 nexus-0.2.0/nexus/vignettes/bibliography.bib | 73 nexus-0.2.0/nexus/vignettes/nexus.Rmd | 30 79 files changed, 1311 insertions(+), 1104 deletions(-)
Title: Fast and Scalable Approximate k-Nearest Neighbor Search Methods
using 'N2' Library
Description: Implements methods to perform fast approximate K-nearest neighbor search on input matrix. Algorithm based on the 'N2' implementation of an approximate nearest neighbor search using hierarchical Navigable Small World (NSW) graphs. The original algorithm is described in "Efficient and Robust Approximate Nearest Neighbor Search Using Hierarchical Navigable Small World Graphs", Y. Malkov and D. Yashunin, <doi:10.1109/TPAMI.2018.2889473>, <arXiv:1603.09320>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
Dirk Eddelbuettel [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between N2R versions 1.0.1 dated 2022-01-18 and 1.0.2 dated 2024-02-26
DESCRIPTION | 7 +++---- MD5 | 12 ++++++------ README.md | 2 +- src/Makevars | 3 +-- src/Makevars.win | 3 +-- src/n2/Makefile | 8 ++++---- src/n2/Makefile.win | 9 ++++----- 7 files changed, 20 insertions(+), 24 deletions(-)
Title: Analysis of Chronological Patterns from Archaeological Count
Data
Description: A toolkit for absolute and relative dating and analysis of
chronological patterns. This package includes functions for
chronological modeling and dating of archaeological assemblages from
count data. It provides methods for matrix seriation. It also allows
to compute time point estimates and density estimates of the
occupation and duration of an archaeological site.
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb] ,
Ben Marwick [ctb] ,
Anne Philippe [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between kairos versions 2.0.2 dated 2023-11-27 and 2.1.0 dated 2024-02-26
kairos-2.0.2/kairos/inst/doc/bibliography.R |only kairos-2.0.2/kairos/inst/doc/bibliography.Rmd |only kairos-2.0.2/kairos/inst/doc/bibliography.html |only kairos-2.0.2/kairos/vignettes/bibliography.Rmd |only kairos-2.1.0/kairos/DESCRIPTION | 18 kairos-2.1.0/kairos/MD5 | 50 kairos-2.1.0/kairos/NAMESPACE | 19 kairos-2.1.0/kairos/NEWS.md | 7 kairos-2.1.0/kairos/R/AllClasses.R | 10 kairos-2.1.0/kairos/R/AllGenerics.R | 12 kairos-2.1.0/kairos/R/kairos-package.R | 6 kairos-2.1.0/kairos/R/reexport.R | 12 kairos-2.1.0/kairos/R/seriate_refine.R | 30 kairos-2.1.0/kairos/README.md | 24 kairos-2.1.0/kairos/build/vignette.rds |binary kairos-2.1.0/kairos/inst/CITATION | 3 kairos-2.1.0/kairos/inst/doc/event.Rmd | 35 kairos-2.1.0/kairos/inst/doc/event.html | 1034 +++++------------- kairos-2.1.0/kairos/inst/doc/seriation.R | 20 kairos-2.1.0/kairos/inst/doc/seriation.Rmd | 49 kairos-2.1.0/kairos/inst/doc/seriation.html | 886 +++++---------- kairos-2.1.0/kairos/man/figures/README-aoristic-2.png |binary kairos-2.1.0/kairos/man/kairos-package.Rd | 5 kairos-2.1.0/kairos/man/reexports.Rd | 5 kairos-2.1.0/kairos/man/seriate_refine.Rd | 17 kairos-2.1.0/kairos/vignettes/bibliography.bib | 128 +- kairos-2.1.0/kairos/vignettes/event.Rmd | 35 kairos-2.1.0/kairos/vignettes/seriation.Rmd | 49 28 files changed, 953 insertions(+), 1501 deletions(-)
Title: Interactive 'ggplot2' Layer and Theme Aesthetic Editor
Description: Interactively edit 'ggplot2' layer and theme aesthetics definitions.
Author: Jonathan Sidi [aut, cre]
Maintainer: Jonathan Sidi <yonicd@gmail.com>
Diff between ggedit versions 0.3.1 dated 2020-06-02 and 0.4.0 dated 2024-02-26
ggedit-0.3.1/ggedit/inst/examples/Module |only ggedit-0.3.1/ggedit/man/grapes-greater-than-grapes.Rd |only ggedit-0.4.0/ggedit/DESCRIPTION | 18 +-- ggedit-0.4.0/ggedit/MD5 | 47 +++---- ggedit-0.4.0/ggedit/NAMESPACE | 9 + ggedit-0.4.0/ggedit/NEWS.md | 66 ++++++----- ggedit-0.4.0/ggedit/R/class_layer.R | 60 ++++------ ggedit-0.4.0/ggedit/R/cloneLayer.R | 13 -- ggedit-0.4.0/ggedit/R/cloneProto.R | 4 ggedit-0.4.0/ggedit/R/clone_facet.R | 107 ++++++++---------- ggedit-0.4.0/ggedit/R/compare.R | 42 +++---- ggedit-0.4.0/ggedit/R/dput.ggedit.R | 6 - ggedit-0.4.0/ggedit/R/fetch_aes_ggplotBuild.R | 20 +-- ggedit-0.4.0/ggedit/R/gg_session.R | 8 - ggedit-0.4.0/ggedit/R/gg_vetting.R | 4 ggedit-0.4.0/ggedit/R/remove_geom.R | 2 ggedit-0.4.0/ggedit/R/rgg.R | 4 ggedit-0.4.0/ggedit/R/utils.R | 4 ggedit-0.4.0/ggedit/README.md | 20 ++- ggedit-0.4.0/ggedit/data/pList.rda |binary ggedit-0.4.0/ggedit/man/cloneLayer.Rd | 4 ggedit-0.4.0/ggedit/man/clone_facet.Rd | 7 - ggedit-0.4.0/ggedit/man/remove_geom.Rd | 2 ggedit-0.4.0/ggedit/man/rgg.Rd | 4 24 files changed, 223 insertions(+), 228 deletions(-)
Title: Tools to Create, Modify and Manage 'CWB' Corpora
Description: The 'Corpus Workbench' ('CWB', <https://cwb.sourceforge.io/>) offers a classic and mature
approach for working with large, linguistically and structurally annotated corpora. The 'CWB'
is memory efficient and its design makes running queries fast, see Evert (2011)
<https://eprints.lancs.ac.uk/id/eprint/62721>. The 'cwbtools' package offers
pure 'R' tools to create indexed corpus files as well as high-level wrappers for the original 'C'
implementation of 'CWB' as exposed by the 'RcppCWB' package
(<https://CRAN.R-project.org/package=RcppCWB>). Additional functionality to add and
modify annotations of corpora from within 'R' makes working with 'CWB' indexed corpora
much more flexible and convenient. The 'cwbtools' package in combination with the 'R' packages
'RcppCWB' (<https://CRAN.R-project.org/package=RcppCWB>) and 'polmineR'
(<https://CRAN.R-project.org/package=polmineR>) offers a lightweight infrastructure
to support the combination of quantitative and qu [...truncated...]
Author: Andreas Blaette [aut, cre],
Christoph Leonhardt [aut]
Maintainer: Andreas Blaette <andreas.blaette@uni-due.de>
Diff between cwbtools versions 0.3.9 dated 2023-11-27 and 0.4.0 dated 2024-02-26
DESCRIPTION | 17 - MD5 | 50 +-- NAMESPACE | 9 NEWS.md | 34 ++ R/CorpusData.R | 231 +++++++++++----- R/corpus.R | 147 ++++++++-- R/cwb.R | 176 ++++++++---- R/cwbtools.R | 21 + R/encode.R |only R/p_attribute.R | 479 ++++++++++++++++++++++----------- R/pkg.R | 2 R/registry_file.R | 10 R/s_attribute.R | 225 +++++++++++---- inst/doc/vignette.R | 252 +++++++++++------ inst/doc/vignette.Rmd | 359 +++++++++++++++--------- inst/doc/vignette.html | 604 ++++++++++++++++++++++-------------------- man/CorpusData.Rd | 65 ++-- man/corpus_utils.Rd | 27 + man/cwb.Rd | 41 +- man/encode.Rd |only man/p_attribute_encode.Rd | 162 ++++++----- man/pkg_utils.Rd | 2 man/registry_file.Rd | 7 man/s_attribute.Rd | 86 +++-- tests/testthat/test_encode.R | 179 ++++++++++-- tests/testthat/test_install.R | 29 +- vignettes/vignette.Rmd | 359 +++++++++++++++--------- 27 files changed, 2365 insertions(+), 1208 deletions(-)
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] ,
Rachel N. Good [aut] ,
Jonathan D. Trattner [aut] ,
S. Alexandra Burt [aut]
Maintainer: S. Mason Garrison <garrissm@wfu.edu>
Diff between BGmisc versions 1.0.1 dated 2023-09-26 and 1.2.0 dated 2024-02-26
BGmisc-1.0.1/BGmisc/R/identification.R |only BGmisc-1.0.1/BGmisc/man/BGmisc_package.Rd |only BGmisc-1.0.1/BGmisc/man/standardize_colnames.Rd |only BGmisc-1.2.0/BGmisc/DESCRIPTION | 49 - BGmisc-1.2.0/BGmisc/MD5 | 153 ++-- BGmisc-1.2.0/BGmisc/NAMESPACE | 11 BGmisc-1.2.0/BGmisc/NEWS.md | 17 BGmisc-1.2.0/BGmisc/R/BGmisc-package.R | 19 BGmisc-1.2.0/BGmisc/R/checkIDs.R |only BGmisc-1.2.0/BGmisc/R/checkSex.R |only BGmisc-1.2.0/BGmisc/R/cleanPedigree.R |only BGmisc-1.2.0/BGmisc/R/convertPedigree.R | 88 +- BGmisc-1.2.0/BGmisc/R/dataDoc.R | 88 +- BGmisc-1.2.0/BGmisc/R/evenInsert.R | 17 BGmisc-1.2.0/BGmisc/R/famSizeCal.R | 9 BGmisc-1.2.0/BGmisc/R/family.R | 124 +++ BGmisc-1.2.0/BGmisc/R/formula.R | 19 BGmisc-1.2.0/BGmisc/R/helpPedigree.R |only BGmisc-1.2.0/BGmisc/R/helper.R | 95 +- BGmisc-1.2.0/BGmisc/R/identifyModel.R |only BGmisc-1.2.0/BGmisc/R/plotPedigree.R | 117 ++- BGmisc-1.2.0/BGmisc/R/simulatePedigree.R | 368 +++++----- BGmisc-1.2.0/BGmisc/R/tweakPedigree.R |only BGmisc-1.2.0/BGmisc/README.md | 53 + BGmisc-1.2.0/BGmisc/build/vignette.rds |binary BGmisc-1.2.0/BGmisc/data/hazard.rda |binary BGmisc-1.2.0/BGmisc/data/inbreeding.rda |binary BGmisc-1.2.0/BGmisc/data/potter.rda |only BGmisc-1.2.0/BGmisc/inst/CITATION |only BGmisc-1.2.0/BGmisc/inst/doc/analyticrelatedness.R | 4 BGmisc-1.2.0/BGmisc/inst/doc/analyticrelatedness.Rmd | 2 BGmisc-1.2.0/BGmisc/inst/doc/analyticrelatedness.html | 2 BGmisc-1.2.0/BGmisc/inst/doc/modelingrelatedness.R | 2 BGmisc-1.2.0/BGmisc/inst/doc/modelingrelatedness.Rmd | 2 BGmisc-1.2.0/BGmisc/inst/doc/modelingrelatedness.html | 14 BGmisc-1.2.0/BGmisc/inst/doc/network.R | 46 - BGmisc-1.2.0/BGmisc/inst/doc/network.Rmd | 131 ++- BGmisc-1.2.0/BGmisc/inst/doc/network.html | 190 +++-- BGmisc-1.2.0/BGmisc/inst/doc/pedigree.R | 18 BGmisc-1.2.0/BGmisc/inst/doc/pedigree.Rmd | 33 BGmisc-1.2.0/BGmisc/inst/doc/pedigree.html | 334 +++++++-- BGmisc-1.2.0/BGmisc/man/BGmisc-package.Rd |only BGmisc-1.2.0/BGmisc/man/SimPed.Rd | 66 - BGmisc-1.2.0/BGmisc/man/adjustKidsPerCouple.Rd |only BGmisc-1.2.0/BGmisc/man/assignCoupleIds.Rd |only BGmisc-1.2.0/BGmisc/man/buildBetweenGenerations.Rd |only BGmisc-1.2.0/BGmisc/man/buildWithinGenerations.Rd |only BGmisc-1.2.0/BGmisc/man/calculateRelatedness.Rd | 128 +-- BGmisc-1.2.0/BGmisc/man/checkIDs.Rd |only BGmisc-1.2.0/BGmisc/man/checkSex.Rd |only BGmisc-1.2.0/BGmisc/man/comp2vech.Rd | 2 BGmisc-1.2.0/BGmisc/man/createGenDataFrame.Rd |only BGmisc-1.2.0/BGmisc/man/determineSex.Rd |only BGmisc-1.2.0/BGmisc/man/dropLink.Rd |only BGmisc-1.2.0/BGmisc/man/evenInsert.Rd | 4 BGmisc-1.2.0/BGmisc/man/fitComponentModel.Rd | 2 BGmisc-1.2.0/BGmisc/man/hazard.Rd | 28 BGmisc-1.2.0/BGmisc/man/identifyComponentModel.Rd | 6 BGmisc-1.2.0/BGmisc/man/inbreeding.Rd | 33 BGmisc-1.2.0/BGmisc/man/inferRelatedness.Rd | 64 - BGmisc-1.2.0/BGmisc/man/makeInbreeding.Rd |only BGmisc-1.2.0/BGmisc/man/makeTwins.Rd |only BGmisc-1.2.0/BGmisc/man/markPotentialChildren.Rd |only BGmisc-1.2.0/BGmisc/man/ped2add.Rd | 7 BGmisc-1.2.0/BGmisc/man/ped2ce.Rd | 2 BGmisc-1.2.0/BGmisc/man/ped2cn.Rd | 6 BGmisc-1.2.0/BGmisc/man/ped2com.Rd | 14 BGmisc-1.2.0/BGmisc/man/ped2graph.Rd | 15 BGmisc-1.2.0/BGmisc/man/ped2maternal.Rd |only BGmisc-1.2.0/BGmisc/man/ped2mit.Rd | 7 BGmisc-1.2.0/BGmisc/man/ped2paternal.Rd |only BGmisc-1.2.0/BGmisc/man/plotPedigree.Rd | 191 ++--- BGmisc-1.2.0/BGmisc/man/potter.Rd |only BGmisc-1.2.0/BGmisc/man/recodeSex.Rd |only BGmisc-1.2.0/BGmisc/man/repairIDs.Rd |only BGmisc-1.2.0/BGmisc/man/repairSex.Rd |only BGmisc-1.2.0/BGmisc/man/resample.Rd |only BGmisc-1.2.0/BGmisc/man/simulatePedigree.Rd | 106 +- BGmisc-1.2.0/BGmisc/man/standardizeColnames.Rd |only BGmisc-1.2.0/BGmisc/man/vech.Rd | 2 BGmisc-1.2.0/BGmisc/tests/testthat.R | 24 BGmisc-1.2.0/BGmisc/tests/testthat/Rplots.pdf |only BGmisc-1.2.0/BGmisc/tests/testthat/test-BGmisc-package.R | 6 BGmisc-1.2.0/BGmisc/tests/testthat/test-checkIDs.R |only BGmisc-1.2.0/BGmisc/tests/testthat/test-checkSex.R |only BGmisc-1.2.0/BGmisc/tests/testthat/test-evenInsert.R |only BGmisc-1.2.0/BGmisc/tests/testthat/test-famSizeCal.R |only BGmisc-1.2.0/BGmisc/tests/testthat/test-helper.R |only BGmisc-1.2.0/BGmisc/tests/testthat/test-ident.R | 34 BGmisc-1.2.0/BGmisc/tests/testthat/test-network.R | 21 BGmisc-1.2.0/BGmisc/tests/testthat/test-pedigreesim.R | 40 + BGmisc-1.2.0/BGmisc/tests/testthat/test-relatedness-functions.R | 29 BGmisc-1.2.0/BGmisc/tests/testthat/test-tweakPedigree.R |only BGmisc-1.2.0/BGmisc/vignettes/analyticrelatedness.Rmd | 2 BGmisc-1.2.0/BGmisc/vignettes/modelingrelatedness.Rmd | 2 BGmisc-1.2.0/BGmisc/vignettes/network.Rmd | 131 ++- BGmisc-1.2.0/BGmisc/vignettes/pedigree.Rmd | 33 97 files changed, 1954 insertions(+), 1056 deletions(-)
Title: Regularized Linear Modeling with Tidy Data
Description: An extension to the 'R' tidy data environment for automated machine learning. The package allows fitting and cross validation of linear regression and classification algorithms on grouped data.
Author: Johann Pfitzinger [aut, cre]
Maintainer: Johann Pfitzinger <johann.pfitzinger@gmail.com>
Diff between tidyfit versions 0.6.5 dated 2023-11-20 and 0.7.0 dated 2024-02-26
DESCRIPTION | 22 +- MD5 | 91 +++++---- NAMESPACE | 8 NEWS.md | 11 + R/check_explain_method.R |only R/check_method.R | 26 +- R/check_package_name.R | 2 R/classify.R | 2 R/coef.tidyfit.models.R | 12 - R/coef_methods.R | 6 R/eval_metrics.R | 7 R/explain.R |only R/explain.tidyfit.models.R |only R/explain_methods.R |only R/fit.anova.R |only R/fit.gets.R | 4 R/fit.glmm.R | 19 + R/fit.lm.R | 2 R/fit.nnet.R |only R/fit.quantile.R | 2 R/fit.quantile_rf.R | 5 R/fit.rf.R | 35 --- R/fit.svm.R | 13 - R/fit_groups.R | 2 R/generics.R | 5 R/m.R | 10 - R/model_definition.R | 76 +++++++ R/post_process.R | 6 R/predict.tidyfit.models.R | 22 +- R/predict_methods.R | 1 R/regress.R | 2 R/residuals.tidyfit.models.R | 12 - R/utils.R | 22 -- README.md | 44 +++- inst/doc/Accessing_Fitted_Model_Objects.html | 96 ++++----- inst/doc/Feature_Selection.R | 10 - inst/doc/Feature_Selection.Rmd | 10 - inst/doc/Feature_Selection.html | 10 - inst/doc/Predicting_Boston_House_Prices.html | 200 ++++++++++---------- inst/doc/Rolling_Window_Time_Series_Regression.html | 40 ++-- man/dot-fit.anova.Rd |only man/dot-fit.nnet.Rd |only man/dot-fit.quantile_rf.Rd | 2 man/dot-fit.rf.Rd | 2 man/explain.Rd |only man/explain.tidyfit.models.Rd |only man/figures/README-unnamed-chunk-14-1.png |binary man/m.Rd | 4 tests/testthat/test-quantile_rf.R | 2 tests/testthat/test-rf.R | 8 tests/testthat/test-svm.R |only vignettes/Feature_Selection.Rmd | 10 - 52 files changed, 499 insertions(+), 364 deletions(-)
More information about sanketphonetictranslator at CRAN
Permanent link
Title: Inference and Prediction of Generic Physiologically-Based
Kinetic Models
Description: Fit and simulate any kind of
physiologically-based kinetic ('PBK') models whatever the number of compartments.
Moreover, it allows to account for any link between pairs of compartments, as
well as any link of each of the compartments with the external medium. Such
generic PBK models have today applications in pharmacology (PBPK models) to
describe drug effects, in toxicology and ecotoxicology (PBTK models) to describe
chemical substance effects. In case of exposure to a parent compound (drug or
chemical) the 'rPBK' package allows to consider metabolites, whatever their number
and their phase (I, II, ...). Last but not least, package 'rPBK' can also be used for
dynamic flux balance analysis (dFBA) to deal with metabolic networks. See also
Charles et al. (2022) <doi:10.1101/2022.04.29.490045>.
Author: Virgile Baudrot [aut, cre],
Sandrine Charles [aut],
Christelle Lopes [aut],
Ophelia Gestin [ctb],
Dominique Lamonica [ctb],
Aurelie Siberchicot [ctb]
Maintainer: Virgile Baudrot <virgile.baudrot@qonfluens.com>
Diff between rPBK versions 0.2.3 dated 2024-02-01 and 0.2.4 dated 2024-02-26
DESCRIPTION | 10 +-- MD5 | 8 +- R/rPBK-package.R | 8 +- README.md | 1 inst/doc/Examples.html | 136 +++++++++++++++++++++++++------------------------ 5 files changed, 84 insertions(+), 79 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-22 0.1.0
Title: Truncated Exponential Family
Description: Handles truncated members from the exponential family of
probability distributions. Contains functions such as rtruncnorm() and
dtruncpois(), which are truncated versions of rnorm() and dpois() from the
stats package that also offer richer output containing, for example, the
distribution parameters. It also provides functions to retrieve the original
distribution parameters from a truncated sample by maximum-likelihood
estimation.
Author: Rene Holst [aut],
Waldir Leoncio [cre, aut]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between TruncExpFam versions 1.1.0 dated 2023-11-14 and 1.1.1 dated 2024-02-26
DESCRIPTION | 8 - MD5 | 16 +- NEWS.md | 4 R/a_rtrunc.R | 2 R/rtrunc_direct.R | 222 +++++++++++++++++++------------ inst/doc/Sampling_and_ML_estimation.html | 2 man/TruncExpFam.Rd | 2 man/rtrunc.Rd | 4 tests/testthat/test-direct-sampling.R | 24 +-- 9 files changed, 174 insertions(+), 110 deletions(-)
Title: An R Interface for Downloading, Reading, and Handling IPUMS Data
Description: An easy way to work with census, survey, and geographic data
provided by IPUMS in R. Generate and download data through the IPUMS
API and load IPUMS files into R with their associated metadata to
make analysis easier. IPUMS data describing 1.4 billion individuals
drawn from over 750 censuses and surveys is available free of charge
from the IPUMS website <https://www.ipums.org>.
Author: Greg Freedman Ellis [aut],
Derek Burk [aut, cre],
Finn Roberts [aut],
Joe Grover [ctb],
Dan Ehrlich [ctb],
Renae Rodgers [ctb],
Institute for Social Research and Data Innovation [cph]
Maintainer: Derek Burk <ipums+cran@umn.edu>
Diff between ipumsr versions 0.7.0 dated 2023-10-20 and 0.7.1 dated 2024-02-26
DESCRIPTION | 10 MD5 | 91 +++--- NEWS.md | 4 R/api_process_extract.R | 2 R/micro_read_chunked.R | 36 +- R/viewer.R | 6 README.md | 318 ++++++++++++++++++--- inst/doc/ipums-api-micro.R | 6 inst/doc/ipums-api-micro.Rmd | 17 - inst/doc/ipums-api-micro.html | 26 - inst/doc/ipums-api-nhgis.R | 36 +- inst/doc/ipums-api-nhgis.Rmd | 76 ++--- inst/doc/ipums-api-nhgis.html | 138 ++++----- inst/doc/ipums-api.R | 10 inst/doc/ipums-api.Rmd | 26 - inst/doc/ipums-api.html | 28 - inst/doc/ipums-bigdata.R | 93 ++---- inst/doc/ipums-bigdata.Rmd | 57 +-- inst/doc/ipums-bigdata.html | 113 +++++-- inst/doc/ipums-read.R | 1 inst/doc/ipums-read.Rmd | 76 ++--- inst/doc/ipums-read.html | 127 +++----- inst/doc/ipums.R | 7 inst/doc/ipums.Rmd | 129 +++++--- inst/doc/ipums.html | 204 +++++++------- inst/doc/value-labels.R | 2 inst/doc/value-labels.Rmd | 39 +- inst/doc/value-labels.html | 109 +++---- man/figures/check-solid.svg |only man/figures/logo-square_cps_50x50.png |only man/figures/logo-square_global-health_50x50.png |only man/figures/logo-square_health-surveys_50x50.png |only man/figures/logo-square_higher-ed_50x50.png |only man/figures/logo-square_ihgis_50x50.png |only man/figures/logo-square_international_50x50.png |only man/figures/logo-square_nhgis50x50.png |only man/figures/logo-square_time-use_50x50.png |only man/figures/logo-square_usa_50x50.png |only man/ipums_callback.Rd | 335 ----------------------- man/read_ipums_micro_chunked.Rd | 36 +- man/read_ipums_micro_yield.Rd | 88 ------ tests/testthat/test_api_helpers.R | 6 tests/testthat/test_api_process_extract.R | 6 tests/testthat/test_nhgis.R | 2 vignettes/cps_select_data.jpg |only vignettes/ipums-api-micro.Rmd | 17 - vignettes/ipums-api-nhgis.Rmd | 76 ++--- vignettes/ipums-api.Rmd | 26 - vignettes/ipums-bigdata.Rmd | 57 +-- vignettes/ipums-read.Rmd | 76 ++--- vignettes/ipums.Rmd | 129 +++++--- vignettes/value-labels.Rmd | 39 +- 52 files changed, 1245 insertions(+), 1435 deletions(-)
Title: Co-Correspondence Analysis Methods
Description: Fits predictive and symmetric co-correspondence analysis (CoCA) models to relate one data matrix to another data matrix. More specifically, CoCA maximises the weighted covariance between the weighted averaged species scores of one community and the weighted averaged species scores of another community. CoCA attempts to find patterns that are common to both communities.
Author: Original Matlab routines by C.J.F. ter Braak and A.P. Schaffers. R port by Gavin L. Simpson.
Function simpls based on simpls.fit by Ron Wehrens and Bjorn-Helge Mevik.
Maintainer: Gavin L. Simpson <ucfagls@gmail.com>
Diff between cocorresp versions 0.4-3 dated 2021-05-07 and 0.4-4 dated 2024-02-26
DESCRIPTION | 10 +-- MD5 | 28 ++++---- R/mcChi.R | 2 README.md | 3 build/vignette.rds |binary data/beetles.rda |binary data/bryophyte.rda |binary data/plants.rda |binary data/vascular.rda |binary inst/CITATION | 20 +++--- inst/ChangeLog | 4 + inst/doc/cocorresp-intro.html | 108 +++++++++++++--------------------- man/cocorresp-internal.Rd | 9 -- man/permutest.coca.Rd | 4 - tests/Examples/cocorresp-Ex.Rout.save | 20 +++--- 15 files changed, 91 insertions(+), 117 deletions(-)
Title: Polygon and Path Transformations
Description: In order to smoothly animate the transformation of polygons and
paths, many aspects needs to be taken into account, such as differing number
of control points, changing center of rotation, etc. The 'transformr'
package provides an extensive framework for manipulating the shapes of
polygons and paths and can be seen as the spatial brother to the 'tweenr'
package.
Author: Thomas Lin Pedersen [cre, aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between transformr versions 0.1.4 dated 2022-08-18 and 0.1.5 dated 2024-02-26
transformr-0.1.4/transformr/src/Makevars |only transformr-0.1.5/transformr/DESCRIPTION | 9 +++---- transformr-0.1.5/transformr/MD5 | 13 ++++------ transformr-0.1.5/transformr/NAMESPACE | 3 ++ transformr-0.1.5/transformr/NEWS.md | 4 +++ transformr-0.1.5/transformr/R/tween_sf.R | 29 +++++++++++++++++++++--- transformr-0.1.5/transformr/src/align_rings.cpp | 2 - transformr-0.1.5/transformr/src/sf_packing.cpp | 12 ++++----- 8 files changed, 49 insertions(+), 23 deletions(-)
Title: Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'
Description: Plot 'rpart' models. Extends plot.rpart() and text.rpart()
in the 'rpart' package.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between rpart.plot versions 3.1.1 dated 2022-05-21 and 3.1.2 dated 2024-02-26
rpart.plot-3.1.1/rpart.plot/NEWS |only rpart.plot-3.1.2/rpart.plot/DESCRIPTION | 6 - rpart.plot-3.1.2/rpart.plot/MD5 | 58 +++++----- rpart.plot-3.1.2/rpart.plot/NEWS.md |only rpart.plot-3.1.2/rpart.plot/R/as.char.R | 8 - rpart.plot-3.1.2/rpart.plot/R/lib.R | 2 rpart.plot-3.1.2/rpart.plot/R/lib.rpart.plot.R | 6 - rpart.plot-3.1.2/rpart.plot/R/node.labs.R | 12 +- rpart.plot-3.1.2/rpart.plot/R/palette.R | 28 ++-- rpart.plot-3.1.2/rpart.plot/R/prp.R | 2 rpart.plot-3.1.2/rpart.plot/R/rpart.rules.R | 20 +-- rpart.plot-3.1.2/rpart.plot/R/split.labs.R | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/make.bat | 46 +++---- rpart.plot-3.1.2/rpart.plot/inst/slowtests/makeclean.bat | 6 - rpart.plot-3.1.2/rpart.plot/inst/slowtests/rpart.report.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.describe.col.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.imports.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.na.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.palette.Rout.save | 1 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.palette.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.rpart.plot.Rout.save | 36 ++---- rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.rpart.plot.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.rpart.rules.Rout.save | 1 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.rpart.rules.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/test.type5.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/usersplits.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/vignette.Rout.save | 3 rpart.plot-3.1.2/rpart.plot/inst/slowtests/vignette.bat | 2 rpart.plot-3.1.2/rpart.plot/inst/slowtests/webpage.figs.Rout.save | 1 rpart.plot-3.1.2/rpart.plot/inst/slowtests/webpage.figs.bat | 2 rpart.plot-3.1.2/rpart.plot/man/prp.Rd | 2 31 files changed, 129 insertions(+), 133 deletions(-)
Title: Some Useful Functions for Statistics and Visualization
Description: Offers a range of utilities and functions for everyday programming tasks.
1.Data Manipulation. Such as grouping and merging, column splitting, and character expansion.
2.File Handling. Read and convert files in popular formats, including "blast", "diamond", "fasta", "gff", "gtf", and various image formats like "jpg", "png", "pdf", and "svg".
3.Plotting Assistance. Helpful utilities for generating color palettes, validating color formats, and adding transparency.
4.Statistical Analysis. Includes functions for pairwise comparisons and multiple testing corrections,
enabling perform statistical analyses with ease.
5.Graph Plotting, Provides efficient tools for creating doughnut plot and multi-layered doughnut plot;
Venn diagrams, including traditional Venn diagrams, upset plots, and flower plots;
Simplified functions for creating stacked bar plots, or a box plot with alphabets group for multiple comparison group.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <pengchen2001@zju.edu.cn>
Diff between pcutils versions 0.2.0 dated 2024-01-09 and 0.2.3 dated 2024-02-26
pcutils-0.2.0/pcutils/man/DNA_plot.Rd |only pcutils-0.2.0/pcutils/man/Olympic_rings.Rd |only pcutils-0.2.0/pcutils/man/chunlian.Rd |only pcutils-0.2.0/pcutils/man/ggheatmap.Rd |only pcutils-0.2.0/pcutils/man/give_you_a_rose.Rd |only pcutils-0.2.0/pcutils/man/tax_wordcloud.Rd |only pcutils-0.2.0/pcutils/man/triangp.Rd |only pcutils-0.2.3/pcutils/DESCRIPTION | 29 pcutils-0.2.3/pcutils/MD5 | 48 - pcutils-0.2.3/pcutils/NAMESPACE | 20 pcutils-0.2.3/pcutils/R/l_tools.R | 310 ++++++--- pcutils-0.2.3/pcutils/R/pcutils-package.R | 3 pcutils-0.2.3/pcutils/R/plots.R | 583 ++++-------------- pcutils-0.2.3/pcutils/R/project.R | 394 +++++++++++- pcutils-0.2.3/pcutils/data/otutab.rda |binary pcutils-0.2.3/pcutils/inst/doc/pcutils.R | 2 pcutils-0.2.3/pcutils/inst/doc/pcutils.Rmd | 2 pcutils-0.2.3/pcutils/inst/doc/pcutils.html | 9 pcutils-0.2.3/pcutils/man/download2.Rd | 7 pcutils-0.2.3/pcutils/man/gghuan2.Rd | 12 pcutils-0.2.3/pcutils/man/ggplot_translator.Rd |only pcutils-0.2.3/pcutils/man/gsub.data.frame.Rd | 2 pcutils-0.2.3/pcutils/man/how_to_set_font_for_plot.Rd |only pcutils-0.2.3/pcutils/man/plotgif.Rd | 6 pcutils-0.2.3/pcutils/man/prepare_package.Rd |only pcutils-0.2.3/pcutils/man/read.file.Rd | 13 pcutils-0.2.3/pcutils/man/split_text.Rd |only pcutils-0.2.3/pcutils/man/tidai.Rd | 8 pcutils-0.2.3/pcutils/man/translator.Rd | 16 pcutils-0.2.3/pcutils/man/update_NEWS_md.Rd |only pcutils-0.2.3/pcutils/vignettes/pcutils.Rmd | 2 31 files changed, 824 insertions(+), 642 deletions(-)
Title: Data Analysis for Censored Environmental Data
Description: Contains methods described by Dennis Helsel in
his book "Statistics for Censored Environmental Data
using Minitab and R" (2011) and courses and videos at
<https://practicalstats.com>. This package adds new functions to
the `NADA` Package.
Author: Paul Julian [aut, cre],
Dennis Helsel [aut, cph]
Maintainer: Paul Julian <pauljulianphd@gmail.com>
Diff between NADA2 versions 1.1.5 dated 2023-10-20 and 1.1.6 dated 2024-02-26
DESCRIPTION | 8 +- MD5 | 22 +++--- NEWS.md | 12 +++ R/Pollen_Thia.R | 4 - R/cen1way.R | 4 - R/cfit.R | 125 +++++++++++++++++++---------------- build/partial.rdb |binary inst/doc/Censored_Data_Analysis.Rmd | 2 inst/doc/Censored_Data_Analysis.html | 96 +++++++++++++------------- man/Pollen_Thia.Rd | 5 - man/cfit.Rd | 19 ++--- vignettes/Censored_Data_Analysis.Rmd | 2 12 files changed, 158 insertions(+), 141 deletions(-)
Title: Add Vector Field Layers to Ggplots
Description: Add vector field layers to ggplots. Ideal for visualising
wind speeds, water currents, electric/magnetic fields, etc.
Accepts data.frames, simple features (sf), and spatiotemporal arrays (stars)
objects as input. Vector fields are depicted as arrows starting at specified
locations, and with specified angles and radii.
Author: Pepijn de Vries [aut, cre]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between ggfields versions 0.0.3 dated 2024-02-02 and 0.0.6 dated 2024-02-26
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- NEWS.md | 6 ++++++ R/angle_correction.r | 32 ++++++++++++++++++++------------ README.md | 6 +++--- man/angle_correction.Rd | 32 ++++++++++++++++++++------------ man/figures/README-map-1.svg | 2 +- man/ggfields-package.Rd | 2 +- 8 files changed, 64 insertions(+), 42 deletions(-)
Title: Fixed Rank Kriging
Description: A tool for spatial/spatio-temporal modelling and prediction with large datasets. The approach models the field, and hence the covariance function, using a set of basis functions. This fixed-rank basis-function representation facilitates the modelling of big data, and the method naturally allows for non-stationary, anisotropic covariance functions. Discretisation of the spatial domain into so-called basic areal units (BAUs) facilitates the use of observations with varying support (i.e., both point-referenced and areal supports, potentially simultaneously), and prediction over arbitrary user-specified regions. `FRK` also supports inference over various manifolds, including the 2D plane and 3D sphere, and it provides helper functions to model, fit, predict, and plot with relative ease. Version 2.0.0 and above also supports the modelling of non-Gaussian data (e.g., Poisson, binomial, negative-binomial, gamma, and inverse-Gaussian) by employing a generalised linear mixed model (GLMM) framew [...truncated...]
Author: Andrew Zammit-Mangion [aut, cre],
Matthew Sainsbury-Dale [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 2.2.1 dated 2024-01-09 and 2.2.2 dated 2024-02-26
FRK-2.2.1/FRK/vignettes/FRK_intro.fdb_latexmk |only FRK-2.2.1/FRK/vignettes/FRK_intro.fls |only FRK-2.2.2/FRK/DESCRIPTION | 8 +- FRK-2.2.2/FRK/MD5 | 26 +++----- FRK-2.2.2/FRK/data/AIRS_05_2003.rda |binary FRK-2.2.2/FRK/data/Am_data.rda |binary FRK-2.2.2/FRK/data/MODIS_cloud_df.rda |binary FRK-2.2.2/FRK/data/NOAA_df_1990.rda |binary FRK-2.2.2/FRK/data/isea3h.rda |binary FRK-2.2.2/FRK/data/worldmap.rda |binary FRK-2.2.2/FRK/inst/doc/FRK_intro.R | 82 ++++++++++++++++++-------- FRK-2.2.2/FRK/inst/doc/FRK_intro.Rnw | 82 ++++++++++++++++++-------- FRK-2.2.2/FRK/inst/doc/FRK_intro.pdf |binary FRK-2.2.2/FRK/inst/doc/FRK_non-Gaussian.pdf |binary FRK-2.2.2/FRK/vignettes/FRK_intro.Rnw | 82 ++++++++++++++++++-------- 15 files changed, 190 insertions(+), 90 deletions(-)
Title: Datasets for Teaching Archaeology and Paleontology
Description: Datasets for teaching quantitative approaches and modeling in
archaeology and paleontology. This package provides several types of
data related to broad topics (cultural evolution, radiocarbon dating,
paleoenvironments, etc.), which can be used to illustrate statistical
methods in the classroom (multivariate data analysis, compositional
data analysis, diversity measurement, etc.).
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between folio versions 1.3.0 dated 2022-10-31 and 1.4.0 dated 2024-02-26
DESCRIPTION | 50 +++++++-------- MD5 | 85 +++++++++++++------------ NEWS.md | 5 + R/artefacts.R | 32 ++++----- R/carbon.R | 54 ++++++++-------- R/chemical.R | 113 +++++++++++++++++----------------- R/chronology.R | 14 ++-- R/counts.R | 167 +++++++++++++++++++++++---------------------------- R/folio-internal.R |only R/folio-package.R | 2 R/isotopes.R | 139 ++++++++++++++++++++++++++---------------- README.md | 38 ++++++++++- build/partial.rdb |binary data/intcal09.rda |binary data/kommos.rda |binary data/nydal1996.rda |binary data/vegetation.rda |only data/verre.rda |binary inst/CITATION | 24 ++----- man/arnold1949.Rd | 18 ++--- man/birds.Rd | 2 man/boves.Rd | 17 ----- man/chevelon.Rd | 22 +++--- man/compiegne.Rd | 40 ++++++------ man/epica2008.Rd | 6 - man/folio-package.Rd | 3 man/intcal09.Rd | 12 +-- man/intcal13.Rd | 12 +-- man/intcal20.Rd | 12 +-- man/kommos.Rd | 48 +++++++------- man/law2006.Rd | 18 ++--- man/lisiecki2005.Rd | 11 +-- man/loire.Rd | 16 ++-- man/merzbach.Rd | 3 man/mississippi.Rd | 22 +++--- man/munsingen.Rd | 2 man/ngrip2004.Rd | 9 +- man/ngrip2010.Rd | 13 ++- man/nydal1996.Rd | 15 ++-- man/shipwrecks.Rd | 30 ++++----- man/spratt2016.Rd | 45 +++++++------ man/stratigraphy.Rd | 14 ++-- man/vegetation.Rd |only man/verre.Rd | 65 ++++++++++--------- man/zuni.Rd | 41 ++++++------ 45 files changed, 630 insertions(+), 589 deletions(-)
Title: 'Shiny' Application for R Package 'fitODBOD'
Description: For binomial outcome data Alternate Binomial Distributions
and Binomial Mixture Distributions are fitted when overdispersion is
available.
Author: Amalan Mahendran [cre, aut]
Maintainer: Amalan Mahendran <amalan0595@gmail.com>
Diff between fitODBODRshiny versions 1.0.0 dated 2024-02-09 and 1.0.1 dated 2024-02-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/All_Plots.R | 3 ++- man/All_Plots.Rd | 3 ++- 4 files changed, 11 insertions(+), 9 deletions(-)
More information about fitODBODRshiny at CRAN
Permanent link
Title: Visualising and Interpreting Statistical Models Fit to
Compositional Data
Description: Statistical models fit to compositional data are often difficult to interpret due to the sum to 1 constraint on data variables. 'DImodelsVis' provides novel visualisations tools to aid with the interpretation of models fit to compositional data. All visualisations in the package are created using the 'ggplot2' plotting framework and can be extended like every other 'ggplot' object.
Author: Rishabh Vishwakarma [aut, cre]
,
Caroline Brophy [aut],
Laura Byrne [aut],
Catherine Hurley [aut]
Maintainer: Rishabh Vishwakarma <vishwakr@tcd.ie>
Diff between DImodelsVis versions 1.0.0 dated 2024-02-19 and 1.0.1 dated 2024-02-26
DImodelsVis-1.0.0/DImodelsVis/man/figures/DImodelsVis_workflow_package.png |only DImodelsVis-1.0.1/DImodelsVis/DESCRIPTION | 6 DImodelsVis-1.0.1/DImodelsVis/MD5 | 58 +++---- DImodelsVis-1.0.1/DImodelsVis/NEWS.md | 5 DImodelsVis-1.0.1/DImodelsVis/R/ConditionalTernary.R | 14 + DImodelsVis-1.0.1/DImodelsVis/R/DImodelsVis-package.R | 8 - DImodelsVis-1.0.1/DImodelsVis/R/GradientChange.R | 59 +++++-- DImodelsVis-1.0.1/DImodelsVis/R/GroupedTernary.R | 64 +------- DImodelsVis-1.0.1/DImodelsVis/R/ModelDiagnostics.R | 18 +- DImodelsVis-1.0.1/DImodelsVis/R/PredictionContributions.R | 23 +-- DImodelsVis-1.0.1/DImodelsVis/R/SanityChecks.R | 6 DImodelsVis-1.0.1/DImodelsVis/R/SimplexPath.R | 47 +++--- DImodelsVis-1.0.1/DImodelsVis/R/Ternary.R | 37 ++--- DImodelsVis-1.0.1/DImodelsVis/R/Utilities.R | 13 - DImodelsVis-1.0.1/DImodelsVis/R/VisualiseEffects.R | 58 ++++--- DImodelsVis-1.0.1/DImodelsVis/README.md | 61 +------- DImodelsVis-1.0.1/DImodelsVis/inst/WORDLIST | 1 DImodelsVis-1.0.1/DImodelsVis/inst/doc/DImodelsVis-with-complex-models.html | 74 ++++------ DImodelsVis-1.0.1/DImodelsVis/man/DImodelsVis-package.Rd | 8 - DImodelsVis-1.0.1/DImodelsVis/man/figures/DImodelsVisWorkflowPackage.png |only DImodelsVis-1.0.1/DImodelsVis/man/figures/README-cond-ternary-1.png |binary DImodelsVis-1.0.1/DImodelsVis/man/figures/README-effects-plot-1.png |binary DImodelsVis-1.0.1/DImodelsVis/man/figures/README-model-diagnostics-1.png |binary DImodelsVis-1.0.1/DImodelsVis/man/figures/README-simplex-path-1.png |binary DImodelsVis-1.0.1/DImodelsVis/man/gradient_change.Rd | 8 + DImodelsVis-1.0.1/DImodelsVis/man/gradient_change_plot.Rd | 27 ++- DImodelsVis-1.0.1/DImodelsVis/man/simplex_path.Rd | 4 DImodelsVis-1.0.1/DImodelsVis/man/simplex_path_plot.Rd | 19 +- DImodelsVis-1.0.1/DImodelsVis/man/ternary_plot.Rd | 23 +-- DImodelsVis-1.0.1/DImodelsVis/man/visualise_effects.Rd | 4 DImodelsVis-1.0.1/DImodelsVis/man/visualise_effects_plot.Rd | 14 + 31 files changed, 311 insertions(+), 348 deletions(-)
Title: Read and Write Data
Description: Offers a wide range of functions for reading and writing data in various file formats,
including CSV, RDS, Excel and ZIP files.
Additionally, it provides functions for retrieving metadata associated with files,
such as file size and creation date, making it easy to manage and organize large data sets.
This package is designed to simplify data import and export tasks,
and provide users with a comprehensive set of tools to work with different types of data files.
Author: Tomer Iwan [aut, cre, cph]
Maintainer: Tomer Iwan <t.iwan@vu.nl>
Diff between vvmover versions 1.5.10 dated 2023-02-01 and 1.6.0 dated 2024-02-26
DESCRIPTION | 12 ++- LICENSE | 4 - MD5 | 54 ++++++++++----- NAMESPACE | 26 ++++--- R/add_current_datetime_column.R |only R/calculate_na_percentage.R |only R/check_installed_package.R | 58 +++++++++-------- R/get_recent_file.R | 60 ++++++++--------- R/get_recent_file_date_filename_ymd.R | 61 ++++++++---------- R/get_recent_file_date_modified.R | 105 +++++++++++++++---------------- R/is_field_subset.R |only R/move_files_pattern.R | 58 ++++++++--------- R/print_last_modified.R | 11 +++ R/random_string_vector.R |only R/read_excel_allsheet.R | 44 ++++++------ R/save_session_info_to_file.R |only R/unzip_read_delim.R | 105 +++++++++++++++---------------- R/utils-pipe.R |only README.md | 91 +++++++++++++------------- man/add_current_datetime_column.Rd |only man/calculate_na_percentage.Rd |only man/check_installed_package.Rd | 48 +++++++------- man/figures/hex-vvmover.png |only man/get_last_modifed_date.Rd |only man/get_recent_file.Rd | 62 +++++++++--------- man/get_recent_file_date_filename_ymd.Rd | 54 +++++++-------- man/get_recent_file_date_modified.Rd | 68 ++++++++++---------- man/is_field_subset.Rd |only man/move_files_pattern.Rd | 46 ++++++------- man/pipe.Rd |only man/print_last_modified.Rd | 42 ++++++------ man/random_string_vector.Rd |only man/read_excel_allsheets.Rd | 42 ++++++------ man/save_session_info_to_file.Rd |only man/unzip_read_delim.Rd | 50 +++++++------- 35 files changed, 571 insertions(+), 530 deletions(-)
Title: Creates Assertion Tests
Description: Offers a comprehensive set of assertion tests to help users validate the integrity of their data.
These tests can be used to check for specific conditions or properties within a dataset and
help ensure that data is accurate and reliable.
The package is designed to make it easy to add quality control checks to data analysis
workflows and to aid in identifying and correcting any errors or inconsistencies in data.
Author: Tomer Iwan [aut, cre, cph]
Maintainer: Tomer Iwan <t.iwan@vu.nl>
Diff between vvauditor versions 0.5.8 dated 2023-02-01 and 0.6.0 dated 2024-02-26
DESCRIPTION | 12 ++- LICENSE | 4 - MD5 | 122 +++++++++++++++++++++++++-------- NAMESPACE | 65 +++++++++++++---- R/Check_rows.R | 37 ++++------ R/Count_more_than_1.R | 32 ++++---- R/Drop_NA_column_names.R | 22 ++--- R/assert_date_named.R |only R/assert_logical_named.R |only R/assert_message.R |only R/assert_no_duplicates_in_group.R |only R/check_double_columns.R | 52 +++++++------- R/check_duplicates.R |only R/check_no_duplicate_rows.R |only R/check_no_duplicates_in_group.R |only R/check_numeric_or_integer_type.R |only R/check_posixct_type.R |only R/create_dataset_summary_table.R |only R/duplicates_in_column.R | 63 ++++++++--------- R/find_common_columns.R |only R/find_pattern_r.R | 30 ++++---- R/get_values.R | 50 ++++++------- R/identify_join_pairs.R |only R/identify_outliers.R |only R/md_complete_cases.R | 48 ++++++------ R/regex_content_parameter.R |only R/regex_time.R |only R/regex_year_date.R |only R/remove_duplicates_and_na.R |only R/retrieve_function_calls.R |only R/retrieve_functions_and_packages.R | 48 ++++++------ R/retrieve_package_usage.R |only R/retrieve_sourced_scripts.R |only R/retrieve_string_assignments.R |only R/return_assertions_message.R |only R/str_detect_in_file.R | 70 +++++++++--------- R/test_all_equal.R | 40 +++++----- R/unique_id.R | 58 +++++++-------- README.md | 79 +++++++++++++-------- build |only inst |only man/assert_date_named.Rd |only man/assert_logical_named.Rd |only man/assert_no_duplicates_in_group.Rd |only man/assertion_message.Rd |only man/calculate_category_percentages.Rd |only man/check_double_columns.Rd | 65 +++++++++-------- man/check_duplicates.Rd |only man/check_na_columns.Rd |only man/check_no_duplicate_rows.Rd |only man/check_no_duplicates_in_group.Rd |only man/check_non_zero_rows.Rd |only man/check_numeric_or_integer_type.Rd |only man/check_posixct_type.Rd |only man/check_rows.Rd | 49 ++++++------- man/check_zero_columns.Rd |only man/count_more_than_1.Rd | 48 ++++++------ man/create_dataset_summary_table.Rd |only man/drop_na_column_names.Rd | 34 ++++----- man/duplicates_in_column.Rd | 61 ++++++++-------- man/figures |only man/find_common_columns.Rd |only man/find_maximum_value.Rd |only man/find_minimum_value.Rd |only man/find_pattern_r.Rd | 46 ++++++------ man/get_distribution_statistics.Rd |only man/get_first_element_class.Rd |only man/get_values.Rd | 47 ++++++------ man/identify_join_pairs.Rd |only man/identify_outliers.Rd |only man/is_unique_column.Rd |only man/md_complete_cases.Rd | 54 +++++++------- man/regex_content_parameter.Rd |only man/regex_time.Rd |only man/regex_year_date.Rd |only man/remove_duplicates_and_na.Rd |only man/retrieve_function_calls.Rd |only man/retrieve_functions_and_packages.Rd | 34 ++++----- man/retrieve_package_usage.Rd |only man/retrieve_sourced_scripts.Rd |only man/retrieve_string_assignments.Rd |only man/return_assertions_message.Rd |only man/str_detect_in_file.Rd | 50 ++++++------- man/test_all_equal.Rd | 65 +++++++++-------- man/unique_id.Rd | 56 +++++++-------- tests |only vignettes |only 87 files changed, 785 insertions(+), 656 deletions(-)
Title: Rapid Manipulation of the Variant Call Format (VCF)
Description: The 'vcfpp.h' (<https://github.com/Zilong-Li/vcfpp>) provides an easy-to-use 'C++' 'API' of 'htslib', offering full functionality for manipulating Variant Call Format (VCF) files. The 'vcfppR' package serves as the R bindings of the 'vcfpp.h' library, enabling rapid processing of both compressed and uncompressed VCF/BCF files. Explore a range of powerful features for efficient VCF data manipulation.
Author: Zilong Li [aut, cre] ,
Bonfield, James K and Marshall, John and Danecek, Petr and Li, Heng
[cph]
Maintainer: Zilong Li <zilong.dk@gmail.com>
Diff between vcfppR versions 0.3.8 dated 2024-01-14 and 0.4.0 dated 2024-02-26
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/vcf-tables.R | 5 ++++- man/vcftable.Rd | 5 ++++- src/Makevars.win | 11 ++++++++++- tests/testthat/test-vcf-table.R | 5 +++++ 7 files changed, 38 insertions(+), 13 deletions(-)
Title: Interpolate Data for Smooth Animations
Description: In order to create smooth animation between states of data,
tweening is necessary. This package provides a range of functions for
creating tweened data that can be used as basis for animation. Furthermore
it adds a number of vectorized interpolaters for common R data
types such as numeric, date and colour.
Author: Thomas Lin Pedersen [aut, cre]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between tweenr versions 2.0.2 dated 2022-09-06 and 2.0.3 dated 2024-02-26
DESCRIPTION | 9 ++-- MD5 | 27 +++++++------ NAMESPACE | 1 NEWS.md | 5 ++ R/cpp11.R | 48 +++++++++++++++++------- R/interpolate_at.R | 55 ++++++++++++++++++++++++++++ R/tween_along.R | 6 ++- R/tween_at.R | 91 ++++++++++++++++++++++++++++++++++++++++++++++ R/tween_components.R | 2 - R/tween_fill.R | 2 - R/tween_state.R | 64 +++++++++++++++++++++----------- R/tween_states.R | 2 - man/tween_at_t.Rd |only src/at.cpp | 99 +++++++++++++++++++++++++++++++++++++++++++++++++++ src/cpp11.cpp | 94 ++++++++++++++++++++++++++++++++++-------------- 15 files changed, 419 insertions(+), 86 deletions(-)
Title: Plot a Model's Residuals, Response, and Partial Dependence Plots
Description: Plot model surfaces for a wide variety of models
using partial dependence plots and other techniques.
Also plot model residuals and other information on the model.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between plotmo versions 3.6.2 dated 2022-05-21 and 3.6.3 dated 2024-02-26
plotmo-3.6.2/plotmo/NEWS |only plotmo-3.6.3/plotmo/DESCRIPTION | 8 plotmo-3.6.3/plotmo/MD5 | 150 +++---- plotmo-3.6.3/plotmo/NAMESPACE | 105 ++++ plotmo-3.6.3/plotmo/NEWS.md |only plotmo-3.6.3/plotmo/R/as.char.R | 8 plotmo-3.6.3/plotmo/R/gbm.R | 8 plotmo-3.6.3/plotmo/R/gbm.backcompat.R | 4 plotmo-3.6.3/plotmo/R/grid.R | 2 plotmo-3.6.3/plotmo/R/lib.R | 2 plotmo-3.6.3/plotmo/R/plot_gbm.R | 3 plotmo-3.6.3/plotmo/R/plot_glmnet.R | 3 plotmo-3.6.3/plotmo/R/plotcum.R | 3 plotmo-3.6.3/plotmo/R/plotmo.R | 28 - plotmo-3.6.3/plotmo/R/plotresids.R | 2 plotmo-3.6.3/plotmo/R/response.R | 4 plotmo-3.6.3/plotmo/R/singles.R | 6 plotmo-3.6.3/plotmo/R/spread.labs.R |only plotmo-3.6.3/plotmo/R/w1.R | 8 plotmo-3.6.3/plotmo/R/xy.R | 24 - plotmo-3.6.3/plotmo/inst/slowtests/make.README.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/make.bat | 56 +- plotmo-3.6.3/plotmo/inst/slowtests/makeclean.bat | 6 plotmo-3.6.3/plotmo/inst/slowtests/test.c50.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.c50.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.caret.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.caret.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.center.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.center.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.degree.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.degree.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.dots.Rout.save | 5 plotmo-3.6.3/plotmo/inst/slowtests/test.dots.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.fac.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.fac.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.gbm.Rout.save | 4 plotmo-3.6.3/plotmo/inst/slowtests/test.gbm.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.glmnet.Rout.save | 3 plotmo-3.6.3/plotmo/inst/slowtests/test.glmnet.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.glmnetUtils.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.glmnetUtils.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.linmod.Rout.save | 7 plotmo-3.6.3/plotmo/inst/slowtests/test.linmod.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.mlr.Rout.save | 18 plotmo-3.6.3/plotmo/inst/slowtests/test.mlr.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.modguide.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.modguide.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.non.earth.Rout.save | 15 plotmo-3.6.3/plotmo/inst/slowtests/test.non.earth.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.parsnip.R | 12 plotmo-3.6.3/plotmo/inst/slowtests/test.parsnip.Rout.save | 211 ++++------ plotmo-3.6.3/plotmo/inst/slowtests/test.parsnip.bat | 9 plotmo-3.6.3/plotmo/inst/slowtests/test.partdep.Rout.save | 6 plotmo-3.6.3/plotmo/inst/slowtests/test.partdep.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.partykit.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.partykit.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.Rout.save | 5 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.args.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.args.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.dots.R | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.dots.Rout.save | 3 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.dots.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.x.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo.x.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo3.Rout.save | 6 plotmo-3.6.3/plotmo/inst/slowtests/test.plotmo3.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.plotres.Rout.save | 5 plotmo-3.6.3/plotmo/inst/slowtests/test.plotres.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.pre.Rout.save | 8 plotmo-3.6.3/plotmo/inst/slowtests/test.pre.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.printcall.Rout.save | 1 plotmo-3.6.3/plotmo/inst/slowtests/test.printcall.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/test.unusual.vars.Rout.save | 13 plotmo-3.6.3/plotmo/inst/slowtests/test.unusual.vars.bat | 2 plotmo-3.6.3/plotmo/inst/slowtests/x1 |only plotmo-3.6.3/plotmo/man/plot_glmnet.Rd | 3 plotmo-3.6.3/plotmo/tests/test.plotmo.Rout.save | 1 78 files changed, 444 insertions(+), 383 deletions(-)
Title: Represent Network Objects on a Map
Description: Represent 'network' or 'igraph' objects whose vertices can be represented by features in an 'sf' object as a network graph surmising a 'sf' plot. Fits into 'ggplot2' grammar.
Author: Matteo Dimai [aut, cre]
Maintainer: Matteo Dimai <matteo.dimai@phd.units.it>
Diff between netmap versions 0.1.3 dated 2024-02-13 and 0.1.4 dated 2024-02-26
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 32 ++++++++++++++++++-------------- R/link_network_map.R | 2 +- 4 files changed, 25 insertions(+), 21 deletions(-)
Title: Compute and Illustrate the Multiple Facets of Functional
Diversity
Description: Computing functional traits-based distances between pairs of
species for species gathered in assemblages allowing to build several
functional spaces. The package allows to compute functional diversity
indices assessing the distribution of species (and of their dominance) in a
given functional space for each assemblage and the overlap between
assemblages in a given functional space, see: Chao et al. (2018)
<doi:10.1002/ecm.1343>, Maire et al. (2015) <doi:10.1111/geb.12299>,
Mouillot et al. (2013) <doi:10.1016/j.tree.2012.10.004>, Mouillot et al.
(2014) <doi:10.1073/pnas.1317625111>, Ricotta and Szeidl (2009)
<doi:10.1016/j.tpb.2009.10.001>. Graphical outputs are included.
Visit the 'mFD' website for more information, documentation and examples.
Author: Camille Magneville [aut, cre, cph]
,
Nicolas Loiseau [aut] ,
Camille Albouy [aut] ,
Nicolas Casajus [aut] ,
Thomas Claverie [aut] ,
Arthur Escalas [aut] ,
Fabien Leprieur [aut] ,
Eva Maire [aut] ,
David Mouillot [aut] ,
Sebastien Villeger [aut]
Maintainer: Camille Magneville <camille.magneville@gmail.com>
Diff between mFD versions 1.0.6 dated 2023-11-02 and 1.0.7 dated 2024-02-26
DESCRIPTION | 6 +- MD5 | 22 +++++----- NEWS.md | 5 ++ R/check_inputs.R | 5 +- inst/doc/Compute_and_interpret_quality_of_functional_spaces.html | 4 - inst/doc/Compute_functional_hill_indices.html | 4 - inst/doc/Continuous_traits_framework.html | 4 - inst/doc/Customised_plots.html | 4 - inst/doc/How_to_deal_with_Functional_Entities.html | 4 - inst/doc/mFD_general_workflow.Rmd | 15 +++--- inst/doc/mFD_general_workflow.html | 16 ++++--- vignettes/mFD_general_workflow.Rmd | 15 +++--- 12 files changed, 56 insertions(+), 48 deletions(-)
Title: Integral Transformation Methods for SDR in Regression
Description: The itdr() routine allows for the estimation of sufficient dimension reduction subspaces in univariate regression such as the central mean subspace or central subspace in regression. This is achieved using Fourier transformation methods proposed by Zhu and Zeng (2006) <doi:10.1198/016214506000000140>, convolution transformation methods proposed by Zeng and Zhu (2010) <doi:10.1016/j.jmva.2009.08.004>, and iterative Hessian transformation methods proposed by Cook and Li (2002) <doi:10.1214/aos/1021379861>. Additionally, mitdr() function provides optimal estimators for sufficient dimension reduction subspaces in multivariate regression by optimizing a discrepancy function using a Fourier transform approach proposed by Weng and Yin (2022) <doi:10.5705/ss.202020.0312>, and selects the sufficient variables using Fourier transform sparse inverse regression estimators proposed by Weng (2022) <doi:10.1016/j.csda.2021.107380>.
Author: Tharindu P. De Alwis [aut, cre]
,
S. Yaser Samadi [ctb, aut] ,
Jiaying Weng [ctb, aut]
Maintainer: Tharindu P. De Alwis <talwis@wpi.edu>
Diff between itdr versions 2.0.0 dated 2023-06-23 and 2.0.1 dated 2024-02-26
itdr-2.0.0/itdr/R/IntTrans.R |only itdr-2.0.0/itdr/R/PDB.R |only itdr-2.0.0/itdr/R/Raman.R |only itdr-2.0.0/itdr/R/Recumbent.R |only itdr-2.0.0/itdr/R/fm_xire.R |only itdr-2.0.0/itdr/R/iht.R |only itdr-2.0.0/itdr/R/invFM.R |only itdr-2.0.0/itdr/data/PDB.RData |only itdr-2.0.0/itdr/man/PDB.Rd |only itdr-2.0.0/itdr/man/Raman.Rd |only itdr-2.0.0/itdr/man/Recumbent.Rd |only itdr-2.0.0/itdr/man/admmft.Rd |only itdr-2.0.0/itdr/man/fm_xire.Rd |only itdr-2.0.0/itdr/man/invFM.Rd |only itdr-2.0.0/itdr/man/wh.Rd |only itdr-2.0.0/itdr/man/wx.Rd |only itdr-2.0.0/itdr/man/wy.Rd |only itdr-2.0.1/itdr/DESCRIPTION | 10 itdr-2.0.1/itdr/MD5 | 94 - itdr-2.0.1/itdr/NAMESPACE | 8 itdr-2.0.1/itdr/NEWS.md | 60 itdr-2.0.1/itdr/R/ConvolutionMethod.R |only itdr-2.0.1/itdr/R/FTIRE.R | 1761 +++++++++++---------- itdr-2.0.1/itdr/R/FourierMethod-XIRE.R |only itdr-2.0.1/itdr/R/FourierMethod.R | 178 +- itdr-2.0.1/itdr/R/InverseFourierMethod.R |only itdr-2.0.1/itdr/R/IterativeHessionTr.R |only itdr-2.0.1/itdr/R/admmft.R | 192 -- itdr-2.0.1/itdr/R/admmft_Methods.R | 181 +- itdr-2.0.1/itdr/R/automobile.R | 40 itdr-2.0.1/itdr/R/cvft.R | 126 - itdr-2.0.1/itdr/R/d.boost.R | 130 - itdr-2.0.1/itdr/R/d.test.R | 304 +-- itdr-2.0.1/itdr/R/dsp.R | 46 itdr-2.0.1/itdr/R/hyperPara.R |only itdr-2.0.1/itdr/R/itdr.R | 166 +- itdr-2.0.1/itdr/R/mitdr.R |only itdr-2.0.1/itdr/R/pdb.R |only itdr-2.0.1/itdr/R/prostate.R | 20 itdr-2.0.1/itdr/R/raman.R |only itdr-2.0.1/itdr/R/recumbent.R |only itdr-2.0.1/itdr/R/wh.R | 102 - itdr-2.0.1/itdr/R/wx.R | 113 - itdr-2.0.1/itdr/R/wy.R | 100 - itdr-2.0.1/itdr/build/vignette.rds |binary itdr-2.0.1/itdr/data/pdb.RData |only itdr-2.0.1/itdr/data/raman.RData |binary itdr-2.0.1/itdr/data/recumbent.RData |binary itdr-2.0.1/itdr/inst/CITATION | 12 itdr-2.0.1/itdr/inst/doc/itdr-vignette.R | 252 +-- itdr-2.0.1/itdr/inst/doc/itdr-vignette.Rmd | 577 +++---- itdr-2.0.1/itdr/inst/doc/itdr-vignette.html | 2294 ++++++++++++++-------------- itdr-2.0.1/itdr/man/automobile.Rd | 36 itdr-2.0.1/itdr/man/d.boots.Rd | 39 itdr-2.0.1/itdr/man/d.test.Rd | 55 itdr-2.0.1/itdr/man/dsp.Rd | 20 itdr-2.0.1/itdr/man/hyperPara.Rd |only itdr-2.0.1/itdr/man/itdr.Rd | 112 - itdr-2.0.1/itdr/man/mitdr.Rd |only itdr-2.0.1/itdr/man/pdb.Rd |only itdr-2.0.1/itdr/man/prostate.Rd | 10 itdr-2.0.1/itdr/man/raman.Rd |only itdr-2.0.1/itdr/man/recumbent.Rd |only itdr-2.0.1/itdr/vignettes/itdr-vignette.Rmd | 577 +++---- 64 files changed, 3847 insertions(+), 3768 deletions(-)
Title: Code Sharing at the Department of Epidemiological Research at
Statens Serum Institut
Description: This is a collection of assorted functions and examples collected
from various projects. Currently we have functionalities for simplifying
overlapping time intervals, Charlson comorbidity score constructors for
Danish data, getting frequency for multiple variables, getting standardized
output from logistic and log-linear regressions, sibling design linear
regression functionalities a method for calculating the confidence intervals
for functions of parameters from a GLM, Bayes equivalent for hypothesis
testing with asymptotic Bayes factor, and several help functions for
generalized random forest analysis using 'grf'.
Author: Anders Husby [aut] ,
Anna Laksafoss [aut] ,
Emilia Myrup Thiesson [aut] ,
Kim Daniel Jakobsen [aut, cre]
,
Mikael Andersson [aut] ,
Klaus Rostgaard [aut]
Maintainer: Kim Daniel Jakobsen <kija@ssi.dk>
Diff between EpiForsk versions 0.0.1 dated 2023-02-10 and 0.1.1 dated 2024-02-26
DESCRIPTION | 49 LICENSE | 4 MD5 | 97 + NAMESPACE | 32 R/EpiForsk_package.R | 85 - R/adls_braid_rows.R | 176 +- R/adls_flatten_date_intervals.R | 363 ++--- R/adls_try_catch_warnings.R |only R/aso_charlson_score.R | 1475 ++++++++------------- R/aso_freq_function.R |only R/aso_freq_function_repeated.R |only R/aso_many_merge.R |only R/aso_odds_ratio_function.R |only R/aso_odds_ratio_function_repeated.R |only R/data.R | 80 - R/kija_c_for_benefit.R |only R/kija_cate_surface.R |only R/kija_causal_forest_dynamic_subgroups.R |only R/kija_covariate_balance.R |only R/kija_discrete_covariate_names.R |only R/kija_discrete_covariates_to_onehot.R |only R/kija_fct_confint.R | 2079 ++++++++++++++++++++----------- R/kija_lms.R | 382 ++--- R/kija_multi_join.R |only R/kija_rate_omnibus_test.R |only R/kija_rate_test.R |only R/kija_vcovHC.R |only R/klp_AsympBF.R |only README.md | 11 build/vignette.rds |binary inst/doc/Contributing.html | 119 - inst/doc/Writing_functions.Rmd | 124 - inst/doc/Writing_functions.html | 14 inst/doc/andh_forest_plot.R | 4 inst/doc/andh_forest_plot.Rmd | 500 +++---- inst/doc/andh_forest_plot.html | 509 +++---- man/CATESurface.Rd |only man/CForBenefit.Rd |only man/CausalForestDynamicSubgroups.Rd |only man/CovariateBalance.Rd |only man/DiscreteCovariateNames.Rd |only man/DiscreteCovariatesToOneHot.Rd |only man/EpiForsk-package.Rd | 32 man/RATEOmnibusTest.Rd |only man/RATETest.Rd |only man/asympBF.Rd |only man/braid_rows.Rd | 112 - man/ceiling_dec.Rd |only man/charlson_score.Rd | 346 ++--- man/ci_fct.Rd |only man/ci_fct_error_handler.Rd |only man/decimalplaces.Rd |only man/dot-datatable.aware.Rd |only man/fct_confint.Rd | 104 - man/figures |only man/floor_dec.Rd |only man/freq_function.Rd |only man/freq_function_repeated.Rd |only man/lms.Rd | 2 man/many_merge.Rd |only man/multi_join.Rd |only man/odds_ratio_function.Rd |only man/odds_ratio_function_repeated.Rd |only man/summary.svy_vglm.Rd |only man/try_catch_warnings.Rd |only man/vcovHC.Rd |only tests/testthat.R | 24 tests/testthat/test-adls_braid_rows.R | 170 +- vignettes/Writing_functions.Rmd | 124 - vignettes/andh_forest_plot.Rmd | 500 +++---- 70 files changed, 3980 insertions(+), 3537 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines" <doi:10.1214/aos/1176347963>.
(The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow. Derived from mda:mars by Trevor Hastie and
Rob Tibshirani. Uses Alan Miller's Fortran utilities
with Thomas Lumley's leaps wrapper.
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 5.3.2 dated 2023-01-26 and 5.3.3 dated 2024-02-26
earth-5.3.2/earth/inst/slowtests/test.earthmain.gcc64.bat |only earth-5.3.3/earth/DESCRIPTION | 7 earth-5.3.3/earth/MD5 | 158 +++--- earth-5.3.3/earth/NAMESPACE | 2 earth-5.3.3/earth/NEWS.md | 10 earth-5.3.3/earth/R/bpairs.R | 6 earth-5.3.3/earth/R/do.par.R | 4 earth-5.3.3/earth/R/earth.R | 12 earth-5.3.3/earth/R/earth.cv.R | 6 earth-5.3.3/earth/R/earth.cv.lib.R | 2 earth-5.3.3/earth/R/earth.fit.R | 20 earth-5.3.3/earth/R/earth.glm.R | 6 earth-5.3.3/earth/R/earth.regress.R | 6 earth-5.3.3/earth/R/format.earth.R | 6 earth-5.3.3/earth/R/lib.R | 2 earth-5.3.3/earth/R/mars.to.earth.R | 2 earth-5.3.3/earth/R/plot.earth.R | 2 earth-5.3.3/earth/R/spread.labs.R |only earth-5.3.3/earth/R/varmod.R | 44 - earth-5.3.3/earth/build/partial.rdb |binary earth-5.3.3/earth/inst/slowtests/check.earth.matches.glm.R | 38 - earth-5.3.3/earth/inst/slowtests/earth.times.bat | 2 earth-5.3.3/earth/inst/slowtests/make.bat | 22 earth-5.3.3/earth/inst/slowtests/test.allowedfunc.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.allowedfunc.bat | 2 earth-5.3.3/earth/inst/slowtests/test.big.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.big.bat | 2 earth-5.3.3/earth/inst/slowtests/test.bpairs.R | 16 earth-5.3.3/earth/inst/slowtests/test.bpairs.Rout.save | 49 - earth-5.3.3/earth/inst/slowtests/test.bpairs.bat | 2 earth-5.3.3/earth/inst/slowtests/test.cv.R | 88 +-- earth-5.3.3/earth/inst/slowtests/test.cv.Rout.save | 117 ++-- earth-5.3.3/earth/inst/slowtests/test.cv.bat | 2 earth-5.3.3/earth/inst/slowtests/test.earthc.gcc.bat | 54 -- earth-5.3.3/earth/inst/slowtests/test.earthc.gcc.out.save |only earth-5.3.3/earth/inst/slowtests/test.earthc.msc.mak | 2 earth-5.3.3/earth/inst/slowtests/test.earthc.out.save | 4 earth-5.3.3/earth/inst/slowtests/test.earthmain.gcc.bat | 70 +- earth-5.3.3/earth/inst/slowtests/test.earthmain.gcc.out.save |only earth-5.3.3/earth/inst/slowtests/test.earthmain.msc.bat | 4 earth-5.3.3/earth/inst/slowtests/test.emma.Rout |only earth-5.3.3/earth/inst/slowtests/test.emma.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.emma.bat | 2 earth-5.3.3/earth/inst/slowtests/test.expand.bpairs.Rout.save | 4 earth-5.3.3/earth/inst/slowtests/test.expand.bpairs.bat | 2 earth-5.3.3/earth/inst/slowtests/test.full.R | 33 - earth-5.3.3/earth/inst/slowtests/test.full.Rout.save | 60 +- earth-5.3.3/earth/inst/slowtests/test.full.bat | 2 earth-5.3.3/earth/inst/slowtests/test.glm.Rout.save | 251 ++++----- earth-5.3.3/earth/inst/slowtests/test.glm.bat | 2 earth-5.3.3/earth/inst/slowtests/test.incorrect.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.incorrect.bat | 2 earth-5.3.3/earth/inst/slowtests/test.mem.Rout |only earth-5.3.3/earth/inst/slowtests/test.mem.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.mem.bat | 2 earth-5.3.3/earth/inst/slowtests/test.mods.Rout.save | 3 earth-5.3.3/earth/inst/slowtests/test.mods.bat | 2 earth-5.3.3/earth/inst/slowtests/test.multresp.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.multresp.bat | 2 earth-5.3.3/earth/inst/slowtests/test.numstab-mfpmath-387.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.numstab.Rout.save | 255 ++++------ earth-5.3.3/earth/inst/slowtests/test.numstab.bat | 2 earth-5.3.3/earth/inst/slowtests/test.offset.R | 54 -- earth-5.3.3/earth/inst/slowtests/test.offset.Rout.save | 55 -- earth-5.3.3/earth/inst/slowtests/test.offset.bat | 2 earth-5.3.3/earth/inst/slowtests/test.ordinal.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.ordinal.bat | 2 earth-5.3.3/earth/inst/slowtests/test.plotd.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.plotd.bat | 2 earth-5.3.3/earth/inst/slowtests/test.pmethod.cv.Rout.save | 1 earth-5.3.3/earth/inst/slowtests/test.pmethod.cv.bat | 2 earth-5.3.3/earth/inst/slowtests/test.varmod.Rout.save | 77 +-- earth-5.3.3/earth/inst/slowtests/test.varmod.bat | 2 earth-5.3.3/earth/inst/slowtests/test.varmod.mgcv.Rout.save | 31 - earth-5.3.3/earth/inst/slowtests/test.varmod.mgcv.bat | 2 earth-5.3.3/earth/inst/slowtests/test.weights.Rout.save | 13 earth-5.3.3/earth/inst/slowtests/test.weights.bat | 2 earth-5.3.3/earth/man/earth.Rd | 5 earth-5.3.3/earth/man/plot.earth.Rd | 5 earth-5.3.3/earth/man/varmod.Rd | 15 earth-5.3.3/earth/src/earth.c | 5 earth-5.3.3/earth/src/leaps.f | 4 earth-5.3.3/earth/tests/test.earth.Rout.save | 1 83 files changed, 796 insertions(+), 886 deletions(-)
Title: Functions for Community Data and Ordinations
Description: A collection of functions useful in (vegetation) community analyses and ordinations. Includes automatic species selection for ordination diagrams, NMDS stress/scree plots, species response curves, merging of taxa as well as calculation and sorting of synoptic tables.
Author: Friedemann von Lampe [aut, cre],
Jenny Schellenberg [aut]
Maintainer: Friedemann von Lampe <fvonlampe@uni-goettingen.de>
Diff between goeveg versions 0.7.2 dated 2024-02-06 and 0.7.4 dated 2024-02-26
DESCRIPTION | 8 - MD5 | 26 ++-- NAMESPACE | 2 NEWS.md | 15 ++ R/clean_matrix.R |only R/cov2per.R | 317 +++++++++++++++++++++++++++++++++++----------------- R/merge_taxa.R | 315 ++++++++++++++++----------------------------------- R/scale_tabs.r | 6 R/syntable.R | 9 - R/trans_matrix.R |only README.md | 1 man/clean_matrix.Rd |only man/cov2per.Rd | 6 man/merge_taxa.Rd | 11 + man/scale_tabs.Rd | 6 man/trans_matrix.Rd |only 16 files changed, 378 insertions(+), 344 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use
in photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse ratios and
other derived quantities from spectral data. Local maxima and minima: peaks,
valleys and spikes. Conversion between energy-and photon-based units.
Wavelength interpolation. Astronomical calculations related solar angles and
day length. Colours and vision. This package is part of the 'r4photobiology'
suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] ,
Titta K. Kotilainen [ctb] ,
Glenn Davis [ctb],
Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.11.0 dated 2023-10-20 and 0.11.1 dated 2024-02-26
photobiology-0.11.0/photobiology/data/clear.spct.rda |only photobiology-0.11.0/photobiology/data/opaque.spct.rda |only photobiology-0.11.0/photobiology/data/polyester.spct.rda |only photobiology-0.11.0/photobiology/data/sun.daily.data.rda |only photobiology-0.11.0/photobiology/data/sun.daily.spct.rda |only photobiology-0.11.0/photobiology/data/sun.spct.rda |only photobiology-0.11.0/photobiology/data/yellow.gel.rda |only photobiology-0.11.0/photobiology/man/D2.UV586.Rd |only photobiology-0.11.0/photobiology/man/D2.UV654.Rd |only photobiology-0.11.0/photobiology/man/FEL.BN.9101.165.Rd |only photobiology-0.11.0/photobiology/man/Ler_leaf_rflt.spct.Rd |only photobiology-0.11.0/photobiology/man/Ler_leaf_trns.spct.Rd |only photobiology-0.11.0/photobiology/man/Ler_leaf_trns_i.spct.Rd |only photobiology-0.11.0/photobiology/man/clear_body.spct.Rd |only photobiology-0.11.0/photobiology/man/getBSWFUsed.Rd |only photobiology-0.11.0/photobiology/man/getResponseType.Rd |only photobiology-0.11.0/photobiology/man/getRfrType.Rd |only photobiology-0.11.0/photobiology/man/getTfrType.Rd |only photobiology-0.11.0/photobiology/man/opaque.spct.Rd |only photobiology-0.11.0/photobiology/man/polyester.spct.Rd |only photobiology-0.11.0/photobiology/man/sun.daily.data.Rd |only photobiology-0.11.0/photobiology/man/sun.daily.spct.Rd |only photobiology-0.11.0/photobiology/man/sun.data.Rd |only photobiology-0.11.0/photobiology/man/white_body.spct.Rd |only photobiology-0.11.0/photobiology/man/white_led.cps_spct.Rd |only photobiology-0.11.0/photobiology/man/white_led.raw_spct.Rd |only photobiology-0.11.0/photobiology/man/yellow_gel.spct.Rd |only photobiology-0.11.1/photobiology/DESCRIPTION | 10 photobiology-0.11.1/photobiology/MD5 | 262 - photobiology-0.11.1/photobiology/NAMESPACE | 1 photobiology-0.11.1/photobiology/NEWS.md | 63 photobiology-0.11.1/photobiology/R/copy.attr.R | 78 photobiology-0.11.1/photobiology/R/d2.fel.data.r | 45 photobiology-0.11.1/photobiology/R/filter.data.r | 67 photobiology-0.11.1/photobiology/R/insert.hinges.r | 64 photobiology-0.11.1/photobiology/R/leaf.data.R | 67 photobiology-0.11.1/photobiology/R/led.data.R | 52 photobiology-0.11.1/photobiology/R/mspct.sample.R | 15 photobiology-0.11.1/photobiology/R/object.data.r | 36 photobiology-0.11.1/photobiology/R/rbindspct.r | 269 - photobiology-0.11.1/photobiology/R/source-spct-ratios.R | 138 photobiology-0.11.1/photobiology/R/spct.classes.r | 363 + photobiology-0.11.1/photobiology/R/spct.conversion.R | 3 photobiology-0.11.1/photobiology/R/spct.fscale.r | 131 photobiology-0.11.1/photobiology/R/spct.irrad.r | 192 photobiology-0.11.1/photobiology/R/spct.metadata.r | 31 photobiology-0.11.1/photobiology/R/spct.normalize.r | 280 - photobiology-0.11.1/photobiology/R/spct.operators.r | 209 photobiology-0.11.1/photobiology/R/spct.peaks.r | 457 +- photobiology-0.11.1/photobiology/R/spct.smooth.spct.r | 104 photobiology-0.11.1/photobiology/R/spct.spikes.R | 275 - photobiology-0.11.1/photobiology/R/spct.trim.r | 7 photobiology-0.11.1/photobiology/R/spct.utils.r | 51 photobiology-0.11.1/photobiology/R/sun.data.r | 84 photobiology-0.11.1/photobiology/R/zmspct.classes.R | 15 photobiology-0.11.1/photobiology/README.md | 22 photobiology-0.11.1/photobiology/data/filter-data.rda |only photobiology-0.11.1/photobiology/data/sun.data.rda |binary photobiology-0.11.1/photobiology/data/white-led-spct.rda |binary photobiology-0.11.1/photobiology/inst/doc/userguide-0-r4p-introduction.html | 2 photobiology-0.11.1/photobiology/inst/doc/userguide-1-radiation.R | 124 photobiology-0.11.1/photobiology/inst/doc/userguide-1-radiation.Rmd | 183 photobiology-0.11.1/photobiology/inst/doc/userguide-1-radiation.html | 2161 +++++----- photobiology-0.11.1/photobiology/inst/doc/userguide-2-astronomy.html | 48 photobiology-0.11.1/photobiology/man/A.illuminant.spct.Rd | 18 photobiology-0.11.1/photobiology/man/A2T.Rd | 4 photobiology-0.11.1/photobiology/man/Afr2T.Rd | 4 photobiology-0.11.1/photobiology/man/D2.UV653.Rd | 11 photobiology-0.11.1/photobiology/man/D65.illuminant.spct.Rd | 18 photobiology-0.11.1/photobiology/man/Ler_leaf.spct.Rd | 38 photobiology-0.11.1/photobiology/man/T2A.Rd | 51 photobiology-0.11.1/photobiology/man/T2Afr.Rd | 49 photobiology-0.11.1/photobiology/man/add_attr2tb.Rd | 8 photobiology-0.11.1/photobiology/man/any2T.Rd | 4 photobiology-0.11.1/photobiology/man/as_quantum.Rd | 4 photobiology-0.11.1/photobiology/man/black_body.spct.Rd | 28 photobiology-0.11.1/photobiology/man/ccd.spct.Rd | 18 photobiology-0.11.1/photobiology/man/checkTimeUnit.Rd | 1 photobiology-0.11.1/photobiology/man/clear.spct.Rd | 30 photobiology-0.11.1/photobiology/man/convertTfrType.Rd | 46 photobiology-0.11.1/photobiology/man/convertThickness.Rd | 1 photobiology-0.11.1/photobiology/man/convertTimeUnit.Rd | 1 photobiology-0.11.1/photobiology/man/despike.Rd | 28 photobiology-0.11.1/photobiology/man/e2q.Rd | 2 photobiology-0.11.1/photobiology/man/e2qmol_multipliers.Rd | 4 photobiology-0.11.1/photobiology/man/e2quantum_multipliers.Rd | 4 photobiology-0.11.1/photobiology/man/e_irrad.Rd | 20 photobiology-0.11.1/photobiology/man/e_ratio.Rd | 40 photobiology-0.11.1/photobiology/man/eq_ratio.Rd | 47 photobiology-0.11.1/photobiology/man/filter_cps.mspct.Rd | 18 photobiology-0.11.1/photobiology/man/fscale.Rd | 9 photobiology-0.11.1/photobiology/man/getFilterProperties.Rd | 1 photobiology-0.11.1/photobiology/man/getHowMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/getIdFactor.Rd | 2 photobiology-0.11.1/photobiology/man/getInstrDesc.Rd | 1 photobiology-0.11.1/photobiology/man/getInstrSettings.Rd | 1 photobiology-0.11.1/photobiology/man/getNormalized.Rd | 11 photobiology-0.11.1/photobiology/man/getSoluteProperties.Rd | 1 photobiology-0.11.1/photobiology/man/getTimeUnit.Rd | 1 photobiology-0.11.1/photobiology/man/getWhatMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/getWhenMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/getWhereMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/get_attributes.Rd | 1 photobiology-0.11.1/photobiology/man/green_leaf.spct.Rd | 18 photobiology-0.11.1/photobiology/man/irrad.Rd | 25 photobiology-0.11.1/photobiology/man/isValidInstrDesc.Rd | 1 photobiology-0.11.1/photobiology/man/isValidInstrSettings.Rd | 1 photobiology-0.11.1/photobiology/man/is_normalized.Rd | 6 photobiology-0.11.1/photobiology/man/normalize.Rd | 76 photobiology-0.11.1/photobiology/man/phenylalanine.spct.Rd | 18 photobiology-0.11.1/photobiology/man/photodiode.spct.Rd | 18 photobiology-0.11.1/photobiology/man/pull_sample.Rd | 9 photobiology-0.11.1/photobiology/man/q2e.Rd | 6 photobiology-0.11.1/photobiology/man/q_irrad.Rd | 18 photobiology-0.11.1/photobiology/man/q_ratio.Rd | 43 photobiology-0.11.1/photobiology/man/qe_ratio.Rd | 25 photobiology-0.11.1/photobiology/man/rbindspct.Rd | 10 photobiology-0.11.1/photobiology/man/select_spct_attributes.Rd | 3 photobiology-0.11.1/photobiology/man/setBSWFUsed.Rd | 65 photobiology-0.11.1/photobiology/man/setFilterProperties.Rd | 1 photobiology-0.11.1/photobiology/man/setHowMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/setInstrDesc.Rd | 1 photobiology-0.11.1/photobiology/man/setInstrSettings.Rd | 1 photobiology-0.11.1/photobiology/man/setResponseType.Rd | 16 photobiology-0.11.1/photobiology/man/setRfrType.Rd | 65 photobiology-0.11.1/photobiology/man/setSoluteProperties.Rd | 1 photobiology-0.11.1/photobiology/man/setTfrType.Rd | 102 photobiology-0.11.1/photobiology/man/setTimeUnit.Rd | 1 photobiology-0.11.1/photobiology/man/setWhatMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/setWhenMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/setWhereMeasured.Rd | 1 photobiology-0.11.1/photobiology/man/spct_attr2tb.Rd | 1 photobiology-0.11.1/photobiology/man/spct_metadata.Rd | 1 photobiology-0.11.1/photobiology/man/spikes.Rd | 16 photobiology-0.11.1/photobiology/man/subset2mspct.Rd | 4 photobiology-0.11.1/photobiology/man/subset_attributes.Rd |only photobiology-0.11.1/photobiology/man/sun.spct.Rd | 32 photobiology-0.11.1/photobiology/man/sun_daily.spct.Rd |only photobiology-0.11.1/photobiology/man/sun_evening.spct.Rd |only photobiology-0.11.1/photobiology/man/thin_wl.Rd | 62 photobiology-0.11.1/photobiology/man/trimInstrDesc.Rd | 1 photobiology-0.11.1/photobiology/man/trimInstrSettings.Rd | 1 photobiology-0.11.1/photobiology/man/two_filters.spct.Rd |only photobiology-0.11.1/photobiology/man/valleys.Rd | 1 photobiology-0.11.1/photobiology/man/water.spct.Rd | 18 photobiology-0.11.1/photobiology/man/white_led.source_spct.Rd | 46 photobiology-0.11.1/photobiology/man/wls_at_target.Rd | 12 photobiology-0.11.1/photobiology/vignettes/userguide-1-radiation.Rmd | 183 148 files changed, 4316 insertions(+), 3034 deletions(-)
Title: Generalised Linear Mixed Models in R
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Includes Markov Chain Monte Carlo Maximum likelihood and Laplace approximation model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions that can be combined arbitrarily,
robust and bias-corrected standard error estimation, power calculation, data simulation, and more.
See <https://samuel-watson.github.io/glmmr-web/> for a detailed manual.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between glmmrBase versions 0.6.2 dated 2024-01-19 and 0.7.1 dated 2024-02-26
DESCRIPTION | 14 - MD5 | 88 ++++--- NAMESPACE | 5 R/R6Model.R | 383 ++++++++++++++++++++++---------- R/RcppExports.R | 28 ++ R/extrafunctions.R | 9 R/printfunctions.R | 55 ++++ R/stanmodels.R |only build/partial.rdb |binary configure |only configure.win |only inst/cmdstan |only inst/include/glmmr.h | 3 inst/include/glmmr/calculator.hpp | 5 inst/include/glmmr/linearpredictor.hpp | 15 + inst/include/glmmr/model.hpp | 117 ++++++--- inst/include/glmmr/modelmcmc.hpp | 54 ++-- inst/include/glmmr/modeloptim.hpp | 390 +++++++++++++++++++++++++-------- inst/include/glmmr/nngpcovariance.hpp | 22 + inst/include/glmmr/optim/optim.h | 2 inst/include/glmmr/randomeffects.hpp | 19 + inst/include/stan_meta_header.hpp |only inst/stan/mcml_bernoulli.stan | 38 +-- inst/stan/mcml_beta.stan | 29 +- inst/stan/mcml_binomial.stan | 38 +-- inst/stan/mcml_gamma.stan | 35 +- inst/stan/mcml_gaussian.stan | 25 +- inst/stan/mcml_poisson.stan | 24 +- man/Model.Rd | 125 +++++----- man/coef.mcml.Rd |only man/fixed.effects.Rd |only man/glmmrBase-package.Rd | 21 + man/logLik.mcml.Rd |only man/mcnr_family.Rd | 4 man/random.effects.Rd |only man/summary.mcml.Rd | 1 src/Makevars | 10 src/Makevars.win | 10 src/RcppExports.cpp | 104 ++++++++ src/model_module.cpp | 4 src/model_module_extension.cpp | 71 ++++++ src/stanExports_mcml_bernoulli.cc |only src/stanExports_mcml_bernoulli.h |only src/stanExports_mcml_beta.cc |only src/stanExports_mcml_beta.h |only src/stanExports_mcml_binomial.cc |only src/stanExports_mcml_binomial.h |only src/stanExports_mcml_gamma.cc |only src/stanExports_mcml_gamma.h |only src/stanExports_mcml_gaussian.cc |only src/stanExports_mcml_gaussian.h |only src/stanExports_mcml_poisson.cc |only src/stanExports_mcml_poisson.h |only 53 files changed, 1259 insertions(+), 489 deletions(-)
Title: Recency, Frequency and Monetary Value Analysis
Description: Tools for RFM (recency, frequency and monetary value) analysis.
Generate RFM score from both transaction and customer level data. Visualize the
relationship between recency, frequency and monetary value using heatmap,
histograms, bar charts and scatter plots. Includes a 'shiny' app for
interactive segmentation. References:
i. Blattberg R.C., Kim BD., Neslin S.A (2008) <doi:10.1007/978-0-387-72579-6_12>.
Author: Aravind Hebbali [aut, cre]
Maintainer: Aravind Hebbali <hebbali.aravind@gmail.com>
Diff between rfm versions 0.2.2 dated 2020-07-21 and 0.3.0 dated 2024-02-26
rfm-0.2.2/rfm/R/rfm-launch-shiny-app.R |only rfm-0.2.2/rfm/inst/doc/rfm-customer-level-data.R |only rfm-0.2.2/rfm/inst/doc/rfm-customer-level-data.Rmd |only rfm-0.2.2/rfm/inst/doc/rfm-customer-level-data.html |only rfm-0.2.2/rfm/inst/doc/rfm-transaction-level-data.R |only rfm-0.2.2/rfm/inst/doc/rfm-transaction-level-data.Rmd |only rfm-0.2.2/rfm/inst/doc/rfm-transaction-level-data.html |only rfm-0.2.2/rfm/man/rfm_bar_chart.Rd |only rfm-0.2.2/rfm/man/rfm_heatmap.Rd |only rfm-0.2.2/rfm/man/rfm_hist_data.Rd |only rfm-0.2.2/rfm/man/rfm_histograms.Rd |only rfm-0.2.2/rfm/man/rfm_order_dist.Rd |only rfm-0.2.2/rfm/man/rfm_table_customer_2.Rd |only rfm-0.2.2/rfm/vignettes/rfm-customer-level-data.Rmd |only rfm-0.2.2/rfm/vignettes/rfm-transaction-level-data.Rmd |only rfm-0.3.0/rfm/DESCRIPTION | 16 rfm-0.3.0/rfm/MD5 | 144 +- rfm-0.3.0/rfm/NAMESPACE | 68 + rfm-0.3.0/rfm/NEWS.md | 17 rfm-0.3.0/rfm/R/rfm-animate.R |only rfm-0.3.0/rfm/R/rfm-data.R | 12 rfm-0.3.0/rfm/R/rfm-ggplot.R |only rfm-0.3.0/rfm/R/rfm-plotly.R |only rfm-0.3.0/rfm/R/rfm-plots-data.R | 123 +- rfm-0.3.0/rfm/R/rfm-plots.R | 610 ++++++--- rfm-0.3.0/rfm/R/rfm-report.R |only rfm-0.3.0/rfm/R/rfm-segment.R | 1043 +++++++++++++++-- rfm-0.3.0/rfm/R/rfm-shiny-app.R |only rfm-0.3.0/rfm/R/rfm-table-customer-2.R | 174 -- rfm-0.3.0/rfm/R/rfm-table-customer.R | 164 -- rfm-0.3.0/rfm/R/rfm-table-transaction.R | 192 +-- rfm-0.3.0/rfm/R/rfm.R | 10 rfm-0.3.0/rfm/R/utils.R | 62 - rfm-0.3.0/rfm/R/zzz.R | 13 rfm-0.3.0/rfm/README.md | 249 +--- rfm-0.3.0/rfm/build/vignette.rds |binary rfm-0.3.0/rfm/data/rfm_data_customer.rda |binary rfm-0.3.0/rfm/data/rfm_data_orders.rda |binary rfm-0.3.0/rfm/inst/doc/rfm-introduction.R |only rfm-0.3.0/rfm/inst/doc/rfm-introduction.Rmd |only rfm-0.3.0/rfm/inst/doc/rfm-introduction.html |only rfm-0.3.0/rfm/inst/template |only rfm-0.3.0/rfm/man/rfm.Rd | 16 rfm-0.3.0/rfm/man/rfm_barchart_data.Rd | 4 rfm-0.3.0/rfm/man/rfm_create_report.Rd |only rfm-0.3.0/rfm/man/rfm_data_customer.Rd | 3 rfm-0.3.0/rfm/man/rfm_data_orders.Rd | 9 rfm-0.3.0/rfm/man/rfm_heatmap_data.Rd | 4 rfm-0.3.0/rfm/man/rfm_launch_app.Rd | 2 rfm-0.3.0/rfm/man/rfm_plot_bar_chart.Rd |only rfm-0.3.0/rfm/man/rfm_plot_heatmap.Rd |only rfm-0.3.0/rfm/man/rfm_plot_histogram.Rd |only rfm-0.3.0/rfm/man/rfm_plot_median_recency.Rd | 132 +- rfm-0.3.0/rfm/man/rfm_plot_order_dist.Rd |only rfm-0.3.0/rfm/man/rfm_plot_revenue_dist.Rd |only rfm-0.3.0/rfm/man/rfm_plot_segment.Rd |only rfm-0.3.0/rfm/man/rfm_plot_segment_scatter.Rd |only rfm-0.3.0/rfm/man/rfm_plot_segment_summary.Rd |only rfm-0.3.0/rfm/man/rfm_rm_plot.Rd | 59 rfm-0.3.0/rfm/man/rfm_segment.Rd | 35 rfm-0.3.0/rfm/man/rfm_segment_summary.Rd |only rfm-0.3.0/rfm/man/rfm_table_customer.Rd | 27 rfm-0.3.0/rfm/man/rfm_table_order.Rd | 22 rfm-0.3.0/rfm/tests/testthat.R | 16 rfm-0.3.0/rfm/tests/testthat/_snaps |only rfm-0.3.0/rfm/tests/testthat/test-rfm-plotly.R |only rfm-0.3.0/rfm/tests/testthat/test-rfm-plots.R | 179 ++ rfm-0.3.0/rfm/tests/testthat/test-rfm-segment.R | 30 rfm-0.3.0/rfm/tests/testthat/test-rfm-table.R | 36 rfm-0.3.0/rfm/tests/testthat/test-utils.R | 28 rfm-0.3.0/rfm/tools/README-heatmap-1.png |binary rfm-0.3.0/rfm/tools/README-rfmhist-1.png |binary rfm-0.3.0/rfm/tools/README-rfmhist-2.png |only rfm-0.3.0/rfm/tools/README-rfmorders-1.png |binary rfm-0.3.0/rfm/vignettes/rfm-introduction.Rmd |only 75 files changed, 2313 insertions(+), 1186 deletions(-)
Title: Implementation of Remez Algorithm for Polynomial and Rational
Function Approximation
Description: Implements the algorithm of Remez (1962) for polynomial minimax
approximation and of Cody et al. (1968) <doi:10.1007/BF02162506> for
rational minimax approximation.
Author: Avraham Adler [aut, cre, cph]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between minimaxApprox versions 0.3.0 dated 2024-01-25 and 0.4.0 dated 2024-02-26
DESCRIPTION | 8 - MD5 | 58 +++++++------ NAMESPACE | 2 R/Chebyshev.R |only R/MiniMaxApprox.R | 106 +++++++++++++++++------- R/Monomial.R |only R/RemezPolynomial.R | 33 +++---- R/RemezRational.R | 50 +++++------ R/methods.R | 35 ++++++- R/shared.R | 81 ++++++++++-------- README.md | 8 - build/partial.rdb |binary inst/CITATION | 2 inst/NEWS.Rd | 45 +++++++++- inst/tinytest/test_Chebyshev.R |only inst/tinytest/test_MiniMaxApprox.R | 162 +++++++++++++++++++++++-------------- inst/tinytest/test_methods.R | 15 +++ inst/tinytest/test_monomial.R |only inst/tinytest/test_polynomial.R | 5 - inst/tinytest/test_rational.R | 5 - inst/tinytest/test_shared.R | 99 +++++++++++----------- man/MiniMaxApprox.Rd | 98 +++++++++++++++------- man/coef.minimaxApprox.Rd | 14 ++- man/minimaxApprox-internal.Rd | 29 ++++-- man/minimaxErr.Rd | 2 man/minimaxEval.Rd | 11 +- man/plot.minimaxApprox.Rd | 2 man/print.minimaxApprox.Rd | 4 src/Chebyshev.c |only src/Chebyshev.h |only src/Makevars | 5 - src/compHorner.c | 27 +----- src/compHorner.h |only src/init.c |only 34 files changed, 568 insertions(+), 338 deletions(-)
Title: Non-Targeted Fluxomics on High-Resolution Mass-Spectrometry Data
Description: Identifying labeled compounds in a 13C-tracer experiment in
non-targeted fashion is a cumbersome process. This package facilitates
such type of analyses by providing high level quality control plots,
deconvoluting and evaluating spectra and performing a multitude of
tests in an automatic fashion. The main idea is to use changing
intensity ratios of ion pairs from peak list generated with 'xcms' as
candidates and evaluate those against base peak chromatograms and
spectra information within the raw measurement data automatically.
The functionality is described in Hoffmann et al. (2018)
<doi:10.1021/acs.analchem.8b00356>.
Author: Jan Lisec [aut, cre] ,
Friederike Hoffmann [aut]
Maintainer: Jan Lisec <jan.lisec@bam.de>
Diff between HiResTEC versions 0.62 dated 2023-02-22 and 0.62.3 dated 2024-02-26
HiResTEC-0.62.3/HiResTEC/DESCRIPTION | 18 +++-- HiResTEC-0.62.3/HiResTEC/MD5 | 24 +++---- HiResTEC-0.62.3/HiResTEC/NAMESPACE | 3 HiResTEC-0.62.3/HiResTEC/R/DetermineElementComposition.R | 3 HiResTEC-0.62.3/HiResTEC/R/EvaluateCandidateListAgainstRawData.R | 5 - HiResTEC-0.62.3/HiResTEC/R/getMultipleBPC.R | 23 ++++++- HiResTEC-0.62.3/HiResTEC/R/plotBPC.R | 8 ++ HiResTEC-0.62.3/HiResTEC/R/plotMID.R | 31 +++++++--- HiResTEC-0.62.3/HiResTEC/README.md |only HiResTEC-0.62.3/HiResTEC/man/getMultipleBPC.Rd | 6 - HiResTEC-0.62.3/HiResTEC/man/plotBPC.Rd | 6 + HiResTEC-0.62.3/HiResTEC/man/plotMID.Rd | 11 +-- HiResTEC-0.62/HiResTEC/R/CorMID_reexport.R |only HiResTEC-0.62/HiResTEC/man/CalcTheoreticalMDV.Rd |only HiResTEC-0.62/HiResTEC/man/CorMID.Rd |only 15 files changed, 87 insertions(+), 51 deletions(-)
Title: Colour Plots with Palettes from Academic Institutions
Description: Functionality to allow users to easily colour plots with the colour
palettes of various academic institutions.
Author: Hugh Warden [aut, cre]
Maintainer: Hugh Warden <hugh.warden@outlook.com>
Diff between AcademicThemes versions 0.0.1 dated 2023-03-27 and 0.0.2 dated 2024-02-26
DESCRIPTION | 6 MD5 | 22 +- NEWS.md | 5 R/colour_palettes.R | 3 inst/doc/AcademicThemes.Rmd | 8 inst/doc/AcademicThemes.html | 290 ++++++++++++++--------------- inst/doc/Colour_Palettes.Rmd | 2 inst/doc/Colour_Palettes.html | 21 +- tests/testthat/test-ggplot2_colour_layer.R | 12 - tests/testthat/test-ggplot2_fill_layer.R | 12 - vignettes/AcademicThemes.Rmd | 8 vignettes/Colour_Palettes.Rmd | 2 12 files changed, 217 insertions(+), 174 deletions(-)
More information about AcademicThemes at CRAN
Permanent link
Title: Analysis of Omics Data in Observational Studies
Description: A collection of fast and flexible functions for analyzing
omics data in observational studies. Multiple different approaches for
integrating multiple environmental/genetic factors, omics data, and/or
phenotype data are implemented. This includes functions for performing
omics wide association studies with one or more variables of interest
as the exposure or outcome; a function for performing a meet in the
middle analysis for linking exposures, omics, and outcomes (as
described by Chadeau-Hyam et al., (2010)
<doi:10.3109/1354750X.2010.533285>); and a function for performing a
mixtures analysis across all omics features using quantile-based
g-Computation (as described by Keil et al., (2019)
<doi:10.1289/EHP5838>).
Author: Jesse Goodrich [aut, cre]
Maintainer: Jesse Goodrich <jagoodri@usc.edu>
Diff between epiomics versions 1.0.0 dated 2023-03-15 and 1.1.0 dated 2024-02-26
epiomics-1.0.0/epiomics/R/owas_mixed_effects.R |only epiomics-1.0.0/epiomics/man/owas_mixed_effects.Rd |only epiomics-1.0.0/epiomics/tests/testthat/test-owas_mixed_effects.R |only epiomics-1.1.0/epiomics/DESCRIPTION | 9 epiomics-1.1.0/epiomics/MD5 | 32 epiomics-1.1.0/epiomics/NAMESPACE | 6 epiomics-1.1.0/epiomics/NEWS.md | 23 epiomics-1.1.0/epiomics/R/coef_plot_from_owas.R |only epiomics-1.1.0/epiomics/R/depreciated |only epiomics-1.1.0/epiomics/R/meet_in_middle.R | 318 ++-- epiomics-1.1.0/epiomics/R/owas.R | 640 +++++----- epiomics-1.1.0/epiomics/R/owas_clogit.R | 350 ++--- epiomics-1.1.0/epiomics/R/owas_qgcomp.R | 460 +++---- epiomics-1.1.0/epiomics/R/volcano_owas.R | 182 +- epiomics-1.1.0/epiomics/README.md | 284 ++-- epiomics-1.1.0/epiomics/build/partial.rdb |binary epiomics-1.1.0/epiomics/man/coef_plot_from_owas.Rd |only epiomics-1.1.0/epiomics/man/owas_qgcomp.Rd | 2 epiomics-1.1.0/epiomics/tests/testthat/depreciated |only epiomics-1.1.0/epiomics/tests/testthat/test_coef_plot.R |only epiomics-1.1.0/epiomics/tests/testthat/test_volcano_owas.R | 115 - 21 files changed, 1213 insertions(+), 1208 deletions(-)