Title: Group Sequential Design Class for Clinical Trials
Description: S4 class object for creating and managing group sequential designs. It calculates the efficacy and futility boundaries at each look. It allows modifying the design and tracking the design update history.
Author: David A Schoenfeld and Hui Zheng
Maintainer: Hui Zheng <hzheng1@mgh.harvard.edu>
Diff between seqmon versions 2.3 dated 2019-03-05 and 2.4 dated 2020-09-04
seqmon-2.3/seqmon/R/sequential_design_classV2.3.R |only seqmon-2.4/seqmon/DESCRIPTION | 8 ++-- seqmon-2.4/seqmon/LICENSE | 2 - seqmon-2.4/seqmon/MD5 | 8 ++-- seqmon-2.4/seqmon/R/sequential_design_classV2.4.R |only seqmon-2.4/seqmon/man/seqmon.Rd | 41 ++++++++++++---------- 6 files changed, 32 insertions(+), 27 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models,
and it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint,
Excel, RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or
'knitr' dynamic documents.
Author: Vincent Arel-Bundock [aut, cre]
(<https://orcid.org/0000-0003-2042-7063>)
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 0.6.0 dated 2020-09-02 and 0.6.1 dated 2020-09-04
DESCRIPTION | 6 ++--- MD5 | 16 +++++++------ NEWS.md | 4 +++ R/convenience.R | 57 ++++++++++++++++++++++++++++++++++++++++++++++++ R/modelsummary.R | 5 ++-- README.md | 2 - build/modelsummary.pdf |binary man/coef_map_felm_iv.Rd |only man/gof_map.Rd | 6 +---- man/tidy_felm_iv.Rd |only 10 files changed, 79 insertions(+), 17 deletions(-)
Title: Generalized Linear Mixed Model Association Tests
Description: Perform association tests using generalized linear mixed models (GLMMs) in genome-wide association studies (GWAS) and sequencing association studies. First, GMMAT fits a GLMM with covariate adjustment and random effects to account for population structure and familial or cryptic relatedness. For GWAS, GMMAT performs score tests for each genetic variant as proposed in Chen et al. (2016) <DOI:10.1016/j.ajhg.2016.02.012>. For candidate gene studies, GMMAT can also perform Wald tests to get the effect size estimate for each genetic variant. For rare variant analysis from sequencing association studies, GMMAT performs the variant Set Mixed Model Association Tests (SMMAT) as proposed in Chen et al. (2019) <DOI:10.1016/j.ajhg.2018.12.012>, including the burden test, the sequence kernel association test (SKAT), SKAT-O and an efficient hybrid test of the burden test and SKAT, based on user-defined variant sets.
Author: Han Chen, Matthew P. Conomos, Duy T. Pham
Maintainer: Han Chen <Han.Chen.2@uth.tmc.edu>
Diff between GMMAT versions 1.2.0 dated 2020-05-15 and 1.3.0 dated 2020-09-04
DESCRIPTION | 10 MD5 | 144 +++ R/glmm.score.R | 801 ++++++++++--------- R/glmm.wald.R | 1 R/glmmkin.R | 1557 ++++++++++++++++++------------------- inst/COPYRIGHTS | 2 inst/doc/GMMAT.R | 31 inst/doc/GMMAT.Rnw | 1615 +++++++++++++++++++-------------------- inst/doc/GMMAT.pdf |binary inst/extdata/geno.bgen |only inst/extdata/geno.sample |only inst/extdata/readme | 1 man/GMMAT-package.Rd | 6 man/glmm.score.Rd | 18 src/Makevars | 95 ++ src/Makevars.win | 97 ++ src/fitglmm.cpp | 958 +++++++++++++++++++++++ src/libdeflate-1.6 |only src/read_bgen.h |only src/registerDynamicSymbol.c | 18 src/zstd-1.4.5 |only tests/testthat/test_glmm.score.R | 377 ++++++++- vignettes/GMMAT.Rnw | 1615 +++++++++++++++++++-------------------- 23 files changed, 4549 insertions(+), 2797 deletions(-)
Title: Multinomial Goodness-of-Fit Tests
Description: Computes exact p-values for multinomial goodness-of-fit tests based on multiple test statistics, namely, Pearson's chi-square, the log-likelihood ratio and the probability mass statistic. Implements the algorithm detailed in Resin (2020) <arXiv:2008.12682>. Estimates based on the classical asymptotic chi-square approximation or Monte-Carlo simulation can also be computed.
Author: Johannes Resin
Maintainer: Johannes Resin <johannes.resin@h-its.org>
Diff between ExactMultinom versions 0.1.1 dated 2020-09-04 and 0.1.2 dated 2020-09-04
DESCRIPTION | 6 ++--- MD5 | 12 +++++------ NAMESPACE | 1 NEWS.md | 4 +++ R/multinom.test.R | 52 +++++++++++++++++++++++++++++---------------------- README.md | 2 - man/multinom.test.Rd | 18 ++++++++--------- 7 files changed, 54 insertions(+), 41 deletions(-)
Title: Get Images Out of DICOM Format Quickly
Description: Provides tools to sort DICOM-format medical image files, and
convert them to NIfTI-1 format.
Author: Jon Clayden [aut, cre] (<https://orcid.org/0000-0002-6608-0619>),
Chris Rorden [aut],
Martin J Fiedler [cph],
Cong Xu [cph],
Pascal Gloor [cph]
Maintainer: Jon Clayden <code@clayden.org>
Diff between divest versions 0.8.2 dated 2020-01-09 and 0.9.0 dated 2020-09-04
DESCRIPTION | 12 MD5 | 26 NEWS | 10 R/read.R | 8 README.md | 32 src/dcm2niix/nifti1_io_core.cpp | 63 + src/dcm2niix/nifti1_io_core.h | 10 src/dcm2niix/nii_dicom.cpp | 901 +++++++++++++---- src/dcm2niix/nii_dicom.h | 20 src/dcm2niix/nii_dicom_batch.cpp | 1996 +++++++++++++++++++++++++-------------- src/dcm2niix/nii_dicom_batch.h | 13 src/dcm2niix/print.h | 3 tests/testthat/test-05-read.R | 4 tests/testthat/test-10-qa.R | 4 14 files changed, 2184 insertions(+), 918 deletions(-)
Title: Confidence or Prediction Intervals, Quantiles, and Probabilities
for Statistical Models
Description: Functions to append confidence intervals, prediction intervals,
and other quantities of interest to data frames. All appended quantities
are for the response variable, after conditioning on the model and covariates.
This package has a data frame first syntax that allows for easy piping.
Currently supported models include (log-) linear, (log-) linear mixed,
generalized linear models, generalized linear mixed models, and
accelerated failure time models.
Author: John Haman [cre, aut],
Matthew Avery [aut],
Institute for Defense Analyses [cph]
Maintainer: John Haman <jhaman@ida.org>
Diff between ciTools versions 0.5.2 dated 2020-06-12 and 0.6.0 dated 2020-09-04
DESCRIPTION | 13 - MD5 | 166 +++++++++++----------- NAMESPACE | 3 R/add_ci.R | 15 -- R/add_ci_glm.R | 52 +++---- R/add_ci_glmer.R | 56 ++++--- R/add_ci_lm.R | 33 ++-- R/add_ci_lmer.R | 42 ++--- R/add_ci_lognormal.R | 32 ++-- R/add_ci_negbin.R | 52 +++---- R/add_ci_survreg.R | 72 ++++----- R/add_pi.R | 12 - R/add_pi_glm.R | 50 +++--- R/add_pi_glmer.R | 38 ++--- R/add_pi_lm.R | 28 +-- R/add_pi_lmer.R | 56 +++---- R/add_pi_lognormal.R | 16 +- R/add_pi_negbin.R | 32 ++-- R/add_pi_survreg.R | 76 +++++----- R/add_probs.R | 14 - R/add_probs_glm.R | 56 +++---- R/add_probs_glmer.R | 44 +++--- R/add_probs_lm.R | 30 ++-- R/add_probs_lmer.R | 42 ++--- R/add_probs_negbin.R | 36 ++-- R/add_probs_survreg.R | 76 +++++----- R/add_quantile.R | 12 - R/add_quantile_glm.R | 38 ++--- R/add_quantile_glmer.R | 42 +++-- R/add_quantile_lm.R | 20 +- R/add_quantile_lmer.R | 44 +++--- R/add_quantile_lognormal.R | 14 - R/add_quantile_negbin.R | 24 +-- R/add_quantile_survreg.R | 72 ++++----- R/helper_functions.R | 26 +-- build/vignette.rds |binary inst/doc/ciTools-binomial-vignette.R | 36 ++-- inst/doc/ciTools-binomial-vignette.Rmd | 46 +++--- inst/doc/ciTools-binomial-vignette.html | 174 ++++++++++------------- inst/doc/ciTools-demo.R | 61 ++++---- inst/doc/ciTools-demo.Rmd | 73 +++++---- inst/doc/ciTools-demo.html | 124 ++++++++-------- inst/doc/ciTools-glm-vignette.R | 56 +++---- inst/doc/ciTools-glm-vignette.Rmd | 64 ++++---- inst/doc/ciTools-glm-vignette.html | 198 ++++++++++++--------------- inst/doc/ciTools_survreg_vignette.R | 79 +++++----- inst/doc/ciTools_survreg_vignette.Rmd | 111 +++++++-------- inst/doc/ciTools_survreg_vignette.html | 105 ++++++++------ inst/doc/citools-merMod-vignette.R | 193 +++++++++++++------------- inst/doc/citools-merMod-vignette.Rmd | 204 +++++++++++++-------------- inst/doc/citools-merMod-vignette.html | 234 ++++++++++++++------------------ man/add_ci.Rd | 12 - man/add_ci.glm.Rd | 8 - man/add_ci.glmerMod.Rd | 18 +- man/add_ci.lm.Rd | 12 - man/add_ci.lmerMod.Rd | 6 man/add_ci.negbin.Rd | 8 - man/add_ci.survreg.Rd | 18 +- man/add_pi.Rd | 12 - man/add_pi.glm.Rd | 6 man/add_pi.glmerMod.Rd | 18 +- man/add_pi.lm.Rd | 8 - man/add_pi.lmerMod.Rd | 6 man/add_pi.negbin.Rd | 6 man/add_pi.survreg.Rd | 18 +- man/add_probs.Rd | 14 - man/add_probs.glm.Rd | 8 - man/add_probs.glmerMod.Rd | 21 +- man/add_probs.lm.Rd | 10 - man/add_probs.lmerMod.Rd | 10 - man/add_probs.negbin.Rd | 8 - man/add_probs.survreg.Rd | 22 +-- man/add_quantile.Rd | 12 - man/add_quantile.glm.Rd | 6 man/add_quantile.glmerMod.Rd | 19 +- man/add_quantile.lm.Rd | 6 man/add_quantile.lmerMod.Rd | 6 man/add_quantile.negbin.Rd | 6 man/add_quantile.survreg.Rd | 20 +- vignettes/ciTools-binomial-vignette.Rmd | 46 +++--- vignettes/ciTools-demo.Rmd | 73 +++++---- vignettes/ciTools-glm-vignette.Rmd | 64 ++++---- vignettes/ciTools_survreg_vignette.Rmd | 111 +++++++-------- vignettes/citools-merMod-vignette.Rmd | 204 +++++++++++++-------------- 84 files changed, 2004 insertions(+), 2010 deletions(-)
Title: Sustainable Transport Planning
Description: Tools for transport planning with an emphasis on spatial transport
data and non-motorized modes. Enables common transport planning tasks including:
downloading and cleaning transport datasets; creating geographic "desire lines"
from origin-destination (OD) data; route assignment, locally and via
interfaces to routing services such as <https://cyclestreets.net/>;
calculation of route segment attributes such as bearing and aggregate flow;
and 'travel watershed' analysis.
See Lovelace and Ellison (2018) <doi:10.32614/RJ-2018-053> and vignettes
for details.
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>),
Richard Ellison [aut],
Malcolm Morgan [aut] (<https://orcid.org/0000-0002-9488-9183>),
Barry Rowlingson [ctb] (Author of overline),
Nick Bearman [ctb] (Co-author of gclip),
Nikolai Berkoff [ctb] (Co-author of line2route),
Scott Chamberlain [rev] (Scott reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/10),
Mark Padgham [ctb],
Andrea Gilardi [ctb] (<https://orcid.org/0000-0002-9424-7439>)
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between stplanr versions 0.7.1 dated 2020-08-28 and 0.7.2 dated 2020-09-04
DESCRIPTION | 9 +-- MD5 | 50 +++++++++-------- NEWS.md | 5 + R/geo_projected.R | 45 +++++++++------ R/linefuns.R | 42 +++++++++----- R/overline.R | 35 ++++++------ R/toptail.R | 72 +++++++++++-------------- README.md | 89 ++++++++++++++++++++----------- inst/doc/stplanr-od.html | 6 +- inst/doc/stplanr-route-nets.html | 22 ++++--- inst/doc/stplanr.R | 4 - inst/doc/stplanr.Rmd | 7 +- inst/doc/stplanr.html | 13 ++-- man/angle_diff.Rd | 23 ++++---- man/figures/README-plot1-1.png |binary man/figures/README-plot2-1.png |only man/figures/README-unnamed-chunk-5-1.png |only man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-9-1.png |only man/geo_buffer.Rd | 24 +++++--- man/geo_length.Rd | 8 ++ man/geo_projected.Rd | 13 ++-- man/geo_toptail.Rd | 24 +++----- man/gsection.Rd | 35 ++++++------ man/line_bearing.Rd | 19 ++++-- man/toptail_buff.Rd | 20 +++--- vignettes/rsconnect |only vignettes/stplanr.Rmd | 7 +- 28 files changed, 324 insertions(+), 248 deletions(-)
Title: Convert Values to NA
Description: Provides a replacement for dplyr::na_if(). Allows
you to specify multiple values to be replaced with NA using a single
function.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between fauxnaif versions 0.6.0 dated 2020-08-03 and 0.6.1 dated 2020-09-04
fauxnaif-0.6.0/fauxnaif/R/utils-pipe.R |only fauxnaif-0.6.0/fauxnaif/inst/CITATION |only fauxnaif-0.6.0/fauxnaif/man/pipe.Rd |only fauxnaif-0.6.1/fauxnaif/DESCRIPTION | 16 fauxnaif-0.6.1/fauxnaif/MD5 | 41 +- fauxnaif-0.6.1/fauxnaif/NAMESPACE | 56 +-- fauxnaif-0.6.1/fauxnaif/NEWS.md | 9 fauxnaif-0.6.1/fauxnaif/R/error_helpers.r | 6 fauxnaif-0.6.1/fauxnaif/R/faux_census.r | 18 - fauxnaif-0.6.1/fauxnaif/R/faux_na_if.r | 19 - fauxnaif-0.6.1/fauxnaif/R/fauxnaif-package.R | 2 fauxnaif-0.6.1/fauxnaif/R/na_if.r | 35 + fauxnaif-0.6.1/fauxnaif/R/scoped_na_if.r | 36 -- fauxnaif-0.6.1/fauxnaif/README.md | 16 fauxnaif-0.6.1/fauxnaif/build/fauxnaif.pdf |binary fauxnaif-0.6.1/fauxnaif/inst/doc/fauxnaif.R | 1 fauxnaif-0.6.1/fauxnaif/inst/doc/fauxnaif.Rmd | 1 fauxnaif-0.6.1/fauxnaif/inst/doc/fauxnaif.html | 53 +- fauxnaif-0.6.1/fauxnaif/man/faux_census.Rd | 3 fauxnaif-0.6.1/fauxnaif/man/na_if_in.Rd | 23 - fauxnaif-0.6.1/fauxnaif/tests/testthat/test-na_if.R | 6 fauxnaif-0.6.1/fauxnaif/tests/testthat/test-scoped_na_if.R | 231 +++++++------ fauxnaif-0.6.1/fauxnaif/vignettes/fauxnaif.Rmd | 1 23 files changed, 298 insertions(+), 275 deletions(-)
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Functions for simulating and testing particular item and test structures are included. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, factor analysis and structural equation models are created using basic graphics. Some of the functions are written to support a book on psychometric theory as well as publications in personality research. For more information, see the <https://personality-project.org/r/> web page.
Author: William Revelle [aut, cre] (<https://orcid.org/0000-0003-4880-9610>)
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.0.7 dated 2020-07-26 and 2.0.8 dated 2020-09-04
DESCRIPTION | 14 ++--- MD5 | 117 ++++++++++++++++++++++--------------------- NAMESPACE | 3 - R/alpha.R | 8 +- R/bassAckward.diagram.r | 46 ++++++++-------- R/densityBy.r | 30 +++++++++-- R/describe.R | 10 ++- R/describe.by.R | 2 R/diagram.R | 4 - R/error.bars.R | 2 R/error.bars.by.R | 21 ++++--- R/faBy.R | 11 ++-- R/factor.scores.R | 2 R/factor.stats.R | 9 ++- R/matrix.na.r | 2 R/misc.R | 25 +++++++-- R/new.ICLUST.diagram.R | 2 R/omegaSem.R | 13 +++- R/print.psych.R | 17 +++--- R/score.items.R | 24 ++++++-- R/sim.parallel.r | 9 --- R/sim.structural.R | 24 ++++---- R/simCor.r |only R/summary.psych.R | 4 + R/test.psych.r | 1 R/testRetest.r | 12 ++-- R/unidim.r | 57 ++++++++++++++------ build/vignette.rds |binary inst/CITATION | 4 - inst/News.Rd | 83 +++++++++++++++++++++++------- inst/doc/intro.pdf |binary inst/doc/omega.R |only inst/doc/omega.Rnw |only inst/doc/omega.pdf |only man/00.psych-package.Rd | 12 ++-- man/alpha.Rd | 2 man/best.scales.Rd | 2 man/bfi.Rd | 4 - man/cluster.cor.Rd | 2 man/cluster.loadings.Rd | 3 - man/cor.ci.Rd | 2 man/densityBy.Rd | 11 ++-- man/describe.Rd | 8 +- man/describe.by.Rd | 14 ++--- man/fa.Rd | 8 ++ man/fa.lookup.Rd | 5 + man/factor.rotate.Rd | 2 man/factor.scores.Rd | 2 man/mixed.cor.Rd | 6 +- man/omega.Rd | 6 +- man/omega.graph.Rd | 2 man/sat.act.Rd | 4 - man/scaling.fits.Rd | 2 man/score.alpha.Rd | 4 - man/score.items.Rd | 8 +- man/score.multiple.choice.Rd | 2 man/sim.structural.Rd | 20 +++++-- man/testRetest.Rd | 2 man/tetrachor.Rd | 4 + man/thurstone.Rd | 2 man/unidim.Rd | 64 +++++++++++++++-------- vignettes/omega.Rnw |only 62 files changed, 482 insertions(+), 277 deletions(-)
Title: Valence Aware Dictionary and sEntiment Reasoner (VADER)
Description: A lexicon and rule-based sentiment analysis tool that is specifically
attuned to sentiments expressed in social media, and works well on texts from other
domains. Hutto & Gilbert (2014) <https://www.aaai.org/ocs/index.php/ICWSM/ICWSM14/paper/view/8109/8122>.
Author: Katherine Roehrick [aut, cre]
Maintainer: Katherine Roehrick <kr.gitcode@gmail.com>
Diff between vader versions 0.1.1 dated 2020-06-09 and 0.2.0 dated 2020-09-04
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/vader_df.R | 29 ++++------------------------- R/vader_main_call.R | 4 ++-- R/vader_sentiment_vector.R | 12 ++++++++---- man/get_vader.Rd | 2 +- man/vader_df.Rd | 2 +- 8 files changed, 32 insertions(+), 44 deletions(-)
Title: Comparative 'Phylogenetic' Analyses of Diversification
Description: Contains a number of comparative 'phylogenetic' methods,
mostly focusing on analysing diversification and character
evolution. Contains implementations of 'BiSSE' (Binary State
'Speciation' and Extinction) and its unresolved tree extensions,
'MuSSE' (Multiple State 'Speciation' and Extinction), 'QuaSSE',
'GeoSSE', and 'BiSSE-ness' Other included methods include Markov
models of discrete and continuous trait evolution and constant rate
'speciation' and extinction.
Author: Richard G. FitzJohn [aut, cre],
Emma Goldberg [aut],
Karen Magnuson-Ford [aut],
Roger Sidje [aut]
Maintainer: Richard G. FitzJohn <rich.fitzjohn@gmail.com>
Diff between diversitree versions 0.9-13 dated 2020-01-16 and 0.9-14 dated 2020-09-04
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- build/partial.rdb |binary configure | 1 + configure.ac | 1 + man/make.bm.Rd | 2 +- 6 files changed, 12 insertions(+), 10 deletions(-)
Title: Fetch Sections of XML Scholarly Articles
Description: Get chunks of XML scholarly articles without
having to know how to work with XML. Custom mappers
for each publisher and for each article section pull
out the information you want. Works with outputs from
package 'fulltext', 'xml2' package documents, and file
paths to XML documents.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
rOpenSci [fnd] (https://ropensci.org)
Maintainer: Scott Chamberlain <sckott@protonmail.com>
Diff between pubchunks versions 0.2.2 dated 2020-06-28 and 0.3.0 dated 2020-09-04
DESCRIPTION | 10 +-- MD5 | 31 +++++---- NAMESPACE | 4 + NEWS.md | 8 ++ R/chunks-mappers.R | 121 +++++++++++++++++++++++++++++++++++--- R/chunks.R | 14 +++- R/pub_guess_publisher.R | 3 R/pubchunks-package.R | 5 + R/tabularize.R | 3 README.md | 28 ++++---- inst/examples/elife_2.xml |only inst/examples/f1000research_3.xml |only inst/examples/frontiers_1.xml | 28 ++++++++ inst/examples/pensoft_2.xml |only man/pub_chunks.Rd | 12 +++ man/pub_guess_publisher.Rd | 2 man/pub_tabularize.Rd | 2 man/pubchunks-package.Rd | 2 18 files changed, 220 insertions(+), 53 deletions(-)
Title: A Gui for Simulating Time Series
Description: This gui shows realisations of times series, currently ARMA and GARCH processes. It might be helpful for teaching and studying.
Author: Martin Schlather [aut, cre],
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between tsgui versions 0.0.3 dated 2017-09-18 and 0.2.1 dated 2020-09-04
tsgui-0.0.3/tsgui/man/macros |only tsgui-0.0.3/tsgui/src |only tsgui-0.2.1/tsgui/DESCRIPTION | 18 +++--- tsgui-0.2.1/tsgui/MD5 | 18 ++---- tsgui-0.2.1/tsgui/NAMESPACE | 2 tsgui-0.2.1/tsgui/R/tsgui.R | 40 +++++++++---- tsgui-0.2.1/tsgui/R/zzz.R | 4 - tsgui-0.2.1/tsgui/inst/CITATION | 2 tsgui-0.2.1/tsgui/man/tsgui.Rd | 117 ++++++++++++++++++++++++++++++++++++++++ 9 files changed, 164 insertions(+), 37 deletions(-)
Title: Multiple Pairwise Comparison Tests
Description: Multiple pairwise comparison tests on tidy data for
one-way analysis of variance for both between-subjects and
within-subjects designs. Currently, it supports only the most common
types of statistical analyses and tests: parametric (Welch's and
Student's t-test), nonparametric (Durbin-Conover and Dunn test),
robust (Yuen’s trimmed means test), and Bayes Factor (Student's
t-test).
Author: Indrajeet Patil [cre, aut, cph]
(<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between pairwiseComparisons versions 1.1.2 dated 2020-06-23 and 2.0.0 dated 2020-09-04
pairwiseComparisons-1.1.2/pairwiseComparisons/tests/testthat/test-pairwise_comparisons.R |only pairwiseComparisons-2.0.0/pairwiseComparisons/DESCRIPTION | 8 pairwiseComparisons-2.0.0/pairwiseComparisons/MD5 | 25 pairwiseComparisons-2.0.0/pairwiseComparisons/NEWS.md | 10 pairwiseComparisons-2.0.0/pairwiseComparisons/R/data.R | 18 pairwiseComparisons-2.0.0/pairwiseComparisons/R/games_howell.R | 36 pairwiseComparisons-2.0.0/pairwiseComparisons/R/pairwise_comparisons.R | 64 pairwiseComparisons-2.0.0/pairwiseComparisons/README.md | 816 ++++------ pairwiseComparisons-2.0.0/pairwiseComparisons/man/figures/README-ggsignif-1.png |binary pairwiseComparisons-2.0.0/pairwiseComparisons/man/games_howell.Rd | 54 pairwiseComparisons-2.0.0/pairwiseComparisons/man/movies_long.Rd | 96 - pairwiseComparisons-2.0.0/pairwiseComparisons/man/movies_wide.Rd | 100 - pairwiseComparisons-2.0.0/pairwiseComparisons/man/pairwise_comparisons.Rd | 4 pairwiseComparisons-2.0.0/pairwiseComparisons/tests/testthat/test-pairwise_comparisons_between.R |only pairwiseComparisons-2.0.0/pairwiseComparisons/tests/testthat/test-pairwise_comparisons_within.R |only 15 files changed, 598 insertions(+), 633 deletions(-)
More information about pairwiseComparisons at CRAN
Permanent link
Title: Visible Vowels: Visualization of Vowel Variation
Description: Visualizes vowel variation in f0, F1, F2, F3 and duration.
Author: Wilbert Heeringa, Hans Van de Velde
Maintainer: Wilbert Heeringa <wjheeringa@gmail.com>
Diff between visvow versions 1.0.0 dated 2020-08-26 and 1.1.0 dated 2020-09-04
visvow-1.0.0/visvow/inst/visvow.pdf |only visvow-1.1.0/visvow/DESCRIPTION | 6 visvow-1.1.0/visvow/MD5 | 9 visvow-1.1.0/visvow/R/visvow.R | 329 +++++++++++++------------------- visvow-1.1.0/visvow/build/partial.rdb |binary visvow-1.1.0/visvow/inst/doc/visvow.pdf |binary 6 files changed, 144 insertions(+), 200 deletions(-)
Title: Score Test and Meta-Analysis Based on Saddlepoint Approximation
Description: Performs score test using saddlepoint approximation to estimate the null distribution. Also prepares summary statistics for meta-analysis and performs meta-analysis to combine multiple association results. For the latest version, please check <https://github.com/leeshawn/SPAtest>.
Author: Rounak Dey, Seunggeun Lee
Maintainer: Rounak Dey <deyrnk@umich.edu>
Diff between SPAtest versions 3.0.2 dated 2020-01-10 and 3.1.2 dated 2020-09-04
DESCRIPTION | 8 ++-- MD5 | 8 ++-- R/SPA_functions.R | 94 +++++++++++++++++++++++++++++++++++---------------- man/Saddle_Prob.Rd | 16 +++++--- man/ScoreTest_SPA.Rd | 11 +++-- 5 files changed, 91 insertions(+), 46 deletions(-)
Title: Interface to 'Zenodo' REST API
Description: Provides an Interface to 'Zenodo' (<https://zenodo.org>) REST API,
including management of depositions, attribution of DOIs by 'Zenodo' and
upload of files.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>),
Julien Barde [ctb] (<https://orcid.org/0000-0002-3519-6141>),
Stephen Eglen [ctb] (<https://orcid.org/0000-0001-8607-8025>),
Hans Van Calster [ctb] (<https://orcid.org/0000-0001-8595-8426>),
Floris Vanderhaeghe [ctb] (<https://orcid.org/0000-0002-6378-6229>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between zen4R versions 0.4-1 dated 2020-09-03 and 0.4-2 dated 2020-09-04
DESCRIPTION | 12 ++++++------ MD5 | 20 ++++++++++---------- NAMESPACE | 1 - NEWS.md | 8 ++++++++ R/ZenodoManager.R | 15 ++++++++++----- R/ZenodoRecord.R | 15 +++++++++++---- R/zen4R.R | 5 ++--- R/zen4R_downloader.R | 1 + README.md | 2 +- man/download_zenodo.Rd | 1 + man/zen4R.Rd | 4 ++-- 11 files changed, 52 insertions(+), 32 deletions(-)
Title: Likelihood Estimation of Stochastic Volatility Models
Description: Parameter estimation for stochastic volatility models using maximum likelihood. The latent log-volatility is
integrated out of the likelihood using the Laplace approximation. The models are fitted via 'TMB' (Template Model
Builder) (Kristensen, Nielsen, Berg, Skaug, and Bell (2016) <doi:10.18637/jss.v070.i05>).
Author: Jens Christian Wahl <jens.c.wahl@gmail.com>
Maintainer: Jens Christian Wahl <jens.c.wahl@gmail.com>
Diff between stochvolTMB versions 0.1.0 dated 2020-09-02 and 0.1.2 dated 2020-09-04
DESCRIPTION | 6 ++--- MD5 | 20 ++++++++--------- R/simSV.R | 2 - README.md | 2 - inst/doc/stochvolTMB_vignette.html | 8 +++--- man/estimate_parameters.Rd | 3 +- man/plot.stochvolTMB.Rd | 3 +- man/sim_sv.Rd | 23 +++++++++++--------- man/summary.Rd | 9 +++++-- src/stochvolTMB.cpp | 16 ++++++------- tests/testthat/test_objects/estimate_parameters.rds |binary 11 files changed, 50 insertions(+), 42 deletions(-)
Title: Spatial Individual-Plant Modelling
Description: A platform for computing competition indices and experimenting
with spatially explicit individual-based vegetation models.
Author: Oscar Garcia <https://orcid.org/0000-0002-8995-1341>
Maintainer: Oscar Garcia <garcia@dasometrics.net>
Diff between siplab versions 1.4 dated 2019-04-01 and 1.5 dated 2020-09-04
siplab-1.4/siplab/R/assimilation.pix.R |only siplab-1.4/siplab/R/flat.eff.R |only siplab-1.4/siplab/R/gates.eff.R |only siplab-1.4/siplab/R/gates.inf.R |only siplab-1.4/siplab/R/gnomon.eff.R |only siplab-1.4/siplab/R/gnomon.inf.R |only siplab-1.4/siplab/R/powers.ker.R |only siplab-1.4/siplab/R/powlinear.sel.R |only siplab-1.4/siplab/R/size.sel.R |only siplab-1.4/siplab/R/spurr.ker.R |only siplab-1.4/siplab/R/staebler.ker.R |only siplab-1.4/siplab/R/tass.eff.R |only siplab-1.4/siplab/R/tass.inf.R |only siplab-1.4/siplab/R/zoi.inf.R |only siplab-1.5/siplab/DESCRIPTION | 21 +++++---- siplab-1.5/siplab/MD5 | 71 +++++++++++++++++++------------- siplab-1.5/siplab/R/assimilation.R | 28 ++++++++---- siplab-1.5/siplab/R/assimilation_pix.R |only siplab-1.5/siplab/R/flat_eff.R |only siplab-1.5/siplab/R/gates_eff.R |only siplab-1.5/siplab/R/gates_inf.R |only siplab-1.5/siplab/R/gnomon_eff.R |only siplab-1.5/siplab/R/gnomon_inf.R |only siplab-1.5/siplab/R/pairwise.R | 39 +++++++++++------ siplab-1.5/siplab/R/powers_ker.R |only siplab-1.5/siplab/R/powlinear_sel.R |only siplab-1.5/siplab/R/size_sel.R |only siplab-1.5/siplab/R/spurr_ker.R |only siplab-1.5/siplab/R/staebler_ker.R |only siplab-1.5/siplab/R/tass_eff.R |only siplab-1.5/siplab/R/tass_inf.R |only siplab-1.5/siplab/R/zoi_inf.R |only siplab-1.5/siplab/build |only siplab-1.5/siplab/inst/CITATION | 5 -- siplab-1.5/siplab/inst/NEWS | 8 +++ siplab-1.5/siplab/inst/doc |only siplab-1.5/siplab/man/assimilation.Rd | 34 +++++++-------- siplab-1.5/siplab/man/boreas.Rd | 3 - siplab-1.5/siplab/man/edges.Rd | 12 ++--- siplab-1.5/siplab/man/efficiency.Rd | 49 ++++++++++++---------- siplab-1.5/siplab/man/influence.Rd | 54 +++++++++++++----------- siplab-1.5/siplab/man/kernel.Rd | 38 +++++++++-------- siplab-1.5/siplab/man/pairwise.Rd | 17 +++---- siplab-1.5/siplab/man/select.Rd | 25 ++++++----- siplab-1.5/siplab/man/siplab-package.Rd | 39 ++++++++++------- siplab-1.5/siplab/vignettes |only 46 files changed, 258 insertions(+), 185 deletions(-)
Title: Risk Tool Library
Description: Collection of functions and metadata to complement core packages
in Finance and Commodities, including futures expiry tables and <https://www.morningstar.com/products/commodities-and-energy/>
API functions. See <https://github.com/risktoollib/RTL>.
Author: Philippe Cote [aut, cre],
Nima Safaian [aut]
Maintainer: Philippe Cote <pcote@ualberta.ca>
Diff between RTL versions 0.1.3 dated 2020-06-07 and 0.1.4 dated 2020-09-04
RTL-0.1.3/RTL/data/twoott.rda |only RTL-0.1.3/RTL/data/twtrump.rda |only RTL-0.1.3/RTL/man/twoott.Rd |only RTL-0.1.3/RTL/man/twtrump.Rd |only RTL-0.1.4/RTL/DESCRIPTION | 16 +-- RTL-0.1.4/RTL/MD5 | 77 +++++++++++------- RTL-0.1.4/RTL/NAMESPACE | 6 + RTL-0.1.4/RTL/NEWS.md | 62 +++++++++------ RTL-0.1.4/RTL/R/chart_eia_sd.R |only RTL-0.1.4/RTL/R/chart_eia_steo.R |only RTL-0.1.4/RTL/R/chart_fwd_curves.R | 3 RTL-0.1.4/RTL/R/data.R | 46 ++++++++--- RTL-0.1.4/RTL/R/distdescplot.R | 12 +- RTL-0.1.4/RTL/R/eia2tidy.R | 7 - RTL-0.1.4/RTL/R/garch.R | 21 +++-- RTL-0.1.4/RTL/R/globals.R | 8 + RTL-0.1.4/RTL/R/morningstar.R | 84 ++++++++++++++++++++ RTL-0.1.4/RTL/R/refineryLP.R |only RTL-0.1.4/RTL/R/swapFutWeight.R |only RTL-0.1.4/RTL/R/swapInfo.R |only RTL-0.1.4/RTL/README.md | 127 +++++++++++++++---------------- RTL-0.1.4/RTL/data/crudepipelines.rda |binary RTL-0.1.4/RTL/data/crudes.rda |binary RTL-0.1.4/RTL/data/dflong.rda |binary RTL-0.1.4/RTL/data/dfwide.rda |binary RTL-0.1.4/RTL/data/eiaStorageCap.rda |binary RTL-0.1.4/RTL/data/fizdiffs.rda |only RTL-0.1.4/RTL/data/productspipelines.rda |only RTL-0.1.4/RTL/data/productsterminals.rda |only RTL-0.1.4/RTL/data/ref.opt.inputs.rda |only RTL-0.1.4/RTL/data/ref.opt.outputs.rda |only RTL-0.1.4/RTL/data/refineries.rda |binary RTL-0.1.4/RTL/data/tickers_eia.rda |binary RTL-0.1.4/RTL/data/tradeprocess.rda |only RTL-0.1.4/RTL/man/chart_eia_sd.Rd |only RTL-0.1.4/RTL/man/chart_eia_steo.Rd |only RTL-0.1.4/RTL/man/chart_fwd_curves.Rd | 3 RTL-0.1.4/RTL/man/crudepipelines.Rd | 5 - RTL-0.1.4/RTL/man/df_fut.Rd | 2 RTL-0.1.4/RTL/man/dflong.Rd | 2 RTL-0.1.4/RTL/man/dfwide.Rd | 2 RTL-0.1.4/RTL/man/eia2tidy.Rd | 5 - RTL-0.1.4/RTL/man/fizdiffs.Rd |only RTL-0.1.4/RTL/man/getCurve.Rd |only RTL-0.1.4/RTL/man/productspipelines.Rd |only RTL-0.1.4/RTL/man/productsterminals.Rd |only RTL-0.1.4/RTL/man/ref.opt.inputs.Rd |only RTL-0.1.4/RTL/man/ref.opt.outputs.Rd |only RTL-0.1.4/RTL/man/refineries.Rd | 5 - RTL-0.1.4/RTL/man/refineryLP.Rd |only RTL-0.1.4/RTL/man/swapFutWeight.Rd |only RTL-0.1.4/RTL/man/swapInfo.Rd |only RTL-0.1.4/RTL/man/tradeprocess.Rd |only 53 files changed, 334 insertions(+), 159 deletions(-)
Title: Kernel Operations on the GPU, with Autodiff, without Memory
Overflows
Description: The 'KeOps' library lets you compute generic reductions of very large arrays
whose entries are given by a mathematical formula. It combines a tiled reduction scheme
with an automatic differentiation engine, and can be used through 'R', 'Matlab', 'NumPy' or
'PyTorch' backends. It is perfectly suited to the computation of Kernel dot products
and the associated gradients, even when the full kernel matrix does not fit into
the GPU memory.
Author: Benjamin Charlier [aut] (<http://imag.umontpellier.fr/~charlier/>),
Jean Feydy [aut] (<https://www.math.ens.fr/~feydy/>),
Joan A. Glaunès [aut] (<https://www.mi.parisdescartes.fr/~glaunes/>),
Ghislain Durif [aut, cre] (<https://gdurif.perso.math.cnrs.fr/>),
François-David Collin [ctb] (Development-related consulting and
support),
Daniel Frey [ctb] (Author of the included C++ library 'sequences')
Maintainer: Ghislain Durif <gd.dev@libertymail.net>
Diff between rkeops versions 1.4.1 dated 2020-05-25 and 1.4.1.1 dated 2020-09-04
DESCRIPTION | 8 MD5 | 36 +-- R/common-check.R | 2 R/common-get_cmake.R | 23 +- README.md | 5 build/vignette.rds |binary inst/CMakeLists.txt | 6 inst/doc/using_rkeops.Rmd | 2 inst/doc/using_rkeops.html | 6 inst/include/keops/core/autodiff/BinaryOp.h | 58 +++++ inst/include/keops/core/autodiff/UnaryOp.h | 52 ++++ inst/include/keops/core/autodiff/Var.h | 5 inst/include/keops/core/formulas/constants/IntConst.h | 3 inst/include/keops/core/formulas/constants/Zero.h | 3 inst/include/keops/core/mapreduce/GpuConv1D.cu | 196 ++++++++++++++++-- inst/include/keops/cuda.cmake | 9 inst/include/keops/headers.cmake | 5 inst/include/keops/keops_includes.h | 15 + vignettes/using_rkeops.Rmd | 2 19 files changed, 379 insertions(+), 57 deletions(-)
Title: Tools to Easily Download Data from INSEE BDM Database
Description: Using embedded sdmx queries, get the data of more than 150 000 insee series from bdm database. Have a look at the detailed sdmx web service page with the following link : <https://www.insee.fr/en/information/2868055>.
Author: Hadrien Leclerc [aut, cre],
INSEE [cph]
Maintainer: Hadrien Leclerc <hadrien.leclerc@insee.fr>
Diff between insee versions 0.8.0 dated 2020-08-02 and 0.9.0 dated 2020-09-04
insee-0.8.0/insee/R/data_list.R |only insee-0.8.0/insee/R/get_data.R |only insee-0.8.0/insee/inst/plot.png |only insee-0.9.0/insee/DESCRIPTION | 30 ++++--- insee-0.9.0/insee/MD5 | 77 ++++++++++++++---- insee-0.9.0/insee/NAMESPACE | 5 + insee-0.9.0/insee/NEWS.md |only insee-0.9.0/insee/R/add_insee_title.R |only insee-0.9.0/insee/R/clean_table.R |only insee-0.9.0/insee/R/get_dataset_list.R |only insee-0.9.0/insee/R/get_date.R |only insee-0.9.0/insee/R/get_idbank_list.R |only insee-0.9.0/insee/R/get_insee.R |only insee-0.9.0/insee/R/get_insee_dataset.R |only insee-0.9.0/insee/R/get_insee_idbank.R |only insee-0.9.0/insee/R/get_insee_title.R |only insee-0.9.0/insee/R/get_last_release.R |only insee-0.9.0/insee/R/if_null_na.R |only insee-0.9.0/insee/R/read_sdmx_fast.R |only insee-0.9.0/insee/R/read_sdmx_slow.R |only insee-0.9.0/insee/R/search_insee.R |only insee-0.9.0/insee/R/separate_col.R |only insee-0.9.0/insee/R/split_title.R |only insee-0.9.0/insee/R/zzz.R | 18 +++- insee-0.9.0/insee/README.md | 124 ++++++++++++----------------- insee-0.9.0/insee/build |only insee-0.9.0/insee/inst/doc |only insee-0.9.0/insee/man/add_insee_title.Rd |only insee-0.9.0/insee/man/clean_table.Rd |only insee-0.9.0/insee/man/get_dataset_list.Rd | 9 +- insee-0.9.0/insee/man/get_idbank_list.Rd | 15 ++- insee-0.9.0/insee/man/get_insee.Rd | 24 ++++- insee-0.9.0/insee/man/get_insee_dataset.Rd | 18 +++- insee-0.9.0/insee/man/get_insee_idbank.Rd | 23 ++++- insee-0.9.0/insee/man/get_insee_title.Rd | 21 ++-- insee-0.9.0/insee/man/get_last_release.Rd |only insee-0.9.0/insee/man/search_insee.Rd |only insee-0.9.0/insee/man/split_title.Rd |only insee-0.9.0/insee/tests |only insee-0.9.0/insee/vignettes |only 40 files changed, 236 insertions(+), 128 deletions(-)
Title: The Full Bayesian Significance Test and the e-Value
Description: Provides access to a range of functions for computing and visualising the Full Bayesian Significance Test (FBST) and the e-value for testing a sharp hypothesis against its alternative. The methods are widely applicable as long as a posterior MCMC sample is available. For details on the computation and theory of the FBST see <arXiv:2005.13181>.
Author: Riko Kelter
Maintainer: Riko Kelter <riko.kelter@uni-siegen.de>
Diff between fbst versions 1.0 dated 2020-06-04 and 1.2 dated 2020-09-04
DESCRIPTION | 10 ++-- MD5 | 13 +++-- NAMESPACE | 3 - R/fbst.R | 129 ++++++++++++++++++++++++++++++------------------------ build/partial.rdb |binary man/access.Rd |only man/fbst-class.Rd | 12 ----- man/names.fbst.Rd |only man/show.fbst.Rd |only 9 files changed, 89 insertions(+), 78 deletions(-)
Title: Synoptic Climate Classification and Spatial Regionalization of
Environmental Data
Description: Set of functions to compute different types of synoptic classification methods and for analysing their effect on environmental variables. More information about the methods used in Lemus-Canovas et al. 2019 <DOI:10.1016/j.atmosres.2019.01.018> and Martin-Vide et al. 2008 <DOI:10.5194/asr-2-99-2008>.
Author: Marc Lemus-Canovas [aut, cre] (<https://orcid.org/0000-0002-0925-3827>),
Dominic Roye) [aut] (<https://orcid.org/0000-0002-5516-6396>)
Maintainer: Marc Lemus-Canovas <mlemus@ub.edu>
Diff between synoptReg versions 1.0.1 dated 2020-03-23 and 1.0.2 dated 2020-09-04
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/mslp.R | 2 +- R/pca_decision.R | 4 ++-- R/synoptclas.R | 6 +++--- R/z500.R | 2 +- inst/CITATION | 2 +- man/mslp.Rd | 2 +- man/z500.Rd | 2 +- 9 files changed, 21 insertions(+), 21 deletions(-)
Title: Measuring Disparity
Description: A modular package for measuring disparity (multidimensional space occupancy). Disparity can be calculated from any matrix defining a multidimensional space. The package provides a set of implemented metrics to measure properties of the space and allows users to provide and test their own metrics (Guillerme (2018) <doi:10.1111/2041-210X.13022>). The package also provides functions for looking at disparity in a serial way (e.g. disparity through time - Guillerme and Cooper (2018) <doi:10.1111/pala.12364>) or per groups as well as visualising the results. Finally, this package provides several statistical tests for disparity analysis.
Author: Thomas Guillerme [aut, cre, cph],
Mark N Puttick [aut, cph]
Maintainer: Thomas Guillerme <guillert@tcd.ie>
Diff between dispRity versions 1.4.1 dated 2020-06-03 and 1.4.2 dated 2020-09-04
DESCRIPTION | 8 ++++---- MD5 | 36 ++++++++++++++++++------------------ NAMESPACE | 2 +- NEWS.md | 3 ++- R/Claddis.ordination.R | 40 ++++++++++++++++++++-------------------- R/Claddis.ordination_fun.R | 30 ++++++++++++++++-------------- R/char.diff.R | 2 +- R/dispRity-package.R | 4 ++-- R/zzz.R | 2 +- data/BeckLee_ages.rda |binary data/BeckLee_disparity.rda |binary data/BeckLee_mat50.rda |binary data/BeckLee_mat99.rda |binary data/BeckLee_tree.rda |binary data/disparity.rda |binary man/BeckLee.Rd | 2 +- man/Claddis.ordination.Rd | 16 ++++++++-------- man/char.diff.Rd | 2 +- man/rescale.dispRity.Rd | 2 +- 19 files changed, 76 insertions(+), 73 deletions(-)
Title: Unit Root Tests for Seasonal Time Series
Description: Seasonal unit roots and seasonal stability tests.
P-values based on response surface regressions are available for both tests.
P-values based on bootstrap are available for seasonal unit root tests.
Author: Javier López-de-Lacalle [aut],
Georgi N. Boshnakov [cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between uroot versions 2.0-11 dated 2019-08-19 and 2.1-2 dated 2020-09-04
uroot-2.0-11/uroot/NEWS |only uroot-2.0-11/uroot/R/hegy-test.R.in |only uroot-2.0-11/uroot/README |only uroot-2.0-11/uroot/cleanup |only uroot-2.0-11/uroot/cleanup.win |only uroot-2.0-11/uroot/configure |only uroot-2.0-11/uroot/configure.ac |only uroot-2.0-11/uroot/configure.win |only uroot-2.0-11/uroot/src |only uroot-2.0-11/uroot/tools |only uroot-2.1-2/uroot/DESCRIPTION | 15 ++++++-------- uroot-2.1-2/uroot/MD5 | 31 ++++++++--------------------- uroot-2.1-2/uroot/NAMESPACE | 2 - uroot-2.1-2/uroot/NEWS.md |only uroot-2.1-2/uroot/R/hegy-test.R |only uroot-2.1-2/uroot/R/sysdata.rda |binary uroot-2.1-2/uroot/README.md |only uroot-2.1-2/uroot/build/vignette.rds |binary uroot-2.1-2/uroot/inst/doc/index.html | 2 - uroot-2.1-2/uroot/inst/doc/uroot-intro.pdf |binary 20 files changed, 17 insertions(+), 33 deletions(-)
Title: Generating Synthetic Versions of Sensitive Microdata for
Statistical Disclosure Control
Description: A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data. For a description of the implemented method see Nowok, Raab and Dibben (2016) <doi:10.18637/jss.v074.i11>.
Author: Beata Nowok [aut, cre],
Gillian M Raab [aut],
Chris Dibben [ctb],
Joshua Snoke [ctb],
Caspar van Lissa [ctb]
Maintainer: Beata Nowok <beata.nowok@gmail.com>
Diff between synthpop versions 1.5-1 dated 2019-03-20 and 1.6-0 dated 2020-09-04
DESCRIPTION | 21 - MD5 | 85 ++--- NAMESPACE | 6 NEWS | 41 ++ R/compare.syn.r | 236 ++++++-------- R/functions.syn.r | 214 ++++++------ R/methods.syn.r | 254 +++++++++------ R/padMis.syn.r | 14 R/sampler.syn.r | 34 +- R/syn.r | 18 - R/syn.strata.r | 3 R/zzz.r |only build/partial.rdb |binary build/vignette.rds |binary inst/doc/inference.R | 111 +++--- inst/doc/inference.Rnw | 782 +++++++++++++++++++++++------------------------ inst/doc/inference.pdf |binary inst/doc/synthpop.pdf |binary man/compare.fit.synds.Rd | 17 - man/glm.synds.Rd | 13 man/multinom.synds.Rd | 14 man/polr.synds.Rd |only man/summary.fit.synds.Rd | 26 - man/summary.synds.Rd | 4 man/syn.Rd | 52 +-- man/syn.bag.Rd | 9 man/syn.cart.Rd | 14 man/syn.catall.Rd | 12 man/syn.ipf.Rd | 14 man/syn.lognorm.Rd | 9 man/syn.logreg.Rd | 8 man/syn.nested.Rd | 8 man/syn.norm.Rd | 9 man/syn.normrank.Rd | 8 man/syn.passive.Rd | 9 man/syn.pmm.Rd | 7 man/syn.polr.Rd | 8 man/syn.polyreg.Rd | 7 man/syn.ranger.Rd |only man/syn.rf.Rd | 13 man/syn.sample.Rd | 6 man/syn.satcat.Rd | 8 man/syn.survctree.Rd | 5 man/synthpop-package.Rd | 6 vignettes/inference.Rnw | 782 +++++++++++++++++++++++------------------------ 45 files changed, 1546 insertions(+), 1341 deletions(-)
Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'.
Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions,
conditioned scatter plot with marginal densities,
box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between WVPlots versions 1.2.7 dated 2020-08-24 and 1.2.8 dated 2020-09-04
DESCRIPTION | 8 MD5 | 21 +- NAMESPACE | 1 NEWS.md | 6 R/ROC.R | 111 +++++++++++++ README.md | 1 inst/doc/WVPlots_concept.html | 4 inst/doc/WVPlots_examples.R | 17 ++ inst/doc/WVPlots_examples.Rmd | 21 ++ inst/doc/WVPlots_examples.html | 335 +++++++++++++++++++++-------------------- man/ROCPlotPairList.Rd |only vignettes/WVPlots_examples.Rmd | 21 ++ 12 files changed, 370 insertions(+), 176 deletions(-)
Title: Statistical Tools for Toroidal Diffusions
Description: Implementation of statistical methods for the estimation of
toroidal diffusions. Several diffusive models are provided, most of them
belonging to the Langevin family of diffusions on the torus. Specifically,
the wrapped normal and von Mises processes are included, which can be seen
as toroidal analogues of the Ornstein-Uhlenbeck diffusion. A collection of
methods for approximate maximum likelihood estimation, organized in four
blocks, is given: (i) based on the exact transition probability density,
obtained as the numerical solution to the Fokker-Plank equation; (ii) based
on wrapped pseudo-likelihoods; (iii) based on specific analytic
approximations by wrapped processes; (iv) based on maximum likelihood of
the stationary densities. The package allows the reproducibility of the
results in García-Portugués et al. (2019) <doi:10.1007/s11222-017-9790-2>.
Author: Eduardo García-Portugués [aut, cre]
(<https://orcid.org/0000-0002-9224-4111>)
Maintainer: Eduardo García-Portugués <edgarcia@est-econ.uc3m.es>
Diff between sdetorus versions 0.1.6 dated 2020-08-31 and 0.1.7 dated 2020-09-04
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NEWS.md | 4 ++++ src/crankNicolson.cpp | 2 +- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Ridge Regression with Automatic Selection of the Penalty
Parameter
Description: Linear and logistic ridge regression functions. Additionally includes special functions for
genome-wide single-nucleotide polymorphism (SNP) data.
Author: Steffen Moritz [aut, cre] (<https://orcid.org/0000-0002-0085-1804>),
Erika Cule [aut],
Dan Frankowski [aut]
Maintainer: Steffen Moritz <steffen.moritz10@gmail.com>
Diff between ridge versions 2.6 dated 2020-09-02 and 2.7 dated 2020-09-04
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 5 +++++ README.md | 2 +- configure | 33 ++++++++++++++++++--------------- configure.ac | 12 +++++++++++- src/config.h | 1 + src/config.h.in | 1 + 8 files changed, 48 insertions(+), 28 deletions(-)
Title: moDel Agnostic Language for Exploration and eXplanation
Description: Unverified black box model is the path to the failure. Opaqueness leads to distrust.
Distrust leads to ignoration. Ignoration leads to rejection.
DALEX package xrays any model and helps to explore and explain its behaviour.
Machine Learning (ML) models are widely used and have various applications in classification
or regression. Models created with boosting, bagging, stacking or similar techniques are often
used due to their high performance. But such black-box models usually lack of direct interpretability.
DALEX package contains various methods that help to understand the link between input variables
and model output. Implemented methods help to explore model on the level of a single instance
as well as a level of the whole dataset.
All model explainers are model agnostic and can be compared across different models.
DALEX package is the cornerstone for 'DrWhy.AI' universe of packages for visual model exploration.
Find more details in (Biecek 2018) <arXiv:1806.08915>.
Author: Przemyslaw Biecek [aut, cre] (<https://orcid.org/0000-0001-8423-1823>),
Szymon Maksymiuk [aut] (<https://orcid.org/0000-0002-3120-1601>),
Hubert Baniecki [aut] (<https://orcid.org/0000-0001-6661-5364>)
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between DALEX versions 1.3.1.1 dated 2020-08-01 and 2.0 dated 2020-09-04
DALEX-1.3.1.1/DALEX/tests/testthat/test_individual_diagnostics.R |only DALEX-1.3.1.1/DALEX/tests/testthat/test_individual_profile.R |only DALEX-1.3.1.1/DALEX/tests/testthat/test_variable_attribution.R |only DALEX-1.3.1.1/DALEX/tests/testthat/test_variable_importance.R |only DALEX-1.3.1.1/DALEX/tests/testthat/test_variable_response.R |only DALEX-2.0/DALEX/DESCRIPTION | 16 - DALEX-2.0/DALEX/MD5 | 106 +++++----- DALEX-2.0/DALEX/NAMESPACE | 2 DALEX-2.0/DALEX/R/explain.R | 72 +++++- DALEX-2.0/DALEX/R/misc_loss_functions.R | 4 DALEX-2.0/DALEX/R/misc_theme_drwhy.R | 32 +++ DALEX-2.0/DALEX/R/misc_yhat.R | 12 - DALEX-2.0/DALEX/R/model_diagnostics.R | 4 DALEX-2.0/DALEX/R/model_info.R | 4 DALEX-2.0/DALEX/R/model_parts.R | 49 +++- DALEX-2.0/DALEX/R/model_performance.R | 70 ++++-- DALEX-2.0/DALEX/R/model_profile.R | 33 +-- DALEX-2.0/DALEX/R/model_variable_effect.R | 8 DALEX-2.0/DALEX/R/plot_model_diagnostics.R | 2 DALEX-2.0/DALEX/R/plot_model_parts.R | 2 DALEX-2.0/DALEX/R/plot_model_performance.R | 6 DALEX-2.0/DALEX/R/plot_model_profile.R | 11 - DALEX-2.0/DALEX/R/plot_predict_diagnostics.R | 6 DALEX-2.0/DALEX/R/plot_predict_parts.R | 2 DALEX-2.0/DALEX/R/predict.R | 2 DALEX-2.0/DALEX/R/predict_diagnostics.R | 2 DALEX-2.0/DALEX/R/predict_parts.R | 2 DALEX-2.0/DALEX/R/predict_profile.R | 2 DALEX-2.0/DALEX/R/print_explainer.R | 2 DALEX-2.0/DALEX/R/print_model_performance.R | 2 DALEX-2.0/DALEX/inst/CITATION | 22 +- DALEX-2.0/DALEX/man/explain.Rd | 38 +++ DALEX-2.0/DALEX/man/loss_functions.Rd | 2 DALEX-2.0/DALEX/man/model_diagnostics.Rd | 2 DALEX-2.0/DALEX/man/model_info.Rd | 4 DALEX-2.0/DALEX/man/model_parts.Rd | 49 +++- DALEX-2.0/DALEX/man/model_performance.Rd | 65 +++--- DALEX-2.0/DALEX/man/model_profile.Rd | 31 +- DALEX-2.0/DALEX/man/plot.model_diagnostics.Rd | 2 DALEX-2.0/DALEX/man/plot.model_performance.Rd | 2 DALEX-2.0/DALEX/man/plot.model_profile.Rd | 2 DALEX-2.0/DALEX/man/plot.predict_diagnostics.Rd | 4 DALEX-2.0/DALEX/man/predict.Rd | 2 DALEX-2.0/DALEX/man/predict_diagnostics.Rd | 2 DALEX-2.0/DALEX/man/predict_parts.Rd | 2 DALEX-2.0/DALEX/man/predict_profile.Rd | 2 DALEX-2.0/DALEX/man/print.explainer.Rd | 2 DALEX-2.0/DALEX/man/print.model_performance.Rd | 2 DALEX-2.0/DALEX/man/theme_drwhy.Rd | 6 DALEX-2.0/DALEX/man/variable_effect.Rd | 2 DALEX-2.0/DALEX/tests/external_tests |only DALEX-2.0/DALEX/tests/testthat/helper-objects.R | 1 DALEX-2.0/DALEX/tests/testthat/test_explain.R | 6 DALEX-2.0/DALEX/tests/testthat/test_model_diagnostics.R |only DALEX-2.0/DALEX/tests/testthat/test_model_parts.R |only DALEX-2.0/DALEX/tests/testthat/test_model_profile.R |only DALEX-2.0/DALEX/tests/testthat/test_predict_diagnostics.R |only DALEX-2.0/DALEX/tests/testthat/test_predict_parts.R |only DALEX-2.0/DALEX/tests/testthat/test_predict_profile.R |only DALEX-2.0/DALEX/tests/testthat/test_yhat_model_info.R | 1 60 files changed, 462 insertions(+), 242 deletions(-)
Title: Testing and Plotting Procedures for Biostatistics
Description: Contains miscellaneous functions useful in biostatistics, mostly univariate and multivariate testing procedures with a special emphasis on permutation tests. Many functions intend to simplify user's life by shortening existing procedures or by implementing plotting functions that can be used with as many methods from different packages as possible.
Author: Maxime Herv<e9>
Maintainer: Maxime Herv<e9> <maxime.herve@univ-rennes1.fr>
Diff between RVAideMemoire versions 0.9-77 dated 2020-06-15 and 0.9-78 dated 2020-09-04
DESCRIPTION | 8 - MD5 | 244 +++++++++++++++++++-------------------- NEWS | 3 R/MVA.scoreplot.R | 2 R/perm.anova.R | 58 ++++----- R/plotsurvivors.R | 8 + R/zzz.R | 2 man/Anova.clm.Rd | 2 man/CDA.cv.Rd | 2 man/CDA.test.Rd | 2 man/DIABLO.test.Rd | 2 man/G.bintest.Rd | 2 man/G.multcomp.Rd | 2 man/G.test.Rd | 4 man/G.theo.multcomp.Rd | 2 man/GPA.test.Rd | 2 man/MVA.anova.Rd | 2 man/MVA.biplot.Rd | 2 man/MVA.cmv.Rd | 2 man/MVA.cor.Rd | 2 man/MVA.corplot.Rd | 2 man/MVA.cv.Rd | 2 man/MVA.load.Rd | 2 man/MVA.loadplot.Rd | 2 man/MVA.pairplot.Rd | 2 man/MVA.plot.Rd | 2 man/MVA.scoreplot.Rd | 2 man/MVA.scores.Rd | 2 man/MVA.synt.Rd | 2 man/MVA.test.Rd | 2 man/MVA.trajplot.Rd | 2 man/OR.multinom.Rd | 2 man/PLSDA.VIP.Rd | 2 man/RVAideMemoire-package.Rd | 4 man/adonis.II.Rd | 2 man/back.emmeans.Rd | 2 man/bootstrap.Rd | 2 man/byf.hist.Rd | 2 man/byf.mqqnorm.Rd | 2 man/byf.mshapiro.Rd | 2 man/byf.qqnorm.Rd | 2 man/byf.shapiro.Rd | 2 man/cdf.discrete.Rd | 2 man/chisq.bin.exp.Rd | 2 man/chisq.bintest.Rd | 2 man/chisq.exp.Rd | 2 man/chisq.multcomp.Rd | 2 man/chisq.theo.bintest.Rd | 2 man/chisq.theo.multcomp.Rd | 2 man/cochran.qtest.Rd | 2 man/cond.multinom.Rd | 2 man/coord.proj.Rd | 2 man/cor.2comp.Rd | 2 man/cor.conf.Rd | 2 man/cor.multcomp.Rd | 2 man/cov.test.Rd | 2 man/cox.resid.Rd | 2 man/cramer.Rd | 2 man/cramer.test.Rd | 2 man/cv.Rd | 2 man/dendro.gp.Rd | 2 man/dummy.Rd | 2 man/fisher.bintest.Rd | 2 man/fisher.multcomp.Rd | 2 man/fp.test.Rd | 2 man/ind.contrib.Rd | 2 man/least.rect.Rd | 2 man/loc.slp.Rd | 2 man/logis.fit.Rd | 2 man/logis.noise.Rd | 2 man/mod.Rd | 2 man/mood.medtest.Rd | 2 man/mqqnorm.Rd | 2 man/mshapiro.test.Rd | 2 man/multinomial.multcomp.Rd | 2 man/multinomial.test.Rd | 2 man/multinomial.theo.multcomp.Rd | 2 man/multtest.cor.Rd | 2 man/multtest.gp.Rd | 2 man/multtest.gp.bin.Rd | 2 man/ord.rw.Rd | 2 man/pairwise.CDA.test.Rd | 2 man/pairwise.MVA.test.Rd | 2 man/pairwise.factorfit.Rd | 2 man/pairwise.mood.medtest.Rd | 2 man/pairwise.perm.manova.Rd | 2 man/pairwise.perm.t.test.Rd | 2 man/pairwise.perm.var.test.Rd | 2 man/pairwise.var.test.Rd | 2 man/pcor.Rd | 2 man/pcor.test.Rd | 2 man/perm.anova.Rd | 2 man/perm.bartlett.test.Rd | 2 man/perm.cor.test.Rd | 2 man/perm.t.test.Rd | 2 man/perm.var.test.Rd | 2 man/plotresid.Rd | 2 man/plotsurvivors.Rd | 2 man/predict.CDA.cv.Rd | 2 man/predict.MVA.cv.Rd | 2 man/predict.coadisc.Rd | 2 man/prop.bin.multcomp.Rd | 2 man/prop.multcomp.Rd | 2 man/prop.multinom.Rd | 2 man/prop.multinom.test.Rd | 2 man/rating.emmeans.Rd | 2 man/rating.prob.Rd | 2 man/reg.ci.Rd | 2 man/scat.cr.Rd | 2 man/se.Rd | 2 man/seq2.Rd | 2 man/spearman.ci.Rd | 2 man/spearman.cor.multcomp.Rd | 2 man/splitf.Rd | 2 man/stand.Rd | 2 man/test.multinom.Rd | 2 man/to.dudi.Rd | 2 man/user.cont.Rd | 2 man/wald.ptheo.multinom.test.Rd | 2 man/wald.ptheo.test.Rd | 2 man/wilcox.paired.multcomp.Rd | 2 man/wilcox.signtest.Rd | 2 man/wmean.Rd | 2 123 files changed, 286 insertions(+), 275 deletions(-)
Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code or use an easy to remember set of tidy functions for exploratory data analysis. Introduces three main verbs. explore() to graphically explore a variable or table, describe() to describe a variable or table and report() to create an automated report.
Author: Roland Krasser
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between explore versions 0.5.5 dated 2020-04-06 and 0.6.1 dated 2020-09-04
DESCRIPTION | 14 MD5 | 83 +-- NAMESPACE | 2 NEWS.md | 19 R/describe.R | 97 ++- R/explain.R | 15 R/explore.R | 316 ++++++++++- R/report.R | 50 + R/tools.R | 31 - build/vignette.rds |binary inst/doc/explore.R | 81 +-- inst/doc/explore.Rmd | 15 inst/doc/explore.html | 641 +++++++++++++++--------- inst/doc/explore_mtcars.R | 32 - inst/doc/explore_mtcars.html | 435 ++++++++++++---- inst/doc/explore_penguins.R |only inst/doc/explore_penguins.Rmd |only inst/doc/explore_penguins.html |only inst/doc/explore_titanic.R |only inst/doc/explore_titanic.Rmd |only inst/doc/explore_titanic.html |only inst/extdata/template_report_target_split_n.Rmd |only inst/extdata/template_report_variable_n.Rmd |only man/clean_var.Rd | 14 man/data_dict_md.Rd | 9 man/decrypt.Rd | 3 man/describe.Rd | 4 man/describe_cat.Rd | 8 man/describe_num.Rd | 4 man/describe_tbl.Rd | 4 man/encrypt.Rd | 3 man/explain_tree.Rd | 18 man/explore.Rd | 17 man/explore_all.Rd | 4 man/explore_bar.Rd | 21 man/explore_cor.Rd | 15 man/explore_count.Rd |only man/explore_density.Rd | 15 man/explore_targetpct.Rd | 15 man/explore_tbl.Rd | 4 man/guess_cat_num.Rd | 4 man/report.Rd | 4 man/target_explore_cat.Rd | 24 man/target_explore_num.Rd | 17 man/total_fig_height.Rd | 4 vignettes/explore.Rmd | 15 vignettes/explore_penguins.Rmd |only vignettes/explore_titanic.Rmd |only 48 files changed, 1508 insertions(+), 549 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Hothorn, 2019, <arxiv:1910.09219>).
Multivariate conditional transformation models (<arxiv:1906.03151>) can be fitted as well.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>),
Luisa Barbanti [aut],
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 0.5-0 dated 2020-08-31 and 0.5-1 dated 2020-09-04
DESCRIPTION | 14 ++++++++------ MD5 | 28 ++++++++++++++-------------- NAMESPACE | 2 +- R/methods.R | 20 ++++++++++++++++++-- build/partial.rdb |binary demo/undernutrition.R | 3 +++ inst/NEWS.Rd | 8 ++++++++ inst/doc/mtram.R | 9 +++++++-- inst/doc/mtram.Rnw | 9 +++++++-- inst/doc/mtram.pdf |binary inst/doc/tram.Rnw | 11 +++++++---- inst/doc/tram.pdf |binary man/mmlt.Rd | 8 ++++++-- vignettes/mtram.Rnw | 9 +++++++-- vignettes/tram.Rnw | 11 +++++++---- 15 files changed, 93 insertions(+), 39 deletions(-)
Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs,
fit first- and second-order response-surface models,
make surface plots, obtain the path of steepest ascent,
and do canonical analysis. A good reference on these methods
is Chapter 10 of Wu, C-F J and Hamada, M (2009)
"Experiments: Planning, Analysis, and Parameter Design Optimization"
ISBN 978-0-471-69946-0.
Author: Russell Lenth [aut, cre]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between rsm versions 2.10 dated 2018-09-02 and 2.10.2 dated 2020-09-04
rsm-2.10.2/rsm/DESCRIPTION | 10 ++-- rsm-2.10.2/rsm/MD5 | 54 +++++++++++------------ rsm-2.10.2/rsm/R/rsm.R | 13 +++-- rsm-2.10.2/rsm/R/zzz.R | 22 --------- rsm-2.10.2/rsm/build/vignette.rds |binary rsm-2.10.2/rsm/inst/CITATION | 4 - rsm-2.10.2/rsm/inst/NEWS | 11 ++++ rsm-2.10.2/rsm/inst/doc/rs-illus.pdf |binary rsm-2.10.2/rsm/inst/doc/rsm-plots.R |only rsm-2.10.2/rsm/inst/doc/rsm-plots.Rtex |only rsm-2.10.2/rsm/inst/doc/rsm-plots.pdf |only rsm-2.10.2/rsm/inst/doc/rsm.R | 42 ++++++++++-------- rsm-2.10.2/rsm/inst/doc/rsm.Rtex | 57 +++++++++++++----------- rsm-2.10.2/rsm/inst/doc/rsm.pdf |binary rsm-2.10.2/rsm/man/FO.Rd | 2 rsm-2.10.2/rsm/man/bbd.Rd | 2 rsm-2.10.2/rsm/man/ccd.Rd | 2 rsm-2.10.2/rsm/man/ccd.pick.Rd | 2 rsm-2.10.2/rsm/man/coded.data.Rd | 2 rsm-2.10.2/rsm/man/contour.lm.Rd | 2 rsm-2.10.2/rsm/man/model.data.Rd | 2 rsm-2.10.2/rsm/man/rsm-package.Rd | 2 rsm-2.10.2/rsm/man/rsm.Rd | 62 ++++++++++++++++++--------- rsm-2.10.2/rsm/man/steepest.Rd | 7 +-- rsm-2.10.2/rsm/vignettes/rsm-plots.Rtex |only rsm-2.10.2/rsm/vignettes/rsm.Rtex | 57 +++++++++++++----------- rsm-2.10.2/rsm/vignettes/rsm.bib | 2 rsm-2.10/rsm/vignettes/rsm-plots-basics.pdf |only rsm-2.10/rsm/vignettes/rsm-plots-cont1.pdf |only rsm-2.10/rsm/vignettes/rsm-plots-cont2.pdf |only rsm-2.10/rsm/vignettes/rsm-plots-lessbas.pdf |only rsm-2.10/rsm/vignettes/rsm-plots-persp.pdf |only rsm-2.10/rsm/vignettes/rsm-plots.tex |only 33 files changed, 196 insertions(+), 161 deletions(-)
Title: Nanosecond-Resolution Time Support for R
Description: Full 64-bit resolution date and time functionality with
nanosecond granularity is provided, with easy transition to and from
the standard 'POSIXct' type. Three additional classes offer interval,
period and duration functionality for nanosecond-resolution timestamps.
Author: Dirk Eddelbuettel and Leonardo Silvestri
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between nanotime versions 0.3.1 dated 2020-08-10 and 0.3.2 dated 2020-09-04
ChangeLog | 36 +++++++++++++++++++++++++++++++++++ DESCRIPTION | 10 ++++----- MD5 | 38 ++++++++++++++++++------------------- R/nanoival.R | 5 +++- R/nanotime.R | 2 - inst/NEWS.Rd | 8 +++++++ inst/doc/nanotime-introduction.pdf |binary inst/include/nanotime/interval.hpp | 19 ++++++++++++++++-- inst/tinytest/test_nanoduration.R | 2 - inst/tinytest/test_nanoival.R | 1 inst/tinytest/test_nanoperiod.R | 2 - inst/tinytest/test_nanotime.R | 2 + inst/tinytest/test_ops.R | 1 man/nanoival.Rd | 2 + man/rounding.Rd | 2 - man/set_operations.Rd | 3 +- src/interval.cpp | 9 ++------ src/nanotime.cpp | 12 ++--------- src/period.cpp | 8 +------ src/rounding.cpp | 6 +---- 20 files changed, 111 insertions(+), 57 deletions(-)
Title: Multivariate Functional Principal Component Analysis for Data
Observed on Different Dimensional Domains
Description: Calculate a multivariate functional principal component analysis
for data observed on different dimensional domains. The estimation algorithm
relies on univariate basis expansions for each element of the multivariate
functional data (Happ & Greven, 2018) <doi:10.1080/01621459.2016.1273115>.
Multivariate and univariate functional data objects are
represented by S4 classes for this type of data implemented in the package
'funData'. For more details on the general concepts of both packages and a case
study, see Happ-Kurz (2020) <doi:10.18637/jss.v093.i05>.
Author: Clara Happ-Kurz [aut, cre] (<https://orcid.org/0000-0003-4737-3835>)
Maintainer: Clara Happ-Kurz <clara.happ@stat.uni-muenchen.de>
Diff between MFPCA versions 1.3-5 dated 2020-04-25 and 1.3-6 dated 2020-09-04
DESCRIPTION | 13 - MD5 | 36 ++-- NEWS.md | 7 R/MFPCA_calculation.R | 310 ++++++++++++++++++-------------------- R/UMPCA.R | 52 +++--- R/univDecomp.R | 138 ++++++++--------- R/univPCA.R | 24 +- README.md | 2 build/partial.rdb |binary configure | 18 +- configure.ac | 2 man/MFPCA.Rd | 316 ++++++++++++++++++--------------------- man/PACE.Rd | 18 +- man/UMPCA.Rd | 36 ++-- man/dot-PACE.Rd | 6 man/fpcaBasis.Rd | 12 - man/givenBasis.Rd | 45 ++--- man/umpcaBasis.Rd | 46 ++--- tests/testthat/test_univDecomp.R | 13 - 19 files changed, 542 insertions(+), 552 deletions(-)
Title: Maximum Likelihood Estimation and Related Tools
Description: Functions for Maximum Likelihood (ML) estimation, non-linear
optimization, and related tools. It includes a unified way to call
different optimizers, and classes and methods to handle the results from
the Maximum Likelihood viewpoint. It also includes a number of convenience tools for testing
and developing your own models.
Author: Ott Toomet <otoomet@gmail.com>,
Arne Henningsen <arne.henningsen@gmail.com>,
with contributions from Spencer Graves and Yves Croissant
Maintainer: Ott Toomet <otoomet@gmail.com>
Diff between maxLik versions 1.4-0 dated 2020-07-31 and 1.4-4 dated 2020-09-04
DESCRIPTION | 10 ++--- MD5 | 18 +++++----- NEWS | 11 +++--- build/vignette.rds |binary inst/doc/stochastic-gradient-maxLik.R | 1 inst/doc/stochastic-gradient-maxLik.pdf |binary tests/fitNormalDist_privateTest.Rout.save | 26 ++++++++------- tests/maxControl_privateTest.Rout.save | 51 ++++++++++++++++++++++++++++-- tests/methods.R | 20 ----------- tests/methods.Rout.save | 46 +-------------------------- 10 files changed, 85 insertions(+), 98 deletions(-)
Title: Interactive Maps Using 'Mapbox GL JS' and 'Deck.gl'
Description: Provides a mechanism to plot an interactive map using 'Mapbox GL'
(<https://docs.mapbox.com/mapbox-gl-js/api/>), a javascript library for interactive maps,
and 'Deck.gl' (<https://deck.gl/>), a javascript library which uses 'WebGL' for
visualising large data sets.
Author: David Cooley [aut, cre]
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between mapdeck versions 0.3.3 dated 2020-05-14 and 0.3.4 dated 2020-09-04
mapdeck-0.3.3/mapdeck/data/datalist |only mapdeck-0.3.4/mapdeck/DESCRIPTION | 18 - mapdeck-0.3.4/mapdeck/MD5 | 105 +++++----- mapdeck-0.3.4/mapdeck/NAMESPACE | 2 mapdeck-0.3.4/mapdeck/NEWS.md | 10 mapdeck-0.3.4/mapdeck/R/map_layer_animated_arc.R | 4 mapdeck-0.3.4/mapdeck/R/map_layer_animated_line.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_arc.R | 4 mapdeck-0.3.4/mapdeck/R/map_layer_column.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_geojson.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_greatcircle.R | 4 mapdeck-0.3.4/mapdeck/R/map_layer_grid.R | 6 mapdeck-0.3.4/mapdeck/R/map_layer_heatmap.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_hexagon.R | 4 mapdeck-0.3.4/mapdeck/R/map_layer_line.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_path.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_polygon.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_scatterplot.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_screengrid.R | 2 mapdeck-0.3.4/mapdeck/R/map_layer_tile3d.R |only mapdeck-0.3.4/mapdeck/R/mapdeck_dependencies.R | 9 mapdeck-0.3.4/mapdeck/R/mapdeck_map_utilities.R | 3 mapdeck-0.3.4/mapdeck/R/mapdeck_package.R | 4 mapdeck-0.3.4/mapdeck/R/scratch.R | 4 mapdeck-0.3.4/mapdeck/README.md | 10 mapdeck-0.3.4/mapdeck/build/vignette.rds |binary mapdeck-0.3.4/mapdeck/inst/doc/mapdeck.Rmd | 8 mapdeck-0.3.4/mapdeck/inst/doc/mapdeck.html | 12 - mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/deckgl.min.js | 6 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/line/line_animated.js | 2 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/loader_3dtiles.min.js |only mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/loader_i3s.min.js |only mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/mapbox-gl.js | 8 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/path/path.js | 2 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/polygon/polygon.js | 3 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/tile3d |only mapdeck-0.3.4/mapdeck/inst/htmlwidgets/lib/trips/trips.js | 2 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/mapdeck_functions.js | 2 mapdeck-0.3.4/mapdeck/inst/htmlwidgets/mapdeck_location.js | 4 mapdeck-0.3.4/mapdeck/man/add_animated_arc.Rd | 4 mapdeck-0.3.4/mapdeck/man/add_animated_line.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_arc.Rd | 4 mapdeck-0.3.4/mapdeck/man/add_cesium.Rd |only mapdeck-0.3.4/mapdeck/man/add_column.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_geojson.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_greatcircle.Rd | 4 mapdeck-0.3.4/mapdeck/man/add_grid.Rd | 6 mapdeck-0.3.4/mapdeck/man/add_heatmap.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_hexagon.Rd | 4 mapdeck-0.3.4/mapdeck/man/add_i3s.Rd |only mapdeck-0.3.4/mapdeck/man/add_line.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_path.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_polygon.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_scatterplot.Rd | 2 mapdeck-0.3.4/mapdeck/man/add_screengrid.Rd | 2 mapdeck-0.3.4/mapdeck/man/pipe.Rd | 4 mapdeck-0.3.4/mapdeck/vignettes/mapdeck.Rmd | 8 57 files changed, 165 insertions(+), 141 deletions(-)
Title: Firth's Bias-Reduced Logistic Regression
Description: Fit a logistic regression model using Firth's bias reduction method, equivalent to penalization of the log-likelihood by the Jeffreys
prior. Confidence intervals for regression coefficients can be computed by penalized profile likelihood. Firth's method was proposed as ideal
solution to the problem of separation in logistic regression. If needed, the bias reduction can be turned off such that ordinary
maximum likelihood logistic regression is obtained.
Author: Georg Heinze [aut, cre],
Meinhard Ploner [aut],
Daniela Dunkler [ctb],
Harry Southworth [ctb]
Maintainer: ORPHANED
Diff between logistf versions 1.23 dated 2018-07-19 and 1.23.1 dated 2020-09-04
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/logistf.R | 4 ++-- man/PVR.confint.Rd | 2 -- man/logistf.Rd | 2 +- man/sex2.Rd | 7 ++++--- man/vcov.logistf.Rd | 2 -- 7 files changed, 18 insertions(+), 21 deletions(-)