Title: Automatic Method Generation from R6
Description: After defining an R6 class, R62S3 is used to automatically generate optional S3/S4 generics and methods for dispatch. Also allows piping for R6 objects.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Raphael Sonabend <raphael.sonabend.15@ucl.ac.uk>
Diff between R62S3 versions 1.3.1 dated 2019-06-26 and 1.4.0 dated 2020-01-27
R62S3-1.3.1/R62S3/R/ifnerror.R |only R62S3-1.3.1/R62S3/R/stopwarn.R |only R62S3-1.4.0/R62S3/DESCRIPTION | 10 +- R62S3-1.4.0/R62S3/LICENSE | 2 R62S3-1.4.0/R62S3/MD5 | 35 ++++--- R62S3-1.4.0/R62S3/NEWS.md | 16 +++ R62S3-1.4.0/R62S3/R/R62Fun.R | 110 ++++--------------------- R62S3-1.4.0/R62S3/R/R62S3.R | 86 ++----------------- R62S3-1.4.0/R62S3/R/R62S4.R | 76 ++--------------- R62S3-1.4.0/R62S3/R/assignMethods.R |only R62S3-1.4.0/R62S3/R/detectGeneric.R |only R62S3-1.4.0/R62S3/R/getBody.R |only R62S3-1.4.0/R62S3/R/getMethods.R |only R62S3-1.4.0/R62S3/R/makeGeneric.R |only R62S3-1.4.0/R62S3/README.md | 14 ++- R62S3-1.4.0/R62S3/man/R62Fun.Rd | 74 ++++++++++++---- R62S3-1.4.0/R62S3/man/R62S3.Rd | 69 +++++++++++---- R62S3-1.4.0/R62S3/man/R62S4.Rd | 72 ++++++++++++---- R62S3-1.4.0/R62S3/man/figures |only R62S3-1.4.0/R62S3/tests/testthat/helper.R |only R62S3-1.4.0/R62S3/tests/testthat/test-R62Fun.R | 36 +++----- R62S3-1.4.0/R62S3/tests/testthat/test-R62S3.R | 55 ++---------- R62S3-1.4.0/R62S3/tests/testthat/test-R62S4.R | 37 ++------ 23 files changed, 295 insertions(+), 397 deletions(-)
Title: Automated R Instructor
Description: Create videos from 'R Markdown' documents, or images and audio
files. These images can come from image files or HTML slides, and the audio
files can be provided by the user or computer voice narration can be created
using 'Amazon Polly'. The purpose of this package is to allow users to create
accessible, translatable, and reproducible lecture videos. See
<https://aws.amazon.com/polly/> for more information.
Author: Sean Kross [aut, cre],
John Muschelli [ctb]
Maintainer: Sean Kross <sean@seankross.com>
Diff between ari versions 0.3.3 dated 2020-01-12 and 0.3.4 dated 2020-01-27
DESCRIPTION | 10 ++++---- MD5 | 24 ++++++++++---------- NAMESPACE | 2 + NEWS.md | 5 ++++ R/ari_narrate.R | 4 +-- R/ari_spin.R | 12 +++++++--- R/ari_talk.R | 4 +-- inst/doc/Simple-Ari-Configuration-with-Docker.html | 4 +-- man/ari_narrate.Rd | 19 +++++++++++---- man/ari_spin.Rd | 14 ++++++++++- man/ari_stitch.Rd | 25 +++++++++++++++------ man/ari_talk.Rd | 8 +++++- tests/testthat.R | 8 ++++-- 13 files changed, 94 insertions(+), 45 deletions(-)
Title: Poisson Lognormal Models
Description: The Poisson-lognormal model and variants can be used for
a variety of multivariate problems when count data are at play, including
principal component analysis for count data (Chiquet, Mariadassou and Robin,
2018 <doi:10.1214/18-AOAS1177>), discriminant analysis and
network inference (Chiquet, Mariadassou and Robin, 2018 <http://proceedings.mlr.press/v97/chiquet19a.html>).
Implements variational algorithms to fit such models accompanied with a set of
functions for visualization and diagnostic.
Author: Julien Chiquet [aut, cre] (<https://orcid.org/0000-0002-3629-3429>),
Mahendra Mariadassou [aut] (<https://orcid.org/0000-0003-2986-354X>),
Stéphane Robin [ctb]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between PLNmodels versions 0.9.4 dated 2020-01-14 and 0.9.5 dated 2020-01-27
DESCRIPTION | 6 MD5 | 53 - NEWS.md | 5 inst/doc/Import_data.R | 1 inst/doc/Import_data.Rmd | 1 inst/doc/Import_data.html | 4 inst/doc/PLN.R | 4 inst/doc/PLN.Rmd | 12 inst/doc/PLN.html | 1316 +------------------------------------ inst/doc/PLNLDA.R | 1 inst/doc/PLNLDA.Rmd | 1 inst/doc/PLNLDA.html | 4 inst/doc/PLNPCA.R | 1 inst/doc/PLNPCA.Rmd | 1 inst/doc/PLNPCA.html | 4 inst/doc/PLNnetwork.R | 1 inst/doc/PLNnetwork.Rmd | 1 inst/doc/PLNnetwork.html | 8 inst/doc/Trichoptera.R | 1 inst/doc/Trichoptera.Rmd | 1 inst/doc/Trichoptera.html | 4 vignettes/Import_data.Rmd | 1 vignettes/PLN.Rmd | 12 vignettes/PLNLDA.Rmd | 1 vignettes/PLNPCA.Rmd | 1 vignettes/PLNnetwork.Rmd | 1 vignettes/Trichoptera.Rmd | 1 vignettes/figures/PLN_geometry.jpg |only 28 files changed, 122 insertions(+), 1325 deletions(-)
Title: 'Microsoft Academic' API Client
Description: The 'Microsoft Academic Knowledge' API provides programmatic access
to scholarly articles in the 'Microsoft Academic Graph'
(<https://academic.microsoft.com/>). Includes methods matching all 'Microsoft
Academic' API routes, including search, graph search, text similarity, and
interpret natural language query string.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Christopher Baker [aut],
rOpenSci [fnd] (https://ropensci.org)
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between microdemic versions 0.4.0 dated 2018-10-25 and 0.5.0 dated 2020-01-27
DESCRIPTION | 34 ++++-- LICENSE | 2 MD5 | 53 +++++----- NEWS.md | 18 +++ R/abstract.R | 3 R/microdemic-package.R | 6 - R/search.R | 9 - R/zzz.R | 50 +++++++++ README.md | 171 +++++++++++++++++++--------------- man/ma_abstract.Rd | 11 +- man/ma_calchist.Rd | 11 +- man/ma_evaluate.Rd | 11 +- man/ma_interpret.Rd | 3 man/ma_search.Rd | 11 +- man/ma_similarity.Rd | 3 man/microdemic-package.Rd | 10 + tests/fixtures/ma_abstract.yml | 16 +-- tests/fixtures/ma_abstract_no_NAs.yml |only tests/fixtures/ma_error.yml |only tests/fixtures/ma_evaluate.yml | 16 +-- tests/fixtures/ma_interpret.yml | 16 +-- tests/fixtures/ma_search.yml | 16 +-- tests/fixtures/ma_similarity.yml | 9 - tests/testthat/helper-microdemic.R | 5 tests/testthat/test-abstract.R | 6 + tests/testthat/test-error-msgs.R |only tests/testthat/test-evaluate.R | 2 tests/testthat/test-interpret.R | 4 tests/testthat/test-search.R | 4 29 files changed, 332 insertions(+), 168 deletions(-)
Title: Select from a Set of Strings
Description: A backend for the selecting functions of the 'tidyverse'.
It makes it easy to implement select-like functions in your own
packages in a way that is consistent with other 'tidyverse'
interfaces for selection.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between tidyselect versions 0.2.5 dated 2018-10-11 and 1.0.0 dated 2020-01-27
tidyselect-0.2.5/tidyselect/R/RcppExports.R |only tidyselect-0.2.5/tidyselect/R/vars-rename.R |only tidyselect-0.2.5/tidyselect/R/vars-select.R |only tidyselect-0.2.5/tidyselect/src |only tidyselect-0.2.5/tidyselect/tests/testthat/test-inds-combine.R |only tidyselect-0.2.5/tidyselect/tests/testthat/test-vars-rename.R |only tidyselect-0.2.5/tidyselect/tests/testthat/test-vars-select.R |only tidyselect-1.0.0/tidyselect/DESCRIPTION | 20 tidyselect-1.0.0/tidyselect/MD5 | 99 ++- tidyselect-1.0.0/tidyselect/NAMESPACE | 12 tidyselect-1.0.0/tidyselect/NEWS.md | 228 ++++++++ tidyselect-1.0.0/tidyselect/R/compat-friendly-type.R |only tidyselect-1.0.0/tidyselect/R/conditions.R |only tidyselect-1.0.0/tidyselect/R/eval-bool.R |only tidyselect-1.0.0/tidyselect/R/eval-c.R |only tidyselect-1.0.0/tidyselect/R/eval-rename.R |only tidyselect-1.0.0/tidyselect/R/eval-select.R |only tidyselect-1.0.0/tidyselect/R/eval-walk.R |only tidyselect-1.0.0/tidyselect/R/faq.R |only tidyselect-1.0.0/tidyselect/R/lifecycle-deprecated.R |only tidyselect-1.0.0/tidyselect/R/select-helpers.R | 209 ++++++- tidyselect-1.0.0/tidyselect/R/sets.R |only tidyselect-1.0.0/tidyselect/R/tidyselect.R | 16 tidyselect-1.0.0/tidyselect/R/utils-errors.R | 8 tidyselect-1.0.0/tidyselect/R/utils.R | 268 +++++++++ tidyselect-1.0.0/tidyselect/R/vars-pull.R | 54 + tidyselect-1.0.0/tidyselect/R/vars.R | 89 ++- tidyselect-1.0.0/tidyselect/README.md | 23 tidyselect-1.0.0/tidyselect/build |only tidyselect-1.0.0/tidyselect/inst |only tidyselect-1.0.0/tidyselect/man/eval_select.Rd |only tidyselect-1.0.0/tidyselect/man/faq |only tidyselect-1.0.0/tidyselect/man/faq-external-vector.Rd |only tidyselect-1.0.0/tidyselect/man/faq-selection-context.Rd |only tidyselect-1.0.0/tidyselect/man/one_of.Rd |only tidyselect-1.0.0/tidyselect/man/peek_vars.Rd |only tidyselect-1.0.0/tidyselect/man/poke_vars.Rd | 9 tidyselect-1.0.0/tidyselect/man/reexports.Rd | 2 tidyselect-1.0.0/tidyselect/man/select_helpers.Rd | 95 ++- tidyselect-1.0.0/tidyselect/man/tidyselect-package.Rd | 10 tidyselect-1.0.0/tidyselect/man/vars_pull.Rd | 4 tidyselect-1.0.0/tidyselect/man/vars_select.Rd | 127 ---- tidyselect-1.0.0/tidyselect/man/vars_select_helpers.Rd | 4 tidyselect-1.0.0/tidyselect/tests/testthat/error |only tidyselect-1.0.0/tidyselect/tests/testthat/helper-tidyselect.R |only tidyselect-1.0.0/tidyselect/tests/testthat/outputs |only tidyselect-1.0.0/tidyselect/tests/testthat/test-eval-bool.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-eval-c.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-eval-walk.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-lifecycle-deprecated.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-rename.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-select-helpers.R | 279 ++++++---- tidyselect-1.0.0/tidyselect/tests/testthat/test-select.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-sets.R |only tidyselect-1.0.0/tidyselect/tests/testthat/test-vars-pull.R | 83 ++ tidyselect-1.0.0/tidyselect/tests/testthat/test-vars.R | 35 - tidyselect-1.0.0/tidyselect/vignettes |only 57 files changed, 1289 insertions(+), 385 deletions(-)
Title: Spatial Navigation Strategy Analysis
Description: A toolkit for the analysis of paths from spatial tracking experiments (such as the Morris water maze) and calculation of goal-finding strategies.
This package is centered on an approach using machine learning for path classification.
Author: Rupert Overall [aut, cre] (<https://orcid.org/0000-0002-3882-6073>)
Maintainer: Rupert Overall <rtrack@rupertoverall.net>
Diff between Rtrack versions 0.9.3 dated 2019-11-06 and 0.9.6 dated 2020-01-27
DESCRIPTION | 8 - MD5 | 30 ++-- R/call_strategy.R | 39 +++--- R/identify_track_format.R | 263 ++++++++++++++++++++++++------------------- R/read_path.R | 32 ++++- R/sysdata.rda |binary README.md | 12 - man/Rtrack.Rd | 1 man/check_experiment.Rd | 13 +- man/identify_track_format.Rd | 21 +-- man/plot_density.Rd | 15 +- man/plot_path.Rd | 12 + man/plot_strategies.Rd | 14 +- man/plot_variable.Rd | 15 +- man/read_experiment.Rd | 13 +- man/read_path.Rd | 10 + 16 files changed, 302 insertions(+), 196 deletions(-)
Title: Geometric Morphometric Analyses of 2D/3D Landmark Data
Description: Read, manipulate, and digitize landmark data, generate shape
variables via Procrustes analysis for points, curves and surfaces, perform
shape analyses, and provide graphical depictions of shapes and patterns of
shape variation.
Author: Dean Adams [aut, cre],
Michael Collyer [aut],
Antigoni Kaliontzopoulou [aut]
Maintainer: Dean Adams <dcadams@iastate.edu>
Diff between geomorph versions 3.2.0 dated 2019-12-19 and 3.2.1 dated 2020-01-27
DESCRIPTION | 6 MD5 | 112 ++++++------- NAMESPACE | 221 +++++++++++++------------- NEWS.md | 66 ++++--- R/estimate.missing.r | 18 +- R/geomorph.support.code.r | 2 R/geomorph.utils.r | 7 R/globalIntegration.r | 4 R/plotAllometry.r | 315 +++++++++++++++++++++----------------- R/plotOutliers.r | 36 +++- R/procD.lm.r | 2 R/readland.tps.r | 33 ++- R/readmulti.tps.R |only inst/CITATION | 14 - inst/doc/geomorph.assistance.html | 278 ++++++++++++++++----------------- inst/doc/geomorph.digitize3D.html | 12 - inst/doc/geomorph.functions.html | 12 - man/estimate.missing.Rd | 10 + man/globalIntegration.Rd | 4 man/mosquito.Rd | 2 man/plot.CR.Rd | 2 man/plot.CR.phylo.Rd | 2 man/plot.evolrate.Rd | 2 man/plot.gpagen.Rd | 2 man/plot.physignal.Rd | 2 man/plotAllometry.Rd | 89 +++++----- man/print.CR.Rd | 2 man/print.CR.phylo.Rd | 2 man/print.bilat.symmetry.Rd | 2 man/print.combined.set.Rd | 2 man/print.compare.pls.Rd | 2 man/print.evolrate.Rd | 2 man/print.evolrate1.Rd | 2 man/print.geomorphShapes.Rd | 2 man/print.gm.prcomp.Rd | 2 man/print.gpagen.Rd | 2 man/print.morphol.disparity.Rd | 2 man/print.physignal.Rd | 2 man/print.plotTangentSpace.Rd | 2 man/print.pls.Rd | 2 man/print.procD.lm.Rd | 2 man/procD.lm.Rd | 2 man/ratland.Rd | 2 man/readmulti.tps.Rd |only man/summary.CR.Rd | 2 man/summary.CR.phylo.Rd | 2 man/summary.bilat.symmetry.Rd | 2 man/summary.combined.set.Rd | 2 man/summary.compare.pls.Rd | 2 man/summary.evolrate.Rd | 2 man/summary.evolrate1.Rd | 2 man/summary.geomorphShapes.Rd | 2 man/summary.gm.prcomp.Rd | 2 man/summary.gpagen.Rd | 2 man/summary.physignal.Rd | 2 man/summary.plotTangentSpace.Rd | 2 man/summary.pls.Rd | 2 man/summary.procD.lm.Rd | 2 58 files changed, 701 insertions(+), 614 deletions(-)
Title: Using Fonts More Easily in R Graphs
Description: Making it easy to use various types of fonts ('TrueType',
'OpenType', Type 1, web fonts, etc.) in R graphs, and supporting most output
formats of R graphics including PNG, PDF and SVG. Text glyphs will be converted
into polygons or raster images, hence after the plot has been created, it no
longer relies on the font files. No external software such as 'Ghostscript' is
needed to use this package.
Author: Yixuan Qiu and authors/contributors of the
included software. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between showtext versions 0.7 dated 2019-06-11 and 0.7-1 dated 2020-01-27
DESCRIPTION | 10 +- MD5 | 22 ++-- README.md | 2 build/vignette.rds |binary inst/NEWS.Rd | 7 + inst/doc/introduction.R | 6 - inst/doc/introduction.Rmd | 2 inst/doc/introduction.html | 204 ++++++++++++++++++++++++++------------------- man/showtext_auto.Rd | 6 - src/fonts.c | 8 + src/raster.c | 11 ++ vignettes/introduction.Rmd | 2 12 files changed, 168 insertions(+), 112 deletions(-)
Title: Sure Independence Screening
Description: Variable selection techniques are essential tools for model
selection and estimation in high-dimensional statistical models. Through this
publicly available package, we provide a unified environment to carry out
variable selection using iterative sure independence screening (SIS) (Fan and Lv (2008)<doi:10.1111/j.1467-9868.2008.00674.x>) and all
of its variants in generalized linear models (Fan and Song (2009)<doi:10.1214/10-AOS798>) and the Cox proportional hazards
model (Fan, Feng and Wu (2010)<doi:10.1214/10-IMSCOLL606>).
Author: Yang Feng [aut, cre],
Jianqing Fan [aut],
Diego Franco Saldana [aut],
Yichao Wu [aut],
Richard Samworth [aut]
Maintainer: Yang Feng <yangfengstat@gmail.com>
Diff between SIS versions 0.8-7 dated 2019-11-20 and 0.8-8 dated 2020-01-27
DESCRIPTION | 14 +++++++------- MD5 | 12 ++++++------ NAMESPACE | 2 ++ R/tune.fit.R | 21 ++++++++++++++++++++- man/SIS.Rd | 27 ++++++++++++++++++++------- man/predict.SIS.Rd | 10 ++++++++-- man/tune.fit.Rd | 14 ++++++++++---- 7 files changed, 73 insertions(+), 27 deletions(-)
Title: Lasso, Group Lasso, and Sparse-Group Lasso for Mixed Models
Description: Proximal gradient descent solver for the operators lasso, group
lasso, and sparse-group lasso. The implementation involves backtracking line
search and warm starts. Input data needs to be clustered/grouped for the
(sparse-)group lasso before calling these algorithms.
Author: Jan Klosa [aut, cre],
Noah Simon [ths],
Dörte Wittenburg [ths]
Maintainer: Jan Klosa <klosa@fbn-dummerstorf.de>
Diff between seagull versions 1.0.3 dated 2020-01-19 and 1.0.4 dated 2020-01-27
DESCRIPTION | 8 +- MD5 | 28 +++---- NEWS.md | 11 ++ R/seagull.R | 2 inst/doc/seagull.R | 6 - inst/doc/seagull.Rmd | 10 +- inst/doc/seagull.pdf |binary man/lasso_variants.Rd | 22 ++--- man/seagull.Rd | 24 +++--- man/seagull_data.Rd | 48 ++++++------ src/seagull_group_lasso.cpp | 12 +-- src/seagull_lasso.cpp | 12 +-- src/seagull_sparse_group_lasso.cpp | 12 +-- tests/testthat/test_seagull.R | 148 ++++++++++++++++++------------------- vignettes/seagull.Rmd | 10 +- 15 files changed, 185 insertions(+), 168 deletions(-)
Title: Explore and Visualize Your Data Interactively
Description: A 'shiny' gadget to create 'ggplot2' charts interactively with drag-and-drop to map your variables.
You can quickly visualize your data accordingly to their type, export to 'PNG' or 'PowerPoint',
and retrieve the code to reproduce the chart.
Author: Fanny Meyer [aut],
Victor Perrier [aut, cre],
Ian Carroll [ctb] (Faceting support)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between esquisse versions 0.2.3 dated 2020-01-09 and 0.3.0 dated 2020-01-27
DESCRIPTION | 19 +-- MD5 | 52 ++++----- NAMESPACE | 34 ------ NEWS.md | 7 + R/default-options.R | 87 +++++++++++----- R/esquisserUI.R | 105 ------------------- R/ggcall.R | 102 ++++++------------- R/input-dragula.R | 73 ++++++++----- R/module-chartControls.R | 12 +- R/module-chooseData.R | 77 +------------- R/module-data-globalenv.R | 10 + R/module-data-import-file.R | 10 + R/module-select.R | 9 - R/onLoad.R | 4 R/scales.R | 16 ++- R/utils.R | 10 + build/vignette.rds |binary inst/assets/dragula/dragula-bindings.js | 133 +++++++++++++------------ inst/assets/styles-dad.css | 20 +++ inst/assets/styles.css | 2 inst/doc/get-started.html | 8 - inst/doc/shiny-usage.html | 8 - man/dragulaInput.Rd | 6 + man/ggcall.Rd | 55 ++++++---- man/module-chooseData.Rd | 118 +++++++++++----------- man/module-esquisse.Rd | 170 ++++++++++++++++---------------- man/which_pal_scale.Rd | 1 27 files changed, 536 insertions(+), 612 deletions(-)
Title: Win Ratio Analysis
Description: Contains win-ratio analysis routines for prioritized composite time-to-event
outcomes, e.g., death and non-fatal events. These routines include functions to fit
the proportional win-fractions (PW) model and to compute and plot the standardized
score process to assess the proportionality assumption.
Author: Lu Mao and Tuo Wang
Maintainer: Lu Mao <lmao@biostat.wisc.edu>
Diff between WR versions 0.1.0 dated 2019-10-06 and 0.1.1 dated 2020-01-27
DESCRIPTION | 6 MD5 | 16 - R/functions.R | 10 R/generic.R | 2 inst/doc/WR.Rmd | 5 inst/doc/WR.html | 836 +++++++++++++++++++++++++++--------------------------- man/pwreg.Rd | 5 man/score.proc.Rd | 5 vignettes/WR.Rmd | 5 9 files changed, 453 insertions(+), 437 deletions(-)
Title: Tidy Quantitative Financial Analysis
Description: Bringing financial analysis to the 'tidyverse'. The 'tidyquant'
package provides a convenient wrapper to various 'xts', 'zoo', 'quantmod', 'TTR'
and 'PerformanceAnalytics' package
functions and returns the objects in the tidy 'tibble' format. The main
advantage is being able to use quantitative functions with the 'tidyverse'
functions including 'purrr', 'dplyr', 'tidyr', 'ggplot2', 'lubridate', etc. See
the 'tidyquant' website for more information, documentation and examples.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between tidyquant versions 0.5.9 dated 2019-12-15 and 0.5.10 dated 2020-01-27
tidyquant-0.5.10/tidyquant/DESCRIPTION | 10 tidyquant-0.5.10/tidyquant/MD5 | 64 - tidyquant-0.5.10/tidyquant/NEWS.md | 5 tidyquant-0.5.10/tidyquant/R/alphavantager.R | 1 tidyquant-0.5.10/tidyquant/R/scale_manual.R | 1 tidyquant-0.5.10/tidyquant/R/tq_stock_list.R | 15 tidyquant-0.5.10/tidyquant/inst/doc/TQ00-introduction-to-tidyquant.R | 4 tidyquant-0.5.10/tidyquant/inst/doc/TQ00-introduction-to-tidyquant.html | 15 tidyquant-0.5.10/tidyquant/inst/doc/TQ01-core-functions-in-tidyquant.R | 72 - tidyquant-0.5.10/tidyquant/inst/doc/TQ01-core-functions-in-tidyquant.html | 128 +- tidyquant-0.5.10/tidyquant/inst/doc/TQ02-quant-integrations-in-tidyquant.R | 66 - tidyquant-0.5.10/tidyquant/inst/doc/TQ02-quant-integrations-in-tidyquant.html | 57 tidyquant-0.5.10/tidyquant/inst/doc/TQ03-scaling-and-modeling-with-tidyquant.R | 50 tidyquant-0.5.10/tidyquant/inst/doc/TQ03-scaling-and-modeling-with-tidyquant.html | 105 - tidyquant-0.5.10/tidyquant/inst/doc/TQ04-charting-with-tidyquant.R | 50 tidyquant-0.5.10/tidyquant/inst/doc/TQ04-charting-with-tidyquant.html | 17 tidyquant-0.5.10/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.R | 107 - tidyquant-0.5.10/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.Rmd | 6 tidyquant-0.5.10/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.html | 596 ++++------ tidyquant-0.5.10/tidyquant/man/deprecated.Rd | 7 tidyquant-0.5.10/tidyquant/man/geom_bbands.Rd | 50 tidyquant-0.5.10/tidyquant/man/geom_chart.Rd | 36 tidyquant-0.5.10/tidyquant/man/geom_ma.Rd | 37 tidyquant-0.5.10/tidyquant/man/palette_tq.Rd | 2 tidyquant-0.5.10/tidyquant/man/tidyquant.Rd | 1 tidyquant-0.5.10/tidyquant/man/tq_index.Rd |only tidyquant-0.5.10/tidyquant/man/tq_mutate.Rd | 22 tidyquant-0.5.10/tidyquant/man/tq_portfolio.Rd | 20 tidyquant-0.5.10/tidyquant/tests/testthat.R | 2 tidyquant-0.5.10/tidyquant/tests/testthat/test_tq_get_compound_getters.R | 153 +- tidyquant-0.5.10/tidyquant/tests/testthat/test_tq_get_dividends.R | 40 tidyquant-0.5.10/tidyquant/tests/testthat/test_tq_get_splits.R | 38 tidyquant-0.5.10/tidyquant/vignettes/TQ05-performance-analysis-with-tidyquant.Rmd | 6 tidyquant-0.5.9/tidyquant/man/tq_stock_list.Rd |only 34 files changed, 937 insertions(+), 846 deletions(-)
Title: Normalizing Transformation Functions
Description: Estimate a suite of normalizing transformations, including
a new adaptation of a technique based on ranks which can guarantee
normally distributed transformed data if there are no ties: ordered
quantile normalization (ORQ). ORQ normalization combines a rank-mapping
approach with a shifted logit approximation that allows
the transformation to work on data outside the original domain. It is
also able to handle new data within the original domain via linear
interpolation. The package is built to estimate the best normalizing
transformation for a vector consistently and accurately. It implements
the Box-Cox transformation, the Yeo-Johnson transformation, three types
of Lambert WxF transformations, and the ordered quantile normalization
transformation. It also estimates the normalization efficacy of other
commonly used transformations.
Author: Ryan Andrew Peterson [aut, cre]
Maintainer: Ryan Andrew Peterson <ryan.a.peterson@cuanschutz.edu>
Diff between bestNormalize versions 1.4.2 dated 2019-08-20 and 1.4.3 dated 2020-01-27
DESCRIPTION | 8 +- MD5 | 24 ++++---- NEWS.md | 12 ++++ R/bestNormalize.R | 102 +++++++++++++++++++++++------------- R/exp_x.R | 13 +--- R/log_x.R | 1 R/plots.R | 2 R/sqrt_x.R | 11 +-- R/yeojohnson.R | 1 inst/doc/bestNormalize.html | 28 ++++----- man/bestNormalize.Rd | 63 +++++++++++++--------- man/sqrt_x.Rd | 8 +- tests/testthat/test_bestNormalize.R | 30 ++++++++++ 13 files changed, 191 insertions(+), 112 deletions(-)
Title: Operationalizing Social Determinants of Health Data for
Researchers
Description: Accesses raw data via API and calculates social
determinants of health measures for user-specified locations in the
US, returning them in tidyverse- and sf-compatible data frames.
Author: Nik Krieger [aut, cre],
Jarrod Dalton [aut],
Cindy Wang [aut],
Adam Perzynski [aut],
National Institutes of Health/National Institute on Aging [fnd] (The
development of this software package was supported by a research
grant from the National Institutes of Health/National Institute on
Aging, (Principal Investigators: Jarrod E. Dalton, PhD and Adam T.
Perzynski, PhD; Grant Number: 5R01AG055480-02). All of its contents
are solely the responsibility of the authors and do not necessarily
represent the official views of the NIH.)
Maintainer: Nik Krieger <nk@case.edu>
Diff between sociome versions 1.3.0 dated 2019-11-06 and 1.3.2 dated 2020-01-27
DESCRIPTION | 18 +++++++++--------- MD5 | 10 +++++----- NAMESPACE | 4 ++-- NEWS.md | 14 ++++++++++++++ R/get_adi.R | 14 ++++++++------ man/get_adi.Rd | 12 ++++++------ 6 files changed, 44 insertions(+), 28 deletions(-)
Title: An Interface to IBGE's SIDRA API
Description: Allows the user to connect with IBGE's (Instituto Brasileiro de
Geografia e Estatistica, see <http://www.ibge.gov.br/> for more information)
SIDRA API in a flexible way. SIDRA is the acronym to "Sistema IBGE de
Recuperacao Automatica" and is the system where IBGE turns available
aggregate data from their researches.
Author: Renato Prado Siqueira [aut, cre]
Maintainer: Renato Prado Siqueira <rpradosiqueira@gmail.com>
Diff between sidrar versions 0.2.4 dated 2017-07-25 and 0.2.5 dated 2020-01-27
DESCRIPTION | 8 MD5 | 30 NAMESPACE | 12 NEWS.md | 5 R/get_sidra.R | 14 R/info_sidra.R | 316 - R/search_sidra.R | 58 README.md | 124 build/vignette.rds |binary inst/doc/Introduction_to_sidrar.R | 5 inst/doc/Introduction_to_sidrar.Rmd | 5 inst/doc/Introduction_to_sidrar.html | 7789 ++++++++++++++++++++++++++++++++++- man/get_sidra.Rd | 210 man/info_sidra.Rd | 68 man/search_sidra.Rd | 62 vignettes/Introduction_to_sidrar.Rmd | 5 16 files changed, 8084 insertions(+), 627 deletions(-)
Title: Import and Analyse Ego-Centered Network Data
Description: Tools for importing, analyzing and visualizing ego-centered
network data. Supports several data formats, including the export formats of
'EgoNet', 'EgoWeb 2.0' and 'openeddi'. An interactive (shiny) app for the
intuitive visualization of ego-centered networks is provided. Also included
are procedures for creating and visualizing Clustered Graphs
(Lerner 2008 <DOI:10.1109/PACIFICVIS.2008.4475458>).
Author: Till Krenz [aut, cre],
Pavel N. Krivitsky [aut],
Raffaele Vacca [aut],
Michal Bojanowski [aut],
Markus Gamper [ctb],
Andreas Herz [aut],
Christopher McCarty [ctb]
Maintainer: Till Krenz <egor@tillt.net>
Diff between egor versions 0.19.10 dated 2019-10-07 and 0.20.01 dated 2020-01-27
egor-0.19.10/egor/R/create.random.egonet.data.R |only egor-0.19.10/egor/R/vert.attr.R |only egor-0.19.10/egor/R/vert.attr.multi.R |only egor-0.19.10/egor/man/add_ego_vars_to_long_df.Rd |only egor-0.19.10/egor/man/long.df.to.list.Rd |only egor-0.19.10/egor/man/vert.attr.Rd |only egor-0.19.10/egor/man/vert.attr.multi.Rd |only egor-0.20.01/egor/DESCRIPTION | 12 egor-0.20.01/egor/MD5 | 114 +- egor-0.20.01/egor/NAMESPACE | 4 egor-0.20.01/egor/NEWS.md |only egor-0.20.01/egor/R/conversions.R | 252 +++--- egor-0.20.01/egor/R/count_dyads.R |only egor-0.20.01/egor/R/data.R | 18 egor-0.20.01/egor/R/dplyr_methods.r | 74 + egor-0.20.01/egor/R/ego_constraint.R |only egor-0.20.01/egor/R/egor.R | 30 egor-0.20.01/egor/R/egor_doc.R | 8 egor-0.20.01/egor/R/ei.R | 66 + egor-0.20.01/egor/R/make_egor.R |only egor-0.20.01/egor/R/plot_ego_gram.R | 404 +++++---- egor-0.20.01/egor/R/plot_ego_graph.R | 51 - egor-0.20.01/egor/R/plot_egor.R | 10 egor-0.20.01/egor/R/read.ego.folders.R | 4 egor-0.20.01/egor/R/read.egonet.R | 629 ++++++++------- egor-0.20.01/egor/R/wizz.R | 257 ++++-- egor-0.20.01/egor/build/vignette.rds |binary egor-0.20.01/egor/data/allbus_2010_simulated.rda |only egor-0.20.01/egor/inst/doc/egor_allbus.R |only egor-0.20.01/egor/inst/doc/egor_allbus.Rmd |only egor-0.20.01/egor/inst/doc/egor_allbus.html |only egor-0.20.01/egor/inst/doc/using_egor.R | 52 - egor-0.20.01/egor/inst/doc/using_egor.Rmd | 26 egor-0.20.01/egor/inst/doc/using_egor.html | 208 +++- egor-0.20.01/egor/man/allbus_2010_simulated.Rd |only egor-0.20.01/egor/man/as_alters_df.Rd | 7 egor-0.20.01/egor/man/as_igraph.Rd | 27 egor-0.20.01/egor/man/as_network.Rd | 18 egor-0.20.01/egor/man/clustered_graphs.Rd | 6 egor-0.20.01/egor/man/comp_ply.Rd | 2 egor-0.20.01/egor/man/count_dyads.Rd |only egor-0.20.01/egor/man/edgelist_to_wide.Rd | 2 egor-0.20.01/egor/man/ego_constraint.Rd |only egor-0.20.01/egor/man/ego_density.Rd | 6 egor-0.20.01/egor/man/egor-package-doc.Rd | 6 egor-0.20.01/egor/man/egor.Rd | 11 egor-0.20.01/egor/man/make_edge_list.Rd | 2 egor-0.20.01/egor/man/make_egor.Rd | 7 egor-0.20.01/egor/man/onefile_to_egor.Rd | 55 - egor-0.20.01/egor/man/plot_egor.Rd | 77 + egor-0.20.01/egor/man/read_egonet.Rd | 23 egor-0.20.01/egor/man/subset.egor.Rd | 2 egor-0.20.01/egor/man/threefiles_to_egor.Rd | 49 - egor-0.20.01/egor/man/twofiles_to_egor.Rd | 28 egor-0.20.01/egor/man/vis_clustered_graphs.Rd | 17 egor-0.20.01/egor/man/wide.dyads.to.edgelist.Rd | 9 egor-0.20.01/egor/man/wide.to.long.Rd | 14 egor-0.20.01/egor/tests/testthat/test-count_dyads.R |only egor-0.20.01/egor/tests/testthat/test-ego_constraint.R |only egor-0.20.01/egor/tests/testthat/test-make_egor.R |only egor-0.20.01/egor/tests/testthat/test-onefile_to_egor.R |only egor-0.20.01/egor/tests/testthat/test-plot_egor.R |only egor-0.20.01/egor/tests/testthat/test-trimming.R |only egor-0.20.01/egor/tests/testthat/test-twofiles_to_egor.R |only egor-0.20.01/egor/tests/testthat/test_conversions.R | 21 egor-0.20.01/egor/tests/testthat/test_dplyr_methods.R | 3 egor-0.20.01/egor/tests/testthat/test_egor.R | 8 egor-0.20.01/egor/tests/testthat/test_read.R | 103 ++ egor-0.20.01/egor/tests/testthat/test_vis_app.R | 91 -- egor-0.20.01/egor/vignettes/egor_allbus.Rmd |only egor-0.20.01/egor/vignettes/using_egor.Rmd | 26 71 files changed, 1739 insertions(+), 1100 deletions(-)
Title: Project Specific Workspace Organization Templates
Description: Creates project specific directory and file templates that are written to a .Rprofile file. Upon starting a new R session, these templates can be used to streamline the creation of new directories that are standardized to the user's preferences.
Author: Nick Williams [aut, cre] (<https://orcid.org/0000-0002-1378-4831>)
Maintainer: Nick Williams <ntwilliams.personal@gmail.com>
Diff between cabinets versions 0.3.1 dated 2019-11-01 and 0.4.0 dated 2020-01-27
cabinets-0.3.1/cabinets/README.md |only cabinets-0.4.0/cabinets/DESCRIPTION | 13 +++--- cabinets-0.4.0/cabinets/MD5 | 12 +++--- cabinets-0.4.0/cabinets/NEWS.md |only cabinets-0.4.0/cabinets/R/cabinets.R | 44 +++++++++++++++++++++++ cabinets-0.4.0/cabinets/R/checks.R | 45 +++++++++++++++++++++--- cabinets-0.4.0/cabinets/R/utils.R | 17 ++------- cabinets-0.4.0/cabinets/man/new_cabinet_proj.Rd | 17 ++++++++- 8 files changed, 118 insertions(+), 30 deletions(-)
Title: Implementation of the 'PROCESS' Macro
Description: Perform moderation, mediation, moderated mediation and moderated moderation.
Inspired from famous 'PROCESS' macro for 'SPSS' and 'SAS' created by Andrew Hayes.
Author: Keon-Woong Moon [aut, cre],
Sokyoung Hong [ctb]
Maintainer: Keon-Woong Moon <cardiomoon@gmail.com>
Diff between processR versions 0.1.0 dated 2019-03-07 and 0.2.3 dated 2020-01-27
DESCRIPTION | 19 MD5 | 257 +++++++++-- NAMESPACE | 174 +++++++- NEWS.md | 301 ++++++++++++++ R/CorPlot.R | 13 R/catMediation.R | 55 ++ R/compareMC.R |only R/conceptDiagram.R | 173 ++++++-- R/condPlot.R |only R/condPlot2.R |only R/condPlotCat.R |only R/condPlotCat2.R |only R/conditionalEffectPlot.R | 42 + R/densityPlot.R |only R/drawCatModel.R |only R/drawConcept.R |only R/drawModel.R |only R/education.R | 12 R/extractIMM.R |only R/internal.R |only R/labels2table.R |only R/makeCatEquation.R | 420 +++++++++++++++++++ R/makeEquation.R | 31 + R/makePPTx.R |only R/matrixPlot.R |only R/meanSummary.R |only R/mediationBK.R |only R/modSummary.R |only R/modSummary2.R |only R/modSummary3.R |only R/modelsSummary.R | 505 +++++++++++++++++++++-- R/modelsSummary2.R |only R/modmedEquation.R | 22 - R/modmedSummary.R | 857 +++++++++++++++++++++++++++++++++++++--- R/multipleMediation.R |only R/pmacroModel.R | 44 +- R/r2diff.R |only R/regEquation.R | 20 R/showModels.R | 6 R/statisticalDiagram.R | 447 ++++++++++++++++---- R/teachers.R |only R/tripleInteraction.R | 151 +++++-- R/ztable.modelSummary.R |only README.md | 15 build/vignette.rds |binary data/moreModels.rda |only data/nodes.rda |binary data/parrows.rda |binary data/pmacro.rda |binary data/teachers.rda |only inst/doc/processR.R | 14 inst/doc/processR.html | 348 +++++++++++++--- inst/test |only man/addCovarEquation.Rd | 17 man/addLabels.Rd |only man/addTripleInteraction.Rd |only man/adjustxpos.Rd | 8 man/adjustypos.Rd |only man/appendLabels.Rd |only man/bda.mediation.test.Rd |only man/catMediation.Rd | 20 man/changeLabelName.Rd | 7 man/checkEqVars.Rd |only man/checkEquationVars.Rd |only man/compareMC.Rd |only man/compareMCTable.Rd |only man/compareVIF.Rd |only man/compareVIFTable.Rd |only man/conceptDiagram2.Rd | 34 + man/condPlot.Rd |only man/condPlot2.Rd |only man/condPlotCat.Rd |only man/condPlotCat2.Rd |only man/conditionalEffectPlot.Rd | 21 man/corPlot.Rd | 11 man/corTable2.Rd | 3 man/covar2df.Rd |only man/deleteSingleNumber.Rd |only man/densityPlot.Rd |only man/divideEquation.Rd |only man/drawArrows.Rd | 11 man/drawCatModel.Rd |only man/drawConcept.Rd |only man/drawCovar.Rd | 3 man/drawModel.Rd |only man/drawStatDiagram.Rd | 27 + man/eq2fit.Rd |only man/eq2var.Rd |only man/equations2var.Rd |only man/estimatesTable.Rd | 13 man/estimatesTable2.Rd | 10 man/extractIMM.Rd |only man/extractModerator.Rd |only man/extractNumber.Rd |only man/extractRange.Rd |only man/findName.Rd | 21 man/findNames.Rd | 6 man/fit2table.Rd |only man/fit2vif.Rd |only man/get2ndIndirect.Rd |only man/getArrows.Rd |only man/getBootData.Rd |only man/getCatSlopeDf.Rd |only man/getCoef.Rd |only man/getEq2p.Rd |only man/getInfo.Rd | 2 man/getMeanSd.Rd |only man/getNodes.Rd |only man/getRepValues.Rd |only man/getYhat1.Rd |only man/ggCor.Rd |only man/interactStr.Rd | 3 man/jnPlot.Rd |only man/label2name.Rd |only man/labels2table.Rd |only man/makeAnovaDf.Rd |only man/makeCEDf.Rd |only man/makeCatEquation.Rd | 19 man/makeCatEquation2.Rd |only man/makeCatEquation3.Rd |only man/makeCatModel.Rd |only man/makeCoefLabel.Rd |only man/makeIndirectEquation.Rd | 37 + man/makeIndirectEquationCat.Rd | 16 man/makeIndirectEquationCat2.Rd |only man/makeLabel.Rd |only man/makePPTx.Rd |only man/matrix2df.Rd |only man/matrix2no.Rd |only man/matrixPlot.Rd |only man/meanSummary.Rd |only man/meanSummaryTable.Rd |only man/medSummary.Rd |only man/medSummaryTable.Rd |only man/medSummaryTable1.Rd |only man/medSummaryTable2.Rd |only man/mediationBK.Rd |only man/modSummary.Rd |only man/modSummary2.Rd |only man/modSummary2Table.Rd |only man/modSummary3.Rd |only man/modSummary3Table.Rd |only man/modSummaryTable.Rd |only man/modelsSummary.Rd | 44 +- man/modelsSummary2.Rd |only man/modelsSummary2Table.Rd |only man/modelsSummaryTable.Rd | 14 man/moderator2df.Rd |only man/modmedEquation.Rd | 11 man/modmedSummary.Rd | 33 + man/modmedSummary2Table.Rd |only man/modmedSummaryTable.Rd | 8 man/moreModels.Rd |only man/multipleMediation.Rd |only man/myarrow.Rd | 30 + man/myarrow2.Rd | 24 + man/mycat.Rd |only man/mycor.Rd |only man/mylm.Rd |only man/numberSubscript.Rd |only man/p2chr.Rd |only man/parallelMatrix.Rd |only man/plot.mediationBK.Rd |only man/plotCoef.Rd |only man/pmacroModel.Rd | 26 - man/print.compareVIF.Rd |only man/print.meanSummary.Rd |only man/print.medSummary.Rd |only man/print.medSummary2.Rd |only man/print.mediationBK.Rd |only man/print.modSummary.Rd |only man/print.modelSummary2.Rd |only man/print.modmedSummary2.Rd |only man/productEq.Rd |only man/qqPlot.Rd |only man/r2diff.Rd |only man/r2pptx.Rd |only man/regEquation.Rd | 12 man/rightPrint.Rd | 4 man/seekVar.Rd | 16 man/separateEq.Rd |only man/setPositionNodes.Rd |only man/standardize.Rd |only man/standardizeDf.Rd |only man/statisticalDiagram.Rd | 64 ++ man/summary.mediationBK.Rd |only man/teachers.Rd |only man/theme_clean2.Rd |only man/treatInteraction.Rd |only man/treatModerator.Rd | 12 man/tripleEquation.Rd | 30 + man/tripleInteraction.Rd | 3 man/unfold.Rd |only man/vars2df.Rd |only man/vif.Rd |only man/ztable.compareMC.Rd |only man/ztable.modelSummary.Rd |only 197 files changed, 3995 insertions(+), 551 deletions(-)
Title: Genome Wide Association Studies
Description: Fast single trait Genome Wide Association Studies (GWAS) following
the method described in Kang et al. (2010), <doi:10.1038/ng.548>.
One of a series of statistical genetic packages for streamlining the
analysis of typical plant breeding experiments developed by Biometris.
Author: Bart-Jan van Rossum [aut, cre],
Willem Kruijer [aut] (<https://orcid.org/0000-0001-7179-1733>),
Fred van Eeuwijk [ctb] (<https://orcid.org/0000-0003-3672-2921>),
Martin Boer [ctb],
Marcos Malosetti [ctb] (<https://orcid.org/0000-0002-8150-1397>),
Daniela Bustos-Korts [ctb] (<https://orcid.org/0000-0003-3827-6726>),
Emilie Millet [ctb] (<https://orcid.org/0000-0002-2913-4892>),
Joao Paulo [ctb] (<https://orcid.org/0000-0002-4180-0763>),
Maikel Verouden [ctb] (<https://orcid.org/0000-0002-4893-3323>),
Ron Wehrens [ctb] (<https://orcid.org/0000-0002-8798-5599>),
Choazhi Zheng [ctb] (<https://orcid.org/0000-0001-6030-3933>)
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between statgenGWAS versions 1.0.2 dated 2020-01-20 and 1.0.3 dated 2020-01-27
DESCRIPTION | 19 + MD5 | 20 - NEWS.md | 5 R/qtlPlot.R | 463 ++++++++++++++++++++++----------------------- README.md | 6 inst/doc/GWAS.Rmd | 2 inst/doc/GWAS.html | 54 ++--- inst/tinytest/test_plots.R | 442 +++++++++++++++++++++--------------------- man/statgenGWAS-package.Rd | 79 ++++--- src/getThr.cpp | 19 + vignettes/GWAS.Rmd | 2 11 files changed, 571 insertions(+), 540 deletions(-)
Title: Nonlinear Mixed Effects Models in Population Pharmacokinetics
and Pharmacodynamics
Description: Fit and compare nonlinear mixed-effects models in differential
equations with flexible dosing information commonly seen in pharmacokinetics
and pharmacodynamics (Almquist, Leander, and Jirstrand 2015
<doi:10.1007/s10928-015-9409-1>). Differential equation solving is
by compiled C code provided in the 'RxODE' package
(Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Yuan Xiong [aut],
Rik Schoemaker [aut] (<https://orcid.org/0000-0002-7538-3005>),
Justin Wilkins [aut] (<https://orcid.org/0000-0002-7099-9396>),
Richard Hooijmaijers [aut],
Teun Post [aut],
Wenping Wang [aut, cre],
Robert Leary [ctb],
Mirjam Trame [ctb],
Hadley Wickham [ctb],
Dirk Eddelbuettel [cph],
Johannes Pfeifer [ctb],
Robert B. Schnabel [ctb],
Elizabeth Eskow [ctb],
Emmanuelle Comets [ctb],
Audrey Lavenu [ctb],
Marc Lavielle [ctb],
David Ardia [cph],
Bill Denney [ctb] (<https://orcid.org/0000-0002-5759-428X>),
Daniel C. Dillon [ctb],
Katharine Mullen [cph],
Ben Goodrich [ctb]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between nlmixr versions 1.1.1-3 dated 2019-11-13 and 1.1.1-5 dated 2020-01-27
DESCRIPTION | 21 ++-- MD5 | 93 ++++++++++---------- NAMESPACE | 5 + NEWS.md |only R/complete.R |only R/foceiFit.R | 29 +++++- R/nlme_fit.R | 4 R/reexports.R | 2 R/saem_fit.R | 4 R/saem_fit_aux.R | 6 - R/utils.R | 7 - R/vpc.saemFit.R | 2 R/vpc.ui.R | 2 man/VarCorr.nlmixrNlme.Rd | 2 man/addNpde.Rd | 11 ++ man/as.focei.Rd | 3 man/asHux.nlmixrFitCore.Rd | 29 ++++-- man/bootdata.Rd | 2 man/cholSE.Rd | 2 man/configsaem.Rd | 15 ++- man/dynmodel.Rd | 12 ++ man/dynmodel.mcmc.Rd | 13 ++ man/foceiControl.Rd | 151 ++++++++++++++++++++++++---------- man/foceiFit.Rd | 23 ++++- man/gen_saem_user_fn.Rd | 8 + man/gnlmm.Rd | 24 ++++- man/lin_cmt.Rd | 13 ++ man/lincmt.Rd | 3 man/nlme_lin_cmpt.Rd | 45 ++++++++-- man/nlme_ode.Rd | 50 +++++++++-- man/nlmixr.Rd | 48 ++++++++-- man/nlmixrAugPred.Rd | 22 +++- man/nlmixrBounds.focei.upper.lower.Rd | 3 man/nlmixrGill83.Rd | 13 ++ man/nlmixrGradFun.Rd | 17 ++- man/nlmixrPrint.Rd | 3 man/nlmixrSim.Rd | 69 +++++++++++---- man/nlmixr_fit.Rd | 14 ++- man/nmDocx.Rd | 13 ++ man/reexports.Rd | 8 - man/residuals.nlmixrFitData.Rd | 7 + man/saem.fit.Rd | 131 ++++++++++++++++++++--------- man/saemControl.Rd | 27 ++++-- man/tableControl.Rd | 17 ++- man/vpc_nlmixr_nlme.Rd | 2 man/vpc_saemFit.Rd | 2 man/vpc_ui.Rd | 37 ++++++-- src/inner.cpp | 97 ++++++++++++--------- tests/testthat/test-cov-focei.R |only 49 files changed, 780 insertions(+), 331 deletions(-)
Title: Read Spectrometric Data and Metadata
Description: Parse various reflectance/transmittance/absorbance spectra file
formats to extract spectral data and metadata, as described in Gruson, White
& Maia (2019) <doi:10.21105/joss.01857>.
This package has been peer-reviewed by rOpenSci (v. 0.1).
Author: Hugo Gruson [cre, aut] (<https://orcid.org/0000-0002-4094-1476>),
Rafael Maia [aut] (<https://orcid.org/0000-0002-7563-9795>),
Thomas White [aut] (<https://orcid.org/0000-0002-3976-1734>),
Kotya Karapetyan [cph] (Author of the MATLAB script to read Avantes
binary files (CC-BY))
Maintainer: Hugo Gruson <hugo.gruson+R@normalesup.org>
Diff between lightr versions 0.1 dated 2019-11-19 and 1.0 dated 2020-01-27
lightr-0.1/lightr/inst/doc/custom_import.R |only lightr-0.1/lightr/inst/doc/custom_import.Rmd |only lightr-0.1/lightr/inst/doc/custom_import.html |only lightr-0.1/lightr/vignettes/custom_import.Rmd |only lightr-0.1/lightr/vignettes/data/heliomaster |only lightr-1.0/lightr/DESCRIPTION | 10 - lightr-1.0/lightr/MD5 | 97 ++++------ lightr-1.0/lightr/NAMESPACE | 4 lightr-1.0/lightr/NEWS.md | 22 ++ lightr-1.0/lightr/R/convert_tocsv.R | 31 +-- lightr-1.0/lightr/R/dispatch_parser.R | 4 lightr-1.0/lightr/R/get_metadata.R | 34 ++- lightr-1.0/lightr/R/get_spec.R | 91 ++++++--- lightr-1.0/lightr/R/parse_avantes_binary.R | 70 +++---- lightr-1.0/lightr/R/parse_avantes_converted.R | 6 lightr-1.0/lightr/R/parse_generic.R | 7 lightr-1.0/lightr/R/parse_jdx.R | 5 lightr-1.0/lightr/R/parse_oceanoptics_converted.R | 7 lightr-1.0/lightr/R/parse_procspec.R | 7 lightr-1.0/lightr/README.md | 75 ++++--- lightr-1.0/lightr/build/partial.rdb |binary lightr-1.0/lightr/build/vignette.rds |binary lightr-1.0/lightr/inst/CITATION |only lightr-1.0/lightr/inst/doc/batch_import.R | 4 lightr-1.0/lightr/inst/doc/batch_import.Rmd | 9 lightr-1.0/lightr/inst/doc/batch_import.html | 46 ++-- lightr-1.0/lightr/inst/doc/renormalise.Rmd | 22 ++ lightr-1.0/lightr/inst/doc/renormalise.html | 55 ++--- lightr-1.0/lightr/inst/doc/true_example.R | 9 lightr-1.0/lightr/inst/doc/true_example.Rmd | 16 - lightr-1.0/lightr/inst/doc/true_example.html | 72 +++---- lightr-1.0/lightr/inst/lightr.bib | 17 - lightr-1.0/lightr/inst/testdata/heliomaster |only lightr-1.0/lightr/inst/testdata/notest |only lightr-1.0/lightr/man/dispatch_parser.Rd |only lightr-1.0/lightr/man/lr_convert_tocsv.Rd | 18 + lightr-1.0/lightr/man/lr_get_metadata.Rd | 20 +- lightr-1.0/lightr/man/lr_get_spec.Rd | 29 ++ lightr-1.0/lightr/man/lr_parse_jaz.Rd | 5 lightr-1.0/lightr/man/lr_parse_jdx.Rd | 5 lightr-1.0/lightr/man/lr_parse_procspec.Rd | 7 lightr-1.0/lightr/tests/spelling.R | 2 lightr-1.0/lightr/tests/testthat/known_output/getmetadata_all.rds |binary lightr-1.0/lightr/tests/testthat/test_convert.R | 28 +- lightr-1.0/lightr/tests/testthat/test_dispatch.R | 2 lightr-1.0/lightr/tests/testthat/test_getspec.R | 10 + lightr-1.0/lightr/tests/testthat/test_multicores.R | 12 - lightr-1.0/lightr/tests/testthat/test_parsers.R | 5 lightr-1.0/lightr/vignettes/batch_import.Rmd | 9 lightr-1.0/lightr/vignettes/renormalise.Rmd | 22 ++ lightr-1.0/lightr/vignettes/true_example.Rmd | 16 - 51 files changed, 563 insertions(+), 347 deletions(-)
Title: Restricted Statistical Estimation and Inference for Linear
Models
Description: Allow for easy-to-use testing or evaluating of linear equality and inequality
restrictions about parameters and effects in (generalized) linear statistical models.
Author: Leonard Vanbrabant [aut, cre],
Yves Rosseel [ctb]
Maintainer: Leonard Vanbrabant <info@restriktor.org>
Diff between restriktor versions 0.2-500 dated 2019-12-09 and 0.2-600 dated 2020-01-27
DESCRIPTION | 6 ++--- MD5 | 20 ++++++++-------- NAMESPACE | 10 ++++---- R/con_augmented_information.R | 4 +-- R/con_goric.R | 50 +++++++++++++++++++++++++----------------- R/con_gorica_est_summary.R | 4 +-- R/con_pbar.R | 12 ---------- R/con_weights.R | 7 ----- inst/NEWS | 14 +++++++++++ man/goric.Rd | 12 +++++----- man/restriktor-package.rd | 4 +-- 11 files changed, 75 insertions(+), 68 deletions(-)
Title: DIF and DDF Detection by Non-Linear Regression Models
Description: Detection of differential item functioning (DIF) among dichotomously scored items and differential distractor functioning (DDF) among unscored items with non-linear regression procedures based on generalized logistic regression models (Drabinova and Martinkova, 2017, doi:10.1111/jedm.12158).
Author: Adela Hladka [aut, cre],
Patricia Martinkova [aut],
Karel Zvara [ctb]
Maintainer: Adela Hladka <hladka@cs.cas.cz>
Diff between difNLR versions 1.3.0 dated 2019-08-20 and 1.3.1 dated 2020-01-27
difNLR-1.3.0/difNLR/NEWS |only difNLR-1.3.0/difNLR/R/ddfORD.R |only difNLR-1.3.0/difNLR/man/ddfORD.Rd |only difNLR-1.3.1/difNLR/DESCRIPTION | 11 difNLR-1.3.1/difNLR/MD5 | 102 - difNLR-1.3.1/difNLR/NAMESPACE | 16 difNLR-1.3.1/difNLR/NEWS.md |only difNLR-1.3.1/difNLR/R/GMAT.R | 33 difNLR-1.3.1/difNLR/R/GMAT2.R | 27 difNLR-1.3.1/difNLR/R/GMAT2key.R | 15 difNLR-1.3.1/difNLR/R/GMAT2test.R | 27 difNLR-1.3.1/difNLR/R/GMATkey.R | 21 difNLR-1.3.1/difNLR/R/GMATtest.R | 35 difNLR-1.3.1/difNLR/R/MLR.R | 478 +++--- difNLR-1.3.1/difNLR/R/MSATB.R | 29 difNLR-1.3.1/difNLR/R/MSATBkey.R | 18 difNLR-1.3.1/difNLR/R/MSATBtest.R | 28 difNLR-1.3.1/difNLR/R/NLR.R | 484 +++--- difNLR-1.3.1/difNLR/R/ORD.R | 419 +++-- difNLR-1.3.1/difNLR/R/checkInterval.R | 17 difNLR-1.3.1/difNLR/R/ddfMLR.R | 982 +++++++----- difNLR-1.3.1/difNLR/R/difNLR-package.R | 50 difNLR-1.3.1/difNLR/R/difNLR.R | 1782 ++++++++++++----------- difNLR-1.3.1/difNLR/R/difORD.R |only difNLR-1.3.1/difNLR/R/estimNLR.R | 184 +- difNLR-1.3.1/difNLR/R/formulaNLR.R | 258 +-- difNLR-1.3.1/difNLR/R/genNLR.R | 320 ++-- difNLR-1.3.1/difNLR/R/startNLR.R | 261 +-- difNLR-1.3.1/difNLR/README.md | 6 difNLR-1.3.1/difNLR/inst/DDF_CLRM_category.png |binary difNLR-1.3.1/difNLR/inst/DDF_CLRM_cumulative.png |binary difNLR-1.3.1/difNLR/inst/DIF_NLR.png |binary difNLR-1.3.1/difNLR/man/GMAT.Rd | 32 difNLR-1.3.1/difNLR/man/GMAT2.Rd | 26 difNLR-1.3.1/difNLR/man/GMAT2key.Rd | 14 difNLR-1.3.1/difNLR/man/GMAT2test.Rd | 26 difNLR-1.3.1/difNLR/man/GMATkey.Rd | 19 difNLR-1.3.1/difNLR/man/GMATtest.Rd | 34 difNLR-1.3.1/difNLR/man/MLR.Rd | 233 +-- difNLR-1.3.1/difNLR/man/MSATB.Rd | 27 difNLR-1.3.1/difNLR/man/MSATBkey.Rd | 16 difNLR-1.3.1/difNLR/man/MSATBtest.Rd | 26 difNLR-1.3.1/difNLR/man/NLR.Rd | 155 -- difNLR-1.3.1/difNLR/man/ORD.Rd | 108 - difNLR-1.3.1/difNLR/man/checkInterval.Rd | 12 difNLR-1.3.1/difNLR/man/ddfMLR.Rd | 445 ++--- difNLR-1.3.1/difNLR/man/difNLR-package.Rd | 157 +- difNLR-1.3.1/difNLR/man/difNLR.Rd | 678 ++++---- difNLR-1.3.1/difNLR/man/difORD.Rd |only difNLR-1.3.1/difNLR/man/estimNLR.Rd | 40 difNLR-1.3.1/difNLR/man/formulaNLR.Rd | 82 - difNLR-1.3.1/difNLR/man/genNLR.Rd | 245 +-- difNLR-1.3.1/difNLR/man/plot.difNLR.Rd | 48 difNLR-1.3.1/difNLR/man/predict.difNLR.Rd | 148 - difNLR-1.3.1/difNLR/man/startNLR.Rd | 63 55 files changed, 4473 insertions(+), 3764 deletions(-)
Title: Interface to 'TensorFlow Probability'
Description: Interface to 'TensorFlow Probability', a 'Python' library built on 'TensorFlow'
that makes it easy to combine probabilistic models and deep learning on modern hardware ('TPU', 'GPU').
'TensorFlow Probability' includes a wide selection of probability distributions and bijectors, probabilistic layers,
variational inference, Markov chain Monte Carlo, and optimizers such as Nelder-Mead, BFGS, and SGLD.
Author: Sigrid Keydana [aut, cre],
Daniel Falbel [ctb],
Kevin Kuo [ctb] (<https://orcid.org/0000-0001-7803-7901>),
RStudio [cph]
Maintainer: Sigrid Keydana <sigrid@rstudio.com>
Diff between tfprobability versions 0.8.0.0 dated 2019-10-30 and 0.9.0.0 dated 2020-01-27
DESCRIPTION | 6 MD5 | 375 +++++---- NAMESPACE | 25 NEWS.md |only R/bijectors.R | 549 ++++++++++++++ R/distribution-methods.R | 87 +- R/distributions.R | 659 ++++++++++++++++- R/mcmc-kernels.R | 52 + R/package.R | 2 R/sts.R | 200 +++++ R/symbols.R |only build/vignette.rds |binary inst/doc/dynamic_linear_models.html | 4 inst/doc/hamiltonian_monte_carlo.html | 4 inst/doc/layer_dense_variational.html | 4 man/mcmc_replica_exchange_mc.Rd | 4 man/sts_additive_state_space_model.Rd | 2 man/sts_autoregressive.Rd | 2 man/sts_autoregressive_state_space_model.Rd | 2 man/sts_constrained_seasonal_state_space_model.Rd | 2 man/sts_dynamic_linear_regression.Rd | 2 man/sts_dynamic_linear_regression_state_space_model.Rd | 2 man/sts_linear_regression.Rd | 2 man/sts_local_level.Rd | 2 man/sts_local_level_state_space_model.Rd | 2 man/sts_local_linear_trend.Rd | 2 man/sts_local_linear_trend_state_space_model.Rd | 2 man/sts_seasonal.Rd | 2 man/sts_seasonal_state_space_model.Rd | 2 man/sts_semi_local_linear_trend.Rd | 2 man/sts_semi_local_linear_trend_state_space_model.Rd | 2 man/sts_smooth_seasonal.Rd |only man/sts_smooth_seasonal_state_space_model.Rd |only man/sts_sparse_linear_regression.Rd | 3 man/sts_sum.Rd | 2 man/tfb_absolute_value.Rd | 25 man/tfb_affine.Rd | 25 man/tfb_affine_linear_operator.Rd | 25 man/tfb_affine_scalar.Rd | 25 man/tfb_batch_normalization.Rd | 25 man/tfb_blockwise.Rd | 25 man/tfb_chain.Rd | 25 man/tfb_cholesky_outer_product.Rd | 25 man/tfb_cholesky_to_inv_cholesky.Rd | 25 man/tfb_correlation_cholesky.Rd | 25 man/tfb_cumsum.Rd | 50 + man/tfb_discrete_cosine_transform.Rd | 26 man/tfb_exp.Rd | 26 man/tfb_expm1.Rd | 27 man/tfb_ffjord.Rd |only man/tfb_fill_scale_tri_l.Rd |only man/tfb_fill_triangular.Rd | 25 man/tfb_gumbel.Rd | 25 man/tfb_gumbel_cdf.Rd |only man/tfb_identity.Rd | 25 man/tfb_inline.Rd | 25 man/tfb_invert.Rd | 25 man/tfb_iterated_sigmoid_centered.Rd | 50 + man/tfb_kumaraswamy.Rd | 25 man/tfb_kumaraswamy_cdf.Rd |only man/tfb_masked_autoregressive_default_template.Rd | 25 man/tfb_masked_autoregressive_flow.Rd | 25 man/tfb_masked_dense.Rd | 25 man/tfb_matrix_inverse_tri_l.Rd | 25 man/tfb_matvec_lu.Rd | 25 man/tfb_normal_cdf.Rd | 25 man/tfb_ordered.Rd | 26 man/tfb_pad.Rd |only man/tfb_permute.Rd | 25 man/tfb_power_transform.Rd | 27 man/tfb_rational_quadratic_spline.Rd |only man/tfb_real_nvp.Rd | 23 man/tfb_real_nvp_default_template.Rd | 25 man/tfb_reciprocal.Rd | 23 man/tfb_reshape.Rd | 23 man/tfb_scale.Rd |only man/tfb_scale_matvec_diag.Rd |only man/tfb_scale_matvec_linear_operator.Rd |only man/tfb_scale_matvec_lu.Rd |only man/tfb_scale_matvec_tri_l.Rd |only man/tfb_scale_tri_l.Rd | 24 man/tfb_shift.Rd |only man/tfb_sigmoid.Rd | 25 man/tfb_sinh_arcsinh.Rd | 25 man/tfb_softmax_centered.Rd | 25 man/tfb_softplus.Rd | 25 man/tfb_softsign.Rd | 25 man/tfb_square.Rd | 25 man/tfb_tanh.Rd | 25 man/tfb_transform_diagonal.Rd | 25 man/tfb_transpose.Rd | 24 man/tfb_weibull.Rd | 25 man/tfb_weibull_cdf.Rd |only man/tfd_autoregressive.Rd | 12 man/tfd_batch_reshape.Rd | 12 man/tfd_bernoulli.Rd | 12 man/tfd_beta.Rd | 12 man/tfd_binomial.Rd | 12 man/tfd_blockwise.Rd | 3 man/tfd_categorical.Rd | 12 man/tfd_cauchy.Rd | 12 man/tfd_cdf.Rd | 4 man/tfd_chi.Rd | 12 man/tfd_chi2.Rd | 12 man/tfd_cholesky_lkj.Rd | 12 man/tfd_covariance.Rd | 4 man/tfd_deterministic.Rd | 12 man/tfd_dirichlet.Rd | 12 man/tfd_dirichlet_multinomial.Rd | 12 man/tfd_doublesided_maxwell.Rd |only man/tfd_empirical.Rd | 12 man/tfd_entropy.Rd | 4 man/tfd_exp_relaxed_one_hot_categorical.Rd | 3 man/tfd_exponential.Rd | 12 man/tfd_finite_discrete.Rd |only man/tfd_gamma.Rd | 12 man/tfd_gamma_gamma.Rd | 12 man/tfd_gaussian_process.Rd | 12 man/tfd_gaussian_process_regression_model.Rd | 12 man/tfd_generalized_pareto.Rd |only man/tfd_geometric.Rd | 12 man/tfd_gumbel.Rd | 12 man/tfd_half_cauchy.Rd | 12 man/tfd_half_normal.Rd | 12 man/tfd_hidden_markov_model.Rd | 12 man/tfd_horseshoe.Rd | 12 man/tfd_independent.Rd | 12 man/tfd_inverse_gamma.Rd | 12 man/tfd_inverse_gaussian.Rd | 12 man/tfd_joint_distribution_named.Rd | 12 man/tfd_joint_distribution_sequential.Rd | 14 man/tfd_kumaraswamy.Rd | 12 man/tfd_laplace.Rd | 12 man/tfd_linear_gaussian_state_space_model.Rd | 12 man/tfd_lkj.Rd | 12 man/tfd_log_cdf.Rd | 4 man/tfd_log_normal.Rd | 24 man/tfd_log_prob.Rd | 4 man/tfd_log_survival_function.Rd | 5 man/tfd_logistic.Rd | 12 man/tfd_logit_normal.Rd |only man/tfd_mean.Rd | 4 man/tfd_mixture.Rd | 12 man/tfd_mixture_same_family.Rd | 12 man/tfd_mode.Rd | 4 man/tfd_multinomial.Rd | 12 man/tfd_multivariate_normal_diag.Rd | 12 man/tfd_multivariate_normal_diag_plus_low_rank.Rd | 12 man/tfd_multivariate_normal_full_covariance.Rd | 12 man/tfd_multivariate_normal_linear_operator.Rd | 12 man/tfd_multivariate_normal_tri_l.Rd | 12 man/tfd_multivariate_student_t_linear_operator.Rd | 12 man/tfd_negative_binomial.Rd | 12 man/tfd_normal.Rd | 12 man/tfd_one_hot_categorical.Rd | 11 man/tfd_pareto.Rd | 11 man/tfd_pert.Rd |only man/tfd_pixel_cnn.Rd |only man/tfd_plackett_luce.Rd |only man/tfd_poisson.Rd | 9 man/tfd_poisson_log_normal_quadrature_compound.Rd | 10 man/tfd_prob.Rd | 4 man/tfd_probit_bernoulli.Rd |only man/tfd_quantile.Rd | 4 man/tfd_quantized.Rd | 9 man/tfd_relaxed_bernoulli.Rd | 12 man/tfd_relaxed_one_hot_categorical.Rd | 12 man/tfd_sample.Rd | 7 man/tfd_sample_distribution.Rd | 12 man/tfd_sinh_arcsinh.Rd | 12 man/tfd_stddev.Rd | 4 man/tfd_student_t.Rd | 12 man/tfd_student_t_process.Rd | 12 man/tfd_survival_function.Rd | 4 man/tfd_transformed_distribution.Rd | 12 man/tfd_triangular.Rd | 12 man/tfd_truncated_normal.Rd | 12 man/tfd_uniform.Rd | 12 man/tfd_variance.Rd | 4 man/tfd_variational_gaussian_process.Rd | 12 man/tfd_vector_deterministic.Rd | 3 man/tfd_vector_diffeomixture.Rd | 12 man/tfd_vector_exponential_diag.Rd | 12 man/tfd_vector_exponential_linear_operator.Rd | 12 man/tfd_vector_laplace_diag.Rd | 12 man/tfd_vector_laplace_linear_operator.Rd | 12 man/tfd_vector_sinh_arcsinh_diag.Rd | 12 man/tfd_von_mises.Rd | 8 man/tfd_von_mises_fisher.Rd | 12 man/tfd_wishart.Rd | 10 man/tfd_wishart_linear_operator.Rd |only man/tfd_wishart_tri_l.Rd |only man/tfd_zipf.Rd | 11 tests/testthat/test-bijectors.R | 215 +++++ tests/testthat/test-distribution-layers.R | 60 - tests/testthat/test-distributions.R | 264 ++++++ tests/testthat/test-initializers.R | 2 tests/testthat/test-layers.R | 454 +++++------ tests/testthat/test-mcmc.R | 62 - tests/testthat/test-sts-functions.R | 2 tests/testthat/test-sts.R | 31 tests/testthat/test-vi-optimization.R | 16 202 files changed, 4098 insertions(+), 1130 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE), measurement models are typically multivariate normal factor models.
Using the original ctsem formulation based on OpenMx, described in the JSS paper
"Continuous Time Structural Equation Modeling with R Package ctsem", with updated version
as CRAN vignette <https://cran.r-project.org/package=ctsem/vignettes/ctsem.pdf> ,
linear mixed effects SDE's estimated via maximum likelihood and optimization are possible.
Using the Stan based formulation, described in <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf> ,
nonlinearity (state dependent parameters) and random effects on all parameters
are possible, using either optimization (with optional importance sampling) or
Stan's Hamiltonian Monte Carlo sampling. Priors may be used. For the conceptual
overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>.
Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> .
Stan based functions are not available on 32 bit Windows systems at present.
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <driver@mpib-berlin.mpg.de>
Diff between ctsem versions 3.0.9 dated 2019-12-18 and 3.1.0 dated 2020-01-27
ctsem-3.0.9/ctsem/man/stan_confidenceRegion.Rd |only ctsem-3.1.0/ctsem/DESCRIPTION | 8 ctsem-3.1.0/ctsem/MD5 | 74 +- ctsem-3.1.0/ctsem/NAMESPACE | 2 ctsem-3.1.0/ctsem/NEWS | 9 ctsem-3.1.0/ctsem/R/ctDiscretePars.R | 27 ctsem-3.1.0/ctsem/R/ctKalman.R | 2 ctsem-3.1.0/ctsem/R/ctModelLatex.R | 8 ctsem-3.1.0/ctsem/R/ctStanFit.R | 55 - ctsem-3.1.0/ctsem/R/ctStanGenerate.R | 15 ctsem-3.1.0/ctsem/R/ctStanGenerateFromFit.R | 11 ctsem-3.1.0/ctsem/R/ctStanKalman.R | 36 + ctsem-3.1.0/ctsem/R/ctStanModel.R | 13 ctsem-3.1.0/ctsem/R/ctStanModelWriter.R | 443 ++++++------- ctsem-3.1.0/ctsem/R/ctStanPlotPost.R | 5 ctsem-3.1.0/ctsem/R/ctdataupdate.R | 9 ctsem-3.1.0/ctsem/R/ctsemUtils.R | 5 ctsem-3.1.0/ctsem/R/plot.ctStanFit.R | 4 ctsem-3.1.0/ctsem/R/plot.ctStanModel.R | 2 ctsem-3.1.0/ctsem/R/sgd.R |only ctsem-3.1.0/ctsem/R/stanWplot.R | 4 ctsem-3.1.0/ctsem/R/stan_confidenceRegion.R | 21 ctsem-3.1.0/ctsem/R/stan_postcalc.R | 5 ctsem-3.1.0/ctsem/R/stanoptimis.R | 670 ++++++++------------- ctsem-3.1.0/ctsem/data/ctstantestfit.rda |binary ctsem-3.1.0/ctsem/inst/doc/ctsem.pdf |binary ctsem-3.1.0/ctsem/man/ctStanFit.Rd | 31 ctsem-3.1.0/ctsem/man/ctStanGenerate.Rd | 15 ctsem-3.1.0/ctsem/man/ctStanKalman.Rd | 4 ctsem-3.1.0/ctsem/man/ctStanParnames.Rd | 26 ctsem-3.1.0/ctsem/man/ctStanPlotPost.Rd | 3 ctsem-3.1.0/ctsem/man/plot.ctStanFit.Rd | 4 ctsem-3.1.0/ctsem/man/stan_postcalc.Rd | 4 ctsem-3.1.0/ctsem/man/stanoptimis.Rd | 4 ctsem-3.1.0/ctsem/src/stan_files/ctsm.stan | 388 +++++------- ctsem-3.1.0/ctsem/src/stan_files/ctsmgen.stan | 421 ++++++------- ctsem-3.1.0/ctsem/tests/testthat/test-knownFits.R | 7 ctsem-3.1.0/ctsem/tests/testthat/test-stantipred.R | 4 ctsem-3.1.0/ctsem/tests/testthat/test-ukfpoptest.R | 4 39 files changed, 1085 insertions(+), 1258 deletions(-)
Title: Unbiased Single-Cell Transcriptomic Data Cell Type
Identification
Description: Assignment of cell type labels to single-cell RNA sequencing (scRNA-seq) clusters is often a time-consuming process that involves manual inspection of the cluster marker genes complemented with a detailed literature search. This is especially challenging when unexpected or poorly described populations are present. The clustermole R package provides methods to query thousands of human and mouse cell identity markers sourced from a variety of databases.
Author: Igor Dolgalev [aut, cre]
Maintainer: Igor Dolgalev <igor.dolgalev@nyumc.org>
Diff between clustermole versions 1.0.0 dated 2020-01-20 and 1.0.1 dated 2020-01-27
DESCRIPTION | 15 +- MD5 | 20 +- NEWS.md | 4 R/functions.R | 8 + README.md | 54 ++++--- inst/doc/clustermole-intro.R | 2 inst/doc/clustermole-intro.Rmd | 50 ++++-- inst/doc/clustermole-intro.html | 295 ++++++++++------------------------------ man/clustermole_enrichment.Rd | 3 tests/testthat/test-functions.R | 4 vignettes/clustermole-intro.Rmd | 50 ++++-- 11 files changed, 205 insertions(+), 300 deletions(-)
Title: Finds the Archetypal Analysis of a Data Frame
Description: Performs archetypal analysis by using Principal Convex Hull Analysis (PCHA)
under a full control of all algorithmic parameters.
It contains a set of functions for determining the initial solution, the optimal
algorithmic parameters and the optimal number of archetypes.
Post run tools are also available for the assessment of the derived solution.
Morup, M., Hansen, LK (2012) <doi:10.1016/j.neucom.2011.06.033>.
Hochbaum, DS, Shmoys, DB (1985) <doi:10.1287/moor.10.2.180>.
Eddy, WF (1977) <doi:10.1145/355759.355768>.
Barber, CB, Dobkin, DP, Huhdanpaa, HT (1996) <doi:10.1145/235815.235821>.
Christopoulos, DT (2016) <doi:10.2139/ssrn.3043076>.
Christopoulos, DT (2015) <doi:10.1016/j.jastp.2015.03.009> .
Falk, A. et al. (2018), <doi:10.1093/qje/qjy013> .
Author: Demetris Christopoulos [aut, cre],
David Midgley [ctb],
Sunil Venaik [ctb],
INSEAD Fontainebleau France [fnd, cph]
Maintainer: Demetris Christopoulos <dchristop@econ.uoa.gr>
Diff between archetypal versions 1.0.0 dated 2019-06-13 and 1.1.0 dated 2020-01-27
DESCRIPTION | 30 MD5 | 84 + NAMESPACE | 17 NEWS.md |only R/FurthestSum.R | 2 R/align_archetypes_from_list.R | 22 R/archetypal.R | 48 - R/check_Bmatrix.R | 42 R/dirichlet_sample.R |only R/find_closer_points.R |only R/find_furthestsum_points.R | 39 R/find_optimal_kappas.R | 161 ++- R/find_outmost_convexhull_points.R | 2 R/find_outmost_partitioned_convexhull_points.R | 2 R/find_outmost_points.R | 2 R/find_outmost_projected_convexhull_points.R | 173 ++-- R/find_pcha_optimal_parameters.R |only R/grouped_resample.R |only R/study_AAconvergence.R |only README.md | 16 build/vignette.rds |binary data/AbsoluteTemperature.RData |only data/datalist |only data/gallupGPS6.RData |only data/wd2.RData |binary data/wd25.RData |only data/wd3.RData |binary inst/doc/archetypal.R | 65 - inst/doc/archetypal.Rmd | 43 - inst/doc/archetypal.html | 942 +++++++++++----------- man/AbsoluteTemperature.Rd |only man/FurthestSum.Rd | 13 man/align_archetypes_from_list.Rd | 39 man/archetypal-package.Rd | 75 + man/archetypal.Rd | 65 - man/check_Bmatrix.Rd | 43 - man/dirichlet_sample.Rd |only man/find_closer_points.Rd |only man/find_furthestsum_points.Rd | 18 man/find_optimal_kappas.Rd | 35 man/find_outmost_convexhull_points.Rd | 44 - man/find_outmost_partitioned_convexhull_points.Rd | 26 man/find_outmost_points.Rd | 35 man/find_outmost_projected_convexhull_points.Rd | 66 + man/find_pcha_optimal_parameters.Rd |only man/gallupGPS6.Rd |only man/grouped_resample.Rd |only man/study_AAconvergence.Rd |only man/wd2.Rd | 18 man/wd25.Rd |only man/wd3.Rd | 21 vignettes/archetypal.Rmd | 43 - 52 files changed, 1300 insertions(+), 931 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-10 0.3.0
2018-09-10 0.2.0
2017-11-09 0.1.0
Title: Rank-Based Tests for General Factorial Designs
Description: The rankFD() function calculates the Wald-type statistic (WTS) and the ANOVA-type
statistic (ATS) for nonparametric factorial designs, e.g., for count, ordinal or score data
in a crossed design with an arbitrary number of factors.
Author: Frank Konietschke, Sarah Friedrich, Edgar Brunner, Markus Pauly
Maintainer: Frank Konietschke <frank.konietschke@charite.de>
Diff between rankFD versions 0.0.3 dated 2019-05-10 and 0.0.4 dated 2020-01-27
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/rankFD.R | 9 +++++++-- R/ranktwosamples.R | 16 ++++++++-------- man/rankFD.Rd | 8 ++++++-- 5 files changed, 30 insertions(+), 21 deletions(-)
Title: Multivariate Extreme Value Distributions
Description: Various tools for the analysis of univariate, multivariate and functional extremes. Exact simulation from max-stable processes [Dombry, Engelke and Oesting (2016) <doi:10.1093/biomet/asw008>, R-Pareto processes for various parametric models, including Brown-Resnick (Wadsworth and Tawn, 2014, <doi:10.1093/biomet/ast042>) and Extremal Student (Thibaud and Opitz, 2015, <doi:10.1093/biomet/asv045>). Threshold selection methods, including Wadsworth (2016) <doi:10.1080/00401706.2014.998345>, and Northrop and Coleman (2014) <doi:10.1007/s10687-014-0183-z>. Multivariate extreme diagnostics. Estimation and likelihoods for univariate extremes, e.g., Coles (2001) <doi:10.1007/978-1-4471-3675-0>.
Author: Leo Belzile [aut, cre] (<https://orcid.org/0000-0002-9135-014X>),
Jennifer L. Wadsworth [aut],
Paul J. Northrop [aut],
Scott D. Grimshaw [aut],
Jin Zhang [ctb],
Michael A. Stephens [ctb],
Art B. Owen [ctb],
Raphael Huser [aut]
Maintainer: Leo Belzile <belzilel@gmail.com>
Diff between mev versions 1.13 dated 2019-12-17 and 1.13.1 dated 2020-01-27
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 1 + R/extcoef.R | 2 +- R/profile.R | 2 +- inst/doc/mev-vignette.pdf |binary man/extcoef.Rd | 2 +- man/gpd.tem.Rd | 2 +- src/emplik.cpp | 4 ++-- src/sampling.cpp | 14 +++++++------- 10 files changed, 27 insertions(+), 26 deletions(-)
Title: Indices of Effect Size and Standardized Parameters
Description: Provide utilities to work with indices of effect size and standardized parameters for a wide variety of models (see support list of insight; Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), allowing computation and conversion of indices such as Cohen's d, r, odds, etc.
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Ken Kelley [ctb],
David Stanley [ctb]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between effectsize versions 0.0.1 dated 2019-11-15 and 0.1.1 dated 2020-01-27
effectsize-0.0.1/effectsize/R/convert_tFz_to_rd.R |only effectsize-0.1.1/effectsize/DESCRIPTION | 16 effectsize-0.1.1/effectsize/MD5 | 132 ++--- effectsize-0.1.1/effectsize/NAMESPACE | 21 effectsize-0.1.1/effectsize/NEWS.md | 5 effectsize-0.1.1/effectsize/R/adjust.R | 22 effectsize-0.1.1/effectsize/R/cohens_d.R | 6 effectsize-0.1.1/effectsize/R/convert_posteriors.R | 7 effectsize-0.1.1/effectsize/R/convert_tF_to_pve.R | 41 - effectsize-0.1.1/effectsize/R/convert_tFz_to_d.R |only effectsize-0.1.1/effectsize/R/convert_tFz_to_r.R |only effectsize-0.1.1/effectsize/R/epsilon_squared.R | 86 ++- effectsize-0.1.1/effectsize/R/eta_squared.R | 46 + effectsize-0.1.1/effectsize/R/omega_squared.R | 70 ++ effectsize-0.1.1/effectsize/R/sd_pooled.R | 74 +++ effectsize-0.1.1/effectsize/R/standardize.R | 6 effectsize-0.1.1/effectsize/R/standardize.data.frame.R | 12 effectsize-0.1.1/effectsize/R/standardize.models.R | 45 + effectsize-0.1.1/effectsize/R/standardize_parameters.R | 25 - effectsize-0.1.1/effectsize/build/partial.rdb |binary effectsize-0.1.1/effectsize/build/vignette.rds |binary effectsize-0.1.1/effectsize/inst/CITATION | 4 effectsize-0.1.1/effectsize/inst/doc/bayesian_models.R | 49 +- effectsize-0.1.1/effectsize/inst/doc/bayesian_models.Rmd | 38 - effectsize-0.1.1/effectsize/inst/doc/bayesian_models.html | 35 - effectsize-0.1.1/effectsize/inst/doc/convert.R | 4 effectsize-0.1.1/effectsize/inst/doc/interpret.R | 2 effectsize-0.1.1/effectsize/inst/doc/standardize_data.R | 2 effectsize-0.1.1/effectsize/inst/doc/standardize_parameters.R | 46 + effectsize-0.1.1/effectsize/inst/doc/standardize_parameters.Rmd | 29 - effectsize-0.1.1/effectsize/inst/doc/standardize_parameters.html | 23 effectsize-0.1.1/effectsize/man/F_to_eta2.Rd | 187 +++---- effectsize-0.1.1/effectsize/man/adjust.Rd | 89 ++- effectsize-0.1.1/effectsize/man/change_scale.Rd | 111 ++-- effectsize-0.1.1/effectsize/man/chisq_to_phi.Rd | 132 ++--- effectsize-0.1.1/effectsize/man/cohens_d.Rd | 106 ++-- effectsize-0.1.1/effectsize/man/convert_posteriors_to_r.Rd | 65 +- effectsize-0.1.1/effectsize/man/convert_z_to_percentile.Rd | 56 +- effectsize-0.1.1/effectsize/man/d_to_r.Rd | 239 ++++------ effectsize-0.1.1/effectsize/man/dot-factor_to_numeric.Rd | 22 effectsize-0.1.1/effectsize/man/eta_squared.Rd | 184 +++---- effectsize-0.1.1/effectsize/man/format_standardize.Rd | 61 +- effectsize-0.1.1/effectsize/man/interpret.Rd | 58 +- effectsize-0.1.1/effectsize/man/interpret_bf.Rd | 58 +- effectsize-0.1.1/effectsize/man/interpret_d.Rd | 70 +- effectsize-0.1.1/effectsize/man/interpret_direction.Rd | 36 - effectsize-0.1.1/effectsize/man/interpret_ess.Rd | 110 ++-- effectsize-0.1.1/effectsize/man/interpret_gfi.Rd | 172 +++---- effectsize-0.1.1/effectsize/man/interpret_odds.Rd | 58 +- effectsize-0.1.1/effectsize/man/interpret_omega_squared.Rd | 56 +- effectsize-0.1.1/effectsize/man/interpret_p.Rd | 38 - effectsize-0.1.1/effectsize/man/interpret_parameters.Rd | 71 +- effectsize-0.1.1/effectsize/man/interpret_r.Rd | 62 +- effectsize-0.1.1/effectsize/man/interpret_r2.Rd | 56 +- effectsize-0.1.1/effectsize/man/normalize.Rd | 109 ++-- effectsize-0.1.1/effectsize/man/ranktransform.Rd | 111 ++-- effectsize-0.1.1/effectsize/man/rules.Rd | 58 +- effectsize-0.1.1/effectsize/man/sd_pooled.Rd | 48 +- effectsize-0.1.1/effectsize/man/standardize.Rd | 146 +++--- effectsize-0.1.1/effectsize/man/standardize_info.Rd | 48 +- effectsize-0.1.1/effectsize/man/standardize_parameters.Rd | 224 ++++----- effectsize-0.1.1/effectsize/man/t_to_r.Rd | 237 +++++---- effectsize-0.1.1/effectsize/tests/testthat/test-convert.R | 94 +-- effectsize-0.1.1/effectsize/tests/testthat/test-datatransform.R | 86 +-- effectsize-0.1.1/effectsize/tests/testthat/test-interpret.R | 230 ++++----- effectsize-0.1.1/effectsize/tests/testthat/test-standardize.R | 46 - effectsize-0.1.1/effectsize/tests/testthat/test_standardized_differences.R |only effectsize-0.1.1/effectsize/vignettes/bayesian_models.Rmd | 38 - effectsize-0.1.1/effectsize/vignettes/standardize_parameters.Rmd | 29 - 69 files changed, 2381 insertions(+), 2066 deletions(-)
Title: Generic Reproducible Parallel Backend for 'foreach' Loops
Description: Provides functions to perform
reproducible parallel foreach loops, using independent
random streams as generated by L'Ecuyer's combined
multiple-recursive generator [L'Ecuyer (1999), <DOI:10.1287/opre.47.1.159>].
It enables to easily convert standard %dopar% loops into
fully reproducible loops, independently of the number
of workers, the task scheduling strategy, or the chosen
parallel environment and associated foreach backend.
Author: Renaud Gaujoux [aut, cre]
Maintainer: Renaud Gaujoux <renozao@protonmail.com>
Diff between doRNG versions 1.7.1 dated 2018-06-22 and 1.8.2 dated 2020-01-27
DESCRIPTION | 16 MD5 | 29 - NAMESPACE | 1 NEWS | 17 R/doRNG-package.R | 2 R/doRNG.R | 1105 ++++++++++++++++++++++---------------------- R/utils.R |only build/vignette.rds |binary inst/doc/doRNG.R | 4 inst/doc/doRNG.pdf |binary man/doRNG-package.Rd | 9 man/doRNGversion.Rd | 12 man/grapes-dorng-grapes.Rd | 16 man/infoDoRNG.Rd | 4 man/registerDoRNG.Rd | 4 tests/testthat/test-dorng.r | 145 +++++ 16 files changed, 778 insertions(+), 586 deletions(-)
Title: Convert Statistical Analysis Objects into Tidy Tibbles
Description: Summarizes key information about statistical
objects in tidy tibbles. This makes it easy to report results, create
plots and consistently work with large numbers of models at once.
Broom provides three verbs that each provide different types of
information about a model. tidy() summarizes information about model
components such as coefficients of a regression. glance() reports
information about an entire model, such as goodness of fit measures
like AIC and BIC. augment() adds information about individual
observations to a dataset, such as fitted values or influence
measures.
Author: David Robinson [aut],
Alex Hayes [aut, cre] (<https://orcid.org/0000-0002-4985-5160>),
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
Ben Bolker [ctb],
Francois Briatte [ctb],
Jeffrey Arnold [ctb],
Jonah Gabry [ctb],
Luciano Selzer [ctb],
Gavin Simpson [ctb],
Jens Preussner [ctb],
Jay Hesselberth [ctb],
Hadley Wickham [ctb],
Matthew Lincoln [ctb],
Alessandro Gasparini [ctb],
Lukasz Komsta [ctb],
Frederick Novometsky [ctb],
Wilson Freitas [ctb],
Michelle Evans [ctb],
Jason Cory Brunson [ctb],
Simon Jackson [ctb],
Ben Whalley [ctb],
Michael Kuehn [ctb],
Jorge Cimentada [ctb],
Erle Holgersen [ctb],
Karl Dunkle Werner [ctb]
Maintainer: Alex Hayes <alexpghayes@gmail.com>
Diff between broom versions 0.5.3 dated 2019-12-14 and 0.5.4 dated 2020-01-27
broom-0.5.3/broom/R/joinerml-tidiers.R |only broom-0.5.3/broom/man/augment.mjoint.Rd |only broom-0.5.3/broom/man/glance.mjoint.Rd |only broom-0.5.3/broom/man/tidy.mjoint.Rd |only broom-0.5.3/broom/tests/testthat/test-joineRML.R |only broom-0.5.4/broom/DESCRIPTION | 19 ++-- broom-0.5.4/broom/MD5 | 25 ++---- broom-0.5.4/broom/NAMESPACE | 3 broom-0.5.4/broom/NEWS.md | 4 + broom-0.5.4/broom/inst/doc/adding-tidiers.html | 4 - broom-0.5.4/broom/inst/doc/available-methods.html | 88 ++++++++++------------ broom-0.5.4/broom/inst/doc/bootstrapping.html | 4 - broom-0.5.4/broom/inst/doc/broom.html | 4 - broom-0.5.4/broom/inst/doc/broom_and_dplyr.html | 4 - broom-0.5.4/broom/inst/doc/glossary.html | 4 - broom-0.5.4/broom/inst/doc/kmeans.html | 4 - 16 files changed, 76 insertions(+), 87 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior distributions and Bayesian models. It includes point-estimates such as Maximum A Posteriori (MAP), measures of dispersion (Highest Density Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and indices used for null-hypothesis testing (such as ROPE percentage, pd and Bayes factors).
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Michael D. Wilson [aut] (<https://orcid.org/0000-0003-4143-7308>),
Paul-Christian Bürkner [rev],
Tristan Mahr [rev] (<https://orcid.org/0000-0002-8890-5116>),
Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>),
Quentin F. Gronau [ctb] (<https://orcid.org/0000-0001-5510-6943>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between bayestestR versions 0.5.0 dated 2020-01-18 and 0.5.1 dated 2020-01-27
DESCRIPTION | 6 MD5 | 188 +++++++-------- R/bayesfactor.R | 7 R/bayesfactor_models.R | 98 ++++---- R/check_prior.R | 29 +- R/ci.R | 43 +-- R/describe_posterior.R | 4 R/diagnostic_posterior.R | 3 R/effective_sample.R | 2 R/estimate_density.R | 4 R/eti.R | 4 R/hdi.R | 3 R/map_estimate.R | 3 R/mcse.R | 2 R/mhdior.R | 35 +- R/p_direction.R | 41 +-- R/p_map.R | 3 R/p_significance.R | 15 - R/rope.R | 3 R/rope_range.R | 32 +- R/sensitivity_to_prior.R | 19 - R/simulate_priors.R | 10 R/update.bayesfactor_models.R | 2 build/partial.rdb |binary inst/doc/bayes_factors.R | 48 ++-- inst/doc/bayes_factors.Rmd | 60 +++-- inst/doc/bayes_factors.html | 17 + inst/doc/bayestestR.R | 6 inst/doc/bayestestR.Rmd | 6 inst/doc/bayestestR.html | 11 inst/doc/credible_interval.R | 6 inst/doc/credible_interval.Rmd | 6 inst/doc/example1.R | 47 ++- inst/doc/example1.Rmd | 53 ++-- inst/doc/example1.html | 19 + inst/doc/example2.R | 19 + inst/doc/example2.Rmd | 19 + inst/doc/example2.html | 11 inst/doc/example3.html | 11 inst/doc/guidelines.html | 11 inst/doc/indicesEstimationComparison.R | 7 inst/doc/indicesEstimationComparison.Rmd | 7 inst/doc/probability_of_direction.R | 12 + inst/doc/probability_of_direction.Rmd | 12 + inst/doc/probability_of_direction.html | 11 inst/doc/region_of_practical_equivalence.R | 5 inst/doc/region_of_practical_equivalence.Rmd | 5 man/bayesfactor.Rd | 9 man/bayesfactor_models.Rd | 96 ++++---- man/check_prior.Rd | 31 +- man/ci.Rd | 45 ++- man/describe_posterior.Rd | 6 man/diagnostic_posterior.Rd | 5 man/effective_sample.Rd | 4 man/estimate_density.Rd | 6 man/eti.Rd | 6 man/hdi.Rd | 5 man/map_estimate.Rd | 5 man/mcse.Rd | 4 man/mhdior.Rd | 35 +- man/p_direction.Rd | 43 ++- man/p_map.Rd | 5 man/p_significance.Rd | 15 - man/rope.Rd | 5 man/rope_range.Rd | 34 +- man/sensitivity_to_prior.Rd | 21 - man/simulate_prior.Rd | 10 man/update.bayesfactor_models.Rd | 2 tests/testthat/test-BFBayesFactor.R | 150 ++++++------ tests/testthat/test-bayesfactor_models.R | 195 ++++++++-------- tests/testthat/test-bayesfactor_parameters.R | 163 +++++++------ tests/testthat/test-bayesfactor_restricted.R | 100 ++++---- tests/testthat/test-brms.R | 50 ++-- tests/testthat/test-ci.R | 82 +++--- tests/testthat/test-describe_posterior.R | 209 ++++++++--------- tests/testthat/test-emmGrid.R | 311 +++++++++++++------------- tests/testthat/test-estimate_density.R | 36 +-- tests/testthat/test-hdi.R | 78 +++--- tests/testthat/test-map_estimate.R | 58 ++-- tests/testthat/test-p_direction.R | 68 ++--- tests/testthat/test-p_map.R | 58 ++-- tests/testthat/test-p_significance.R | 40 +-- tests/testthat/test-point_estimate.R | 44 +-- tests/testthat/test-rope.R | 92 +++---- tests/testthat/test-rstanarm.R | 68 ++--- tests/testthat/test-si.R | 74 +++--- tests/testthat/test-weighted_posteriors.R | 70 +++-- vignettes/bayes_factors.Rmd | 60 +++-- vignettes/bayestestR.Rmd | 6 vignettes/credible_interval.Rmd | 6 vignettes/example1.Rmd | 53 ++-- vignettes/example2.Rmd | 19 + vignettes/indicesEstimationComparison.Rmd | 7 vignettes/probability_of_direction.Rmd | 12 + vignettes/region_of_practical_equivalence.Rmd | 5 95 files changed, 1924 insertions(+), 1547 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>
Diff between AzureRMR versions 2.3.0 dated 2019-10-31 and 2.3.1 dated 2020-01-27
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NAMESPACE | 1 + NEWS.md | 5 +++++ R/AzureRMR.R | 4 ++-- R/call_azure_rm.R | 2 +- R/utils.R | 34 +++++++++++++++++++++------------- inst/doc/extend.R | 14 +++++++------- man/utils.Rd | 12 ++++++++++++ 9 files changed, 60 insertions(+), 34 deletions(-)