Title: Split Plot
Description: Automates common plotting tasks to ease data exploration.
Makes density plots (potentially overlaid on histograms),
scatter plots with prediction lines, or bar or line plots with error bars.
For each type, y, or x and y variables can be plotted at levels of other variables,
all with minimal specification.
Author: Micah Iserman
Maintainer: Micah Iserman <micah.iserman@ttu.edu>
Diff between splot versions 0.3.1 dated 2017-10-03 and 0.3.2 dated 2018-02-24
DESCRIPTION | 6 - MD5 | 10 +- NAMESPACE | 1 R/splot.R | 236 +++++++++++++++++++++++++++++++++++++---------------------- inst/NEWS.Rd | 31 +++++++ man/splot.Rd | 133 +++++++++++++++++---------------- 6 files changed, 259 insertions(+), 158 deletions(-)
Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are otherwise
performed manually. This includes setting up unit testing, test
coverage, continuous integration, Git, 'GitHub', licenses, 'Rcpp', 'RStudio'
projects, and more.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut] (<https://orcid.org/0000-0002-6983-2759>),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between usethis versions 1.2.0 dated 2018-01-19 and 1.3.0 dated 2018-02-24
usethis-1.2.0/usethis/R/dev-version.R |only usethis-1.2.0/usethis/R/styler.R |only usethis-1.2.0/usethis/inst/templates/ISSUE_TEMPLATE.md |only usethis-1.2.0/usethis/inst/templates/SUPPORT.md |only usethis-1.2.0/usethis/inst/templates/tidy_contributing.md |only usethis-1.2.0/usethis/man/use_badge.Rd |only usethis-1.2.0/usethis/man/use_cran_badge.Rd |only usethis-1.2.0/usethis/man/use_depsy_badge.Rd |only usethis-1.2.0/usethis/man/use_dev_version.Rd |only usethis-1.2.0/usethis/man/use_lifecycle_badge.Rd |only usethis-1.2.0/usethis/man/use_tidy_style.Rd |only usethis-1.2.0/usethis/tests/testthat/test-use-dev-version.R |only usethis-1.3.0/usethis/DESCRIPTION | 18 usethis-1.3.0/usethis/MD5 | 313 +- usethis-1.3.0/usethis/NAMESPACE | 154 - usethis-1.3.0/usethis/NEWS.md | 370 +-- usethis-1.3.0/usethis/R/badge.R | 277 +- usethis-1.3.0/usethis/R/browse.R | 230 - usethis-1.3.0/usethis/R/ci.R | 360 +-- usethis-1.3.0/usethis/R/code-of-conduct.R | 42 usethis-1.3.0/usethis/R/course.R | 768 +++--- usethis-1.3.0/usethis/R/cran.R | 44 usethis-1.3.0/usethis/R/create.R | 493 ++-- usethis-1.3.0/usethis/R/data.R | 224 - usethis-1.3.0/usethis/R/description.R | 163 - usethis-1.3.0/usethis/R/documentation.R | 50 usethis-1.3.0/usethis/R/edit.R | 210 + usethis-1.3.0/usethis/R/git-utils.R | 28 usethis-1.3.0/usethis/R/git.R | 242 +- usethis-1.3.0/usethis/R/github-labels.R | 223 + usethis-1.3.0/usethis/R/github.R | 447 ++- usethis-1.3.0/usethis/R/helpers.R | 512 ++-- usethis-1.3.0/usethis/R/ignore.R | 50 usethis-1.3.0/usethis/R/license.R | 228 - usethis-1.3.0/usethis/R/namespace.R | 20 usethis-1.3.0/usethis/R/news.R | 60 usethis-1.3.0/usethis/R/package.R | 156 - usethis-1.3.0/usethis/R/pipe.R | 38 usethis-1.3.0/usethis/R/pkgdown.R | 28 usethis-1.3.0/usethis/R/proj.R | 208 - usethis-1.3.0/usethis/R/r.R | 104 usethis-1.3.0/usethis/R/rcpp.R | 60 usethis-1.3.0/usethis/R/readme.R | 108 usethis-1.3.0/usethis/R/revdep.R | 54 usethis-1.3.0/usethis/R/rmarkdown.R | 98 usethis-1.3.0/usethis/R/roxygen.R | 102 usethis-1.3.0/usethis/R/rstudio.R | 319 +- usethis-1.3.0/usethis/R/style.R | 88 usethis-1.3.0/usethis/R/test.R | 162 - usethis-1.3.0/usethis/R/tidyverse.R | 405 +-- usethis-1.3.0/usethis/R/use_this.R | 30 usethis-1.3.0/usethis/R/usethis-package.R | 16 usethis-1.3.0/usethis/R/utils.R | 200 - usethis-1.3.0/usethis/R/version.R |only usethis-1.3.0/usethis/R/vignette.R | 80 usethis-1.3.0/usethis/R/write.R | 122 - usethis-1.3.0/usethis/README.md | 253 +- usethis-1.3.0/usethis/inst/templates/CODE_OF_CONDUCT.md | 50 usethis-1.3.0/usethis/inst/templates/NAMESPACE | 4 usethis-1.3.0/usethis/inst/templates/NEWS.md | 6 usethis-1.3.0/usethis/inst/templates/appveyor.yml | 90 usethis-1.3.0/usethis/inst/templates/codecov.yml | 24 usethis-1.3.0/usethis/inst/templates/cran-comments.md | 20 usethis-1.3.0/usethis/inst/templates/license-GPL-3.md | 1190 +++++----- usethis-1.3.0/usethis/inst/templates/license-apache-2.0.md | 388 +-- usethis-1.3.0/usethis/inst/templates/license-cc0.md | 86 usethis-1.3.0/usethis/inst/templates/license-mit.md | 42 usethis-1.3.0/usethis/inst/templates/license-mit.txt | 4 usethis-1.3.0/usethis/inst/templates/package-README | 132 - usethis-1.3.0/usethis/inst/templates/packagename-package.R | 4 usethis-1.3.0/usethis/inst/templates/pipe.R | 22 usethis-1.3.0/usethis/inst/templates/project-README | 72 usethis-1.3.0/usethis/inst/templates/readme-rmd-pre-commit.sh | 30 usethis-1.3.0/usethis/inst/templates/revdep-email.yml | 8 usethis-1.3.0/usethis/inst/templates/rmarkdown-template.Rmd | 36 usethis-1.3.0/usethis/inst/templates/rmarkdown-template.yml | 8 usethis-1.3.0/usethis/inst/templates/template.Rproj | 32 usethis-1.3.0/usethis/inst/templates/test-example.R | 10 usethis-1.3.0/usethis/inst/templates/testthat.R | 8 usethis-1.3.0/usethis/inst/templates/tidy-contributing.md |only usethis-1.3.0/usethis/inst/templates/tidy-eval.R | 30 usethis-1.3.0/usethis/inst/templates/tidy-issue.md |only usethis-1.3.0/usethis/inst/templates/tidy-support.md |only usethis-1.3.0/usethis/inst/templates/tidy-travis.yml | 30 usethis-1.3.0/usethis/inst/templates/travis.yml | 10 usethis-1.3.0/usethis/man/badges.Rd |only usethis-1.3.0/usethis/man/browse-this.Rd | 106 usethis-1.3.0/usethis/man/browse_github_pat.Rd |only usethis-1.3.0/usethis/man/ci.Rd | 99 usethis-1.3.0/usethis/man/create_from_github.Rd | 107 usethis-1.3.0/usethis/man/create_package.Rd | 80 usethis-1.3.0/usethis/man/edit.Rd | 85 usethis-1.3.0/usethis/man/licenses.Rd | 84 usethis-1.3.0/usethis/man/proj_get.Rd | 72 usethis-1.3.0/usethis/man/tidyverse.Rd | 143 - usethis-1.3.0/usethis/man/use_blank_slate.Rd | 50 usethis-1.3.0/usethis/man/use_build_ignore.Rd | 42 usethis-1.3.0/usethis/man/use_code_of_conduct.Rd | 30 usethis-1.3.0/usethis/man/use_course.Rd | 116 usethis-1.3.0/usethis/man/use_course_details.Rd | 247 +- usethis-1.3.0/usethis/man/use_cran_comments.Rd | 40 usethis-1.3.0/usethis/man/use_data.Rd | 88 usethis-1.3.0/usethis/man/use_description.Rd | 50 usethis-1.3.0/usethis/man/use_directory.Rd | 46 usethis-1.3.0/usethis/man/use_git.Rd | 47 usethis-1.3.0/usethis/man/use_git_config.Rd |only usethis-1.3.0/usethis/man/use_git_hook.Rd | 49 usethis-1.3.0/usethis/man/use_git_ignore.Rd | 41 usethis-1.3.0/usethis/man/use_github.Rd | 153 - usethis-1.3.0/usethis/man/use_github_labels.Rd | 90 usethis-1.3.0/usethis/man/use_namespace.Rd | 24 usethis-1.3.0/usethis/man/use_news_md.Rd | 30 usethis-1.3.0/usethis/man/use_package.Rd | 58 usethis-1.3.0/usethis/man/use_package_doc.Rd | 42 usethis-1.3.0/usethis/man/use_pipe.Rd | 32 usethis-1.3.0/usethis/man/use_pkgdown.Rd | 26 usethis-1.3.0/usethis/man/use_r.Rd | 38 usethis-1.3.0/usethis/man/use_rcpp.Rd | 22 usethis-1.3.0/usethis/man/use_readme_rmd.Rd | 66 usethis-1.3.0/usethis/man/use_revdep.Rd | 38 usethis-1.3.0/usethis/man/use_rmarkdown_template.Rd | 72 usethis-1.3.0/usethis/man/use_roxygen_md.Rd | 28 usethis-1.3.0/usethis/man/use_rstudio.Rd | 33 usethis-1.3.0/usethis/man/use_template.Rd | 104 usethis-1.3.0/usethis/man/use_testthat.Rd | 48 usethis-1.3.0/usethis/man/use_usethis.Rd | 22 usethis-1.3.0/usethis/man/use_version.Rd |only usethis-1.3.0/usethis/man/use_vignette.Rd | 54 usethis-1.3.0/usethis/man/usethis-package.Rd | 72 usethis-1.3.0/usethis/tests/testthat.R | 8 usethis-1.3.0/usethis/tests/testthat/helper.R | 154 - usethis-1.3.0/usethis/tests/testthat/ref/README.Rmd | 256 +- usethis-1.3.0/usethis/tests/testthat/ref/README.md | 328 +- usethis-1.3.0/usethis/tests/testthat/ref/foo/file.txt | 2 usethis-1.3.0/usethis/tests/testthat/ref/yo/subdir1/file1.txt | 2 usethis-1.3.0/usethis/tests/testthat/ref/yo/subdir2/file2.txt | 2 usethis-1.3.0/usethis/tests/testthat/test-browse.R | 104 usethis-1.3.0/usethis/tests/testthat/test-create.R | 126 - usethis-1.3.0/usethis/tests/testthat/test-edit.R | 188 - usethis-1.3.0/usethis/tests/testthat/test-helpers.R | 84 usethis-1.3.0/usethis/tests/testthat/test-proj.R | 68 usethis-1.3.0/usethis/tests/testthat/test-use-badge.R | 51 usethis-1.3.0/usethis/tests/testthat/test-use-build-ignore.R | 18 usethis-1.3.0/usethis/tests/testthat/test-use-code-of-conduct.R | 14 usethis-1.3.0/usethis/tests/testthat/test-use-course.R | 406 +-- usethis-1.3.0/usethis/tests/testthat/test-use-cran-comments.R | 26 usethis-1.3.0/usethis/tests/testthat/test-use-data.R | 126 - usethis-1.3.0/usethis/tests/testthat/test-use-dependency.R | 88 usethis-1.3.0/usethis/tests/testthat/test-use-git.R | 58 usethis-1.3.0/usethis/tests/testthat/test-use-license.R | 126 - usethis-1.3.0/usethis/tests/testthat/test-use-package-doc.R | 28 usethis-1.3.0/usethis/tests/testthat/test-use-pipe.R | 34 usethis-1.3.0/usethis/tests/testthat/test-use-pkgdown.R | 30 usethis-1.3.0/usethis/tests/testthat/test-use-r.R | 14 usethis-1.3.0/usethis/tests/testthat/test-use-rcpp.R | 32 usethis-1.3.0/usethis/tests/testthat/test-use-readme.R | 44 usethis-1.3.0/usethis/tests/testthat/test-use-revdep.R | 28 usethis-1.3.0/usethis/tests/testthat/test-use-rmarkdown.R | 74 usethis-1.3.0/usethis/tests/testthat/test-use-roxygen.R | 60 usethis-1.3.0/usethis/tests/testthat/test-use-rstudio.R | 150 - usethis-1.3.0/usethis/tests/testthat/test-use-template.R | 46 usethis-1.3.0/usethis/tests/testthat/test-use-testthat.R | 32 usethis-1.3.0/usethis/tests/testthat/test-use-tidy-style.R | 52 usethis-1.3.0/usethis/tests/testthat/test-use-tidy.R | 123 - usethis-1.3.0/usethis/tests/testthat/test-use-version.R |only usethis-1.3.0/usethis/tests/testthat/test-utils.R | 12 usethis-1.3.0/usethis/tests/testthat/test-vignette.R | 58 usethis-1.3.0/usethis/tests/testthat/test-write.R | 18 168 files changed, 8564 insertions(+), 7673 deletions(-)
Title: Stability Analysis of Genotype by Environment Interaction (GEI)
Description: Functionalities to perform Stability Analysis of Genotype by Environment Interaction (GEI) to identify superior and stable genotypes under diverse environments. It performs Eberhart & Russel's ANOVA (1966) (<doi:10.2135/cropsci1966.0011183X000600010011x>), Finlay and Wilkinson (1963) Joint Linear Regression (<doi:10.1071/AR9630742>), Wricke (1962, 1964) Ecovalence, Shukla's stability variance parameter (1972) (<doi:10.1038/hdy.1972.87>) and Kang's (1991) (<doi:10.2134/agronj1991.00021962008300010037x>) simultaneous selection for high yielding and stable parameter.
Author: Muhammad Yaseen [aut, cre],
Kent M. Eskridge [aut, ctb]
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
Diff between stability versions 0.1.0 dated 2018-02-12 and 0.2.0 dated 2018-02-24
stability-0.1.0/stability/R/Eberhart_Russel_anova.R |only stability-0.1.0/stability/man/Eberhart_Russel_anova.Rd |only stability-0.1.0/stability/tests |only stability-0.2.0/stability/DESCRIPTION | 9 stability-0.2.0/stability/MD5 | 41 ++- stability-0.2.0/stability/NAMESPACE | 27 ++ stability-0.2.0/stability/NEWS.md | 9 stability-0.2.0/stability/R/add_anova.R | 54 +++- stability-0.2.0/stability/R/ammi.R |only stability-0.2.0/stability/R/ammi_biplot.R |only stability-0.2.0/stability/R/er_anova.R |only stability-0.2.0/stability/R/ge_effects.R | 65 ++++- stability-0.2.0/stability/R/ge_means.R | 92 ++++---- stability-0.2.0/stability/R/gge_biplot.R |only stability-0.2.0/stability/R/stab_measures.R | 194 ++++++++++++----- stability-0.2.0/stability/R/stab_par.R | 178 ++++++++++----- stability-0.2.0/stability/R/stab_reg.R | 111 +++++++-- stability-0.2.0/stability/man/add_anova.Rd | 27 +- stability-0.2.0/stability/man/ammi.Rd |only stability-0.2.0/stability/man/ammi_biplot.Rd |only stability-0.2.0/stability/man/er_anova.Rd |only stability-0.2.0/stability/man/ge_effects.Rd | 25 +- stability-0.2.0/stability/man/ge_means.Rd | 27 +- stability-0.2.0/stability/man/gge_biplot.Rd |only stability-0.2.0/stability/man/stab_measures.Rd | 22 + stability-0.2.0/stability/man/stab_par.Rd | 36 +-- stability-0.2.0/stability/man/stab_reg.Rd | 25 +- 27 files changed, 652 insertions(+), 290 deletions(-)
Title: Supervised, Unsupervised, Semi-Supervised Classification with
MIXture MODelling (Interface of MIXMOD Software)
Description: Interface of MIXMOD software for supervised, unsupervised and semi-
Supervised classification with MIXture MODelling.
Author: Florent Langrognet [aut],
Remi Lebret [aut],
Christian Poli [aut],
Serge Iovleff [aut],
Benjamin Auder [aut, cre],
C. Biernacki [ctb],
G. Celeux [ctb],
G. Govaert [ctb]
Maintainer: Benjamin Auder <benjamin.auder@u-psud.fr>
Diff between Rmixmod versions 2.1.1 dated 2016-08-25 and 2.1.2 dated 2018-02-24
Rmixmod-2.1.1/Rmixmod/NEWS |only Rmixmod-2.1.1/Rmixmod/README |only Rmixmod-2.1.1/Rmixmod/configure.ac |only Rmixmod-2.1.1/Rmixmod/inst/XML_specs/label_or_partition_group.xsd |only Rmixmod-2.1.1/Rmixmod/inst/XML_specs/new |only Rmixmod-2.1.1/Rmixmod/inst/XML_specs/old_project.xsd |only Rmixmod-2.1.1/Rmixmod/src/Makevars.UNIX |only Rmixmod-2.1.1/Rmixmod/src/Makevars.static |only Rmixmod-2.1.1/Rmixmod/src/NEWMAT |only Rmixmod-2.1.1/Rmixmod/src/get_symbolic_link.sh |only Rmixmod-2.1.1/Rmixmod/src/mixmod/Utilities/maths/NEWMAT.h |only Rmixmod-2.1.1/Rmixmod/tests/Rplots.pdf |only Rmixmod-2.1.2/Rmixmod/DESCRIPTION | 51 - Rmixmod-2.1.2/Rmixmod/MD5 | 326 +++----- Rmixmod-2.1.2/Rmixmod/NAMESPACE | 28 Rmixmod-2.1.2/Rmixmod/R/A_NAMESPACE.R |only Rmixmod-2.1.2/Rmixmod/R/CompositeModel.R | 2 Rmixmod-2.1.2/Rmixmod/R/CompositeParameter.R | 2 Rmixmod-2.1.2/Rmixmod/R/GaussianModel.R | 2 Rmixmod-2.1.2/Rmixmod/R/GaussianParameter.R | 2 Rmixmod-2.1.2/Rmixmod/R/Mixmod.R | 145 ++- Rmixmod-2.1.2/Rmixmod/R/MixmodCluster.R | 16 Rmixmod-2.1.2/Rmixmod/R/MixmodLearn.R | 38 Rmixmod-2.1.2/Rmixmod/R/MixmodPredict.R | 117 +-- Rmixmod-2.1.2/Rmixmod/R/MixmodResults.R | 37 Rmixmod-2.1.2/Rmixmod/R/MixmodXml.R |only Rmixmod-2.1.2/Rmixmod/R/MultinomialModel.R | 2 Rmixmod-2.1.2/Rmixmod/R/MultinomialParameter.R | 1 Rmixmod-2.1.2/Rmixmod/R/Rmixmod.R | 39 - Rmixmod-2.1.2/Rmixmod/R/Strategy.R | 21 Rmixmod-2.1.2/Rmixmod/R/global.R | 57 + Rmixmod-2.1.2/Rmixmod/R/zzz.R | 5 Rmixmod-2.1.2/Rmixmod/configure | 24 Rmixmod-2.1.2/Rmixmod/inst/XML_specs/data.xsd | 34 Rmixmod-2.1.2/Rmixmod/inst/XML_specs/label_or_partition.xsd | 46 - Rmixmod-2.1.2/Rmixmod/inst/XML_specs/parameter.xsd | 36 Rmixmod-2.1.2/Rmixmod/inst/XML_specs/project.xsd | 197 ++--- Rmixmod-2.1.2/Rmixmod/inst/XML_specs/weights.xsd | 22 Rmixmod-2.1.2/Rmixmod/man/CompositeModel-class.Rd | 15 Rmixmod-2.1.2/Rmixmod/man/CompositeParameter-class.Rd | 18 Rmixmod-2.1.2/Rmixmod/man/GaussianModel-class.Rd | 14 Rmixmod-2.1.2/Rmixmod/man/GaussianParameter-class.Rd | 17 Rmixmod-2.1.2/Rmixmod/man/Mixmod-class.Rd | 41 - Rmixmod-2.1.2/Rmixmod/man/MixmodCluster-class.Rd | 18 Rmixmod-2.1.2/Rmixmod/man/MixmodDAResults-class.Rd | 23 Rmixmod-2.1.2/Rmixmod/man/MixmodLearn-class.Rd | 18 Rmixmod-2.1.2/Rmixmod/man/MixmodPredict-class.Rd | 24 Rmixmod-2.1.2/Rmixmod/man/MixmodResults-class.Rd | 30 Rmixmod-2.1.2/Rmixmod/man/MixmodXmlCheck-class.Rd |only Rmixmod-2.1.2/Rmixmod/man/MixmodXmlInput-class.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/Model-class.Rd | 18 Rmixmod-2.1.2/Rmixmod/man/MultinomialModel-class.Rd | 15 Rmixmod-2.1.2/Rmixmod/man/MultinomialParameter-class.Rd | 20 Rmixmod-2.1.2/Rmixmod/man/Parameter-class.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/Rmixmod-package.Rd | 111 -- Rmixmod-2.1.2/Rmixmod/man/Strategy-class.Rd | 49 - Rmixmod-2.1.2/Rmixmod/man/asQualitative.Rd | 11 Rmixmod-2.1.2/Rmixmod/man/barplot-methods.Rd | 25 Rmixmod-2.1.2/Rmixmod/man/barplotCluster.Rd | 36 Rmixmod-2.1.2/Rmixmod/man/birds.Rd | 14 Rmixmod-2.1.2/Rmixmod/man/car.Rd | 14 Rmixmod-2.1.2/Rmixmod/man/clusteringMain.Rd |only Rmixmod-2.1.2/Rmixmod/man/composeModelName.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/ellipse.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/extract-methods.Rd | 61 + Rmixmod-2.1.2/Rmixmod/man/finance.Rd | 26 Rmixmod-2.1.2/Rmixmod/man/geyser.Rd | 31 Rmixmod-2.1.2/Rmixmod/man/heterodata.Rd | 12 Rmixmod-2.1.2/Rmixmod/man/heterodatatest.Rd | 9 Rmixmod-2.1.2/Rmixmod/man/heterodatatrain.Rd | 9 Rmixmod-2.1.2/Rmixmod/man/hist-methods.Rd | 27 Rmixmod-2.1.2/Rmixmod/man/histCluster.Rd | 40 - Rmixmod-2.1.2/Rmixmod/man/initialize-methods.Rd | 86 +- Rmixmod-2.1.2/Rmixmod/man/is.dataType.Rd | 11 Rmixmod-2.1.2/Rmixmod/man/is.wholenumber.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/isQualitative.Rd | 10 Rmixmod-2.1.2/Rmixmod/man/learnMain.Rd |only Rmixmod-2.1.2/Rmixmod/man/matrix2binary.Rd | 11 Rmixmod-2.1.2/Rmixmod/man/mixmodCluster.Rd | 85 -- Rmixmod-2.1.2/Rmixmod/man/mixmodCompositeModel.Rd | 179 +--- Rmixmod-2.1.2/Rmixmod/man/mixmodGaussianModel.Rd | 155 +--- Rmixmod-2.1.2/Rmixmod/man/mixmodLearn.Rd | 83 -- Rmixmod-2.1.2/Rmixmod/man/mixmodLearn.default.Rd |only Rmixmod-2.1.2/Rmixmod/man/mixmodMultinomialModel.Rd | 88 -- Rmixmod-2.1.2/Rmixmod/man/mixmodPredict.Rd | 53 - Rmixmod-2.1.2/Rmixmod/man/mixmodStrategy.Rd | 188 +--- Rmixmod-2.1.2/Rmixmod/man/mixmodXmlCheck.Rd |only Rmixmod-2.1.2/Rmixmod/man/mixmodXmlInput.Rd | 26 Rmixmod-2.1.2/Rmixmod/man/mixmodXmlLoad.Rd |only Rmixmod-2.1.2/Rmixmod/man/nbFactorFromData.Rd | 13 Rmixmod-2.1.2/Rmixmod/man/oldmixmodPredict.Rd |only Rmixmod-2.1.2/Rmixmod/man/plot-methods.Rd | 53 - Rmixmod-2.1.2/Rmixmod/man/plotCluster.Rd | 64 - Rmixmod-2.1.2/Rmixmod/man/predictMain.Rd |only Rmixmod-2.1.2/Rmixmod/man/print-methods.Rd | 47 - Rmixmod-2.1.2/Rmixmod/man/show-methods.Rd | 44 - Rmixmod-2.1.2/Rmixmod/man/sortByCriterion-methods.Rd | 24 Rmixmod-2.1.2/Rmixmod/man/summary-methods.Rd | 31 Rmixmod-2.1.2/Rmixmod/man/titanic.Rd | 30 Rmixmod-2.1.2/Rmixmod/man/vector2binary.Rd | 11 Rmixmod-2.1.2/Rmixmod/man/xMain.Rd |only Rmixmod-2.1.2/Rmixmod/src/ClusteringInputHandling.cpp | 1 Rmixmod-2.1.2/Rmixmod/src/LearnOutputHandling.cpp | 4 Rmixmod-2.1.2/Rmixmod/src/Makevars | 22 Rmixmod-2.1.2/Rmixmod/src/Makevars.win | 24 Rmixmod-2.1.2/Rmixmod/src/OutputHandling.cpp | 44 - Rmixmod-2.1.2/Rmixmod/src/OutputHandling.h | 10 Rmixmod-2.1.2/Rmixmod/src/Rmixmod_init.c |only Rmixmod-2.1.2/Rmixmod/src/XmlMakevars.in | 2 Rmixmod-2.1.2/Rmixmod/src/clusteringMain.cpp | 6 Rmixmod-2.1.2/Rmixmod/src/mixmod/Clustering/ClusteringMain.cpp | 95 +- Rmixmod-2.1.2/Rmixmod/src/mixmod/Clustering/ClusteringOutput.cpp | 44 - Rmixmod-2.1.2/Rmixmod/src/mixmod/Clustering/ClusteringStrategy.cpp | 4 Rmixmod-2.1.2/Rmixmod/src/mixmod/Clustering/ClusteringStrategy.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/DiscriminantAnalysis/Learn/LearnMain.cpp | 28 Rmixmod-2.1.2/Rmixmod/src/mixmod/DiscriminantAnalysis/Learn/LearnOutput.cpp | 343 ++++++++ Rmixmod-2.1.2/Rmixmod/src/mixmod/DiscriminantAnalysis/Predict/PredictMain.cpp | 3 Rmixmod-2.1.2/Rmixmod/src/mixmod/DiscriminantAnalysis/Predict/PredictOutput.cpp | 322 ++++++++ Rmixmod-2.1.2/Rmixmod/src/mixmod/DiscriminantAnalysis/Predict/PredictOutput.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/IO/Input.cpp | 5 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/IO/Input.h | 5 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/IO/ParameterDescription.cpp | 62 + Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/Model/Model.cpp | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/Parameter/GaussianDiagParameter.cpp | 19 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/Parameter/GaussianDiagParameter.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/Parameter/GaussianSphericalParameter.cpp | 14 Rmixmod-2.1.2/Rmixmod/src/mixmod/Kernel/Parameter/GaussianSphericalParameter.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/Matrix/SymmetricMatrix.cpp | 8 Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/ExampleDataUtil.cpp | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/Util.h | 3 Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/exceptions/OtherException.h | 5 Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/maths/Armadillo.h | 316 ++++++-- Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/maths/Eigen.h | 383 ++++++++- Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/maths/GSL.h | 315 ++++++-- Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/maths/ITpp.h | 301 ++++++- Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/maths/SelectLibrary.h | 33 Rmixmod-2.1.2/Rmixmod/src/mixmod/Utilities/mixmod.h | 10 Rmixmod-2.1.2/Rmixmod/src/mixmod/mixmod_r.mk | 10 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomData.cpp | 11 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomLabel.cpp | 22 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomOpProject.cpp | 12 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomOpProject.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomParameter.cpp | 15 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/DomProba.cpp | 4 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/IOStreamUtil.cpp | 120 ++- Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/IOStreamUtil.h | 42 - Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeInput.cpp | 12 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeInput.h | 6 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeOpInput.cpp | 159 +++- Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeOpInput.h | 2 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeOpOutput.cpp | 169 ++-- Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/NodeOpOutput.h | 6 Rmixmod-2.1.2/Rmixmod/src/mixmod_iostream/mixmod_iostream_r.mk | 8 Rmixmod-2.1.2/Rmixmod/src/predictMain.cpp | 385 +++++----- Rmixmod-2.1.2/Rmixmod/src/xMain.cpp |only Rmixmod-2.1.2/Rmixmod/tests/clusteringParametertest.R | 1 Rmixmod-2.1.2/Rmixmod/tests/clusteringPartitiontest.R | 2 Rmixmod-2.1.2/Rmixmod/tests/test.R | 6 158 files changed, 4316 insertions(+), 2474 deletions(-)
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks 'API'. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both 'CPU' and 'GPU' devices.
Author: JJ Allaire [aut, cre],
François Chollet [aut, cph],
RStudio [ctb, cph, fnd],
Google [ctb, cph, fnd],
Yuan Tang [ctb, cph],
Daniel Falbel [ctb, cph],
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph]
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between keras versions 2.1.3 dated 2018-01-17 and 2.1.4 dated 2018-02-24
DESCRIPTION | 8 MD5 | 186 +++++++-------- NAMESPACE | 11 NEWS.md | 20 + R/activations.R | 6 R/applications.R | 226 ++++++++++++++++++- R/backend.R | 2 R/callbacks.R | 19 + R/install.R | 2 R/layers-activations.R | 27 ++ R/layers-convolutional.R | 100 +++++++- R/layers-dropout.R | 2 R/layers-normalization.R | 2 R/layers-pooling.R | 2 R/layers-recurrent.R | 12 - R/losses.R | 2 R/model-persistence.R | 32 ++ R/model.R | 70 ++++- R/optimizers.R | 47 ++- R/preprocessing.R | 32 +- inst/doc/applications.Rmd | 2 inst/doc/applications.html | 2 inst/doc/faq.Rmd | 3 inst/doc/faq.html | 2 inst/doc/functional_api.R | 10 inst/doc/functional_api.Rmd | 12 - inst/doc/functional_api.html | 12 - inst/doc/why_use_keras.Rmd | 4 inst/doc/why_use_keras.html | 4 inst/python/kerastools/layer.py | 7 inst/python/kerastools/progbar.py | 2 man/activation_relu.Rd | 9 man/application_densenet.Rd |only man/application_mobilenet.Rd | 2 man/application_nasnet.Rd |only man/callback_learning_rate_scheduler.Rd | 3 man/callback_progbar_logger.Rd | 7 man/callback_tensorboard.Rd | 4 man/evaluate.keras.engine.training.Model.Rd | 3 man/export_savedmodel.keras.engine.training.Model.Rd | 8 man/fit_generator.Rd | 16 + man/flow_images_from_data.Rd | 2 man/flow_images_from_directory.Rd | 20 - man/imagenet_preprocess_input.Rd | 10 man/k_elu.Rd | 2 man/layer_activation.Rd | 1 man/layer_activation_elu.Rd | 1 man/layer_activation_leaky_relu.Rd | 1 man/layer_activation_parametric_relu.Rd | 1 man/layer_activation_softmax.Rd |only man/layer_activation_thresholded_relu.Rd | 1 man/layer_average_pooling_1d.Rd | 2 man/layer_batch_normalization.Rd | 2 man/layer_conv_1d.Rd | 3 man/layer_conv_2d.Rd | 3 man/layer_conv_2d_transpose.Rd | 1 man/layer_conv_3d.Rd | 3 man/layer_conv_3d_transpose.Rd | 1 man/layer_conv_lstm_2d.Rd | 3 man/layer_cropping_1d.Rd | 1 man/layer_cropping_2d.Rd | 1 man/layer_cropping_3d.Rd | 1 man/layer_cudnn_gru.Rd | 4 man/layer_cudnn_lstm.Rd | 4 man/layer_dropout.Rd | 2 man/layer_gru.Rd | 9 man/layer_lstm.Rd | 11 man/layer_separable_conv_1d.Rd |only man/layer_separable_conv_2d.Rd | 3 man/layer_simple_rnn.Rd | 9 man/layer_upsampling_1d.Rd | 1 man/layer_upsampling_2d.Rd | 1 man/layer_upsampling_3d.Rd | 1 man/layer_zero_padding_1d.Rd | 1 man/layer_zero_padding_2d.Rd | 1 man/layer_zero_padding_3d.Rd | 1 man/loss_mean_squared_error.Rd | 2 man/multi_gpu_model.Rd | 7 man/optimizer_adadelta.Rd | 4 man/optimizer_adagrad.Rd | 6 man/optimizer_adam.Rd | 17 + man/optimizer_adamax.Rd | 4 man/optimizer_nadam.Rd | 4 man/optimizer_rmsprop.Rd | 4 man/optimizer_sgd.Rd | 3 man/predict.keras.engine.training.Model.Rd | 5 man/predict_proba.Rd | 10 man/save_model_weights_hdf5.Rd | 10 man/text_tokenizer.Rd | 5 tests/testthat/test-applications.R | 10 tests/testthat/test-callbacks.R | 2 tests/testthat/test-layers.R | 15 + vignettes/applications.Rmd | 2 vignettes/faq.Rmd | 3 vignettes/functional_api.Rmd | 12 - vignettes/why_use_keras.Rmd | 4 96 files changed, 873 insertions(+), 284 deletions(-)
Title: Seamless Integration Between R and 'Julia'
Description: Provides an R interface to 'Julia',
which is a high-level, high-performance dynamic programming language
for numerical computing, see <https://julialang.org/> for more information.
It provides a high-level interface as well as a low-level interface.
Using the high level interface, you could call any 'Julia' function just like
any R function with automatic type conversion. Using the low level interface,
you could deal with C-level SEXP directly while enjoying the convenience of
using a high-level programming language like 'Julia'.
Author: Changcheng Li [aut, cre],
Randy Lai [ctb],
Dmitri Grominski [ctb],
Nagi Teramo [ctb]
Maintainer: Changcheng Li <cxl508@psu.edu>
Diff between JuliaCall versions 0.11.1 dated 2017-11-16 and 0.12.1 dated 2018-02-24
JuliaCall-0.11.1/JuliaCall/inst/julia/JuliaArray.jl |only JuliaCall-0.11.1/JuliaCall/inst/julia/RCallprepare.jl |only JuliaCall-0.11.1/JuliaCall/inst/julia/suppress.jl |only JuliaCall-0.11.1/JuliaCall/tests/testthat/Rmd_test.html |only JuliaCall-0.11.1/JuliaCall/tests/testthat/test_AD.R |only JuliaCall-0.11.1/JuliaCall/tests/testthat/test_rmd.R |only JuliaCall-0.12.1/JuliaCall/DESCRIPTION | 31 JuliaCall-0.12.1/JuliaCall/MD5 | 47 - JuliaCall-0.12.1/JuliaCall/NAMESPACE | 2 JuliaCall-0.12.1/JuliaCall/NEWS.md | 148 +--- JuliaCall-0.12.1/JuliaCall/R/JuliaCall.R | 2 JuliaCall-0.12.1/JuliaCall/R/RcppExports.R |only JuliaCall-0.12.1/JuliaCall/R/aaa.R | 9 JuliaCall-0.12.1/JuliaCall/R/package.R | 2 JuliaCall-0.12.1/JuliaCall/R/zzz.R | 132 --- JuliaCall-0.12.1/JuliaCall/README.md | 138 ++- JuliaCall-0.12.1/JuliaCall/build/vignette.rds |binary JuliaCall-0.12.1/JuliaCall/inst/doc/JuliaCall_in_Jupyter_R_Notebook.html | 304 +++++++- JuliaCall-0.12.1/JuliaCall/inst/doc/Julia_in_RMarkdown.html | 356 +++++++--- JuliaCall-0.12.1/JuliaCall/inst/julia/JuliaObject.jl | 6 JuliaCall-0.12.1/JuliaCall/inst/julia/install_dependency.jl |only JuliaCall-0.12.1/JuliaCall/inst/julia/setup.jl | 4 JuliaCall-0.12.1/JuliaCall/src |only JuliaCall-0.12.1/JuliaCall/tests/testthat.R | 11 JuliaCall-0.12.1/JuliaCall/tests/testthat/1test_AD.R |only JuliaCall-0.12.1/JuliaCall/tests/testthat/1test_rmd.R |only JuliaCall-0.12.1/JuliaCall/tests/testthat/Rmd_test.Rmd | 2 JuliaCall-0.12.1/JuliaCall/tests/testthat/Rmd_test.md |only JuliaCall-0.12.1/JuliaCall/tests/testthat/test_dispatch.R | 2 29 files changed, 792 insertions(+), 404 deletions(-)
Title: A Button-Based GUI for Financial and Economic Data Analysis
Description: A GUI designed to support the analysis of financial-economic time
series data.
Author: Ho Tsung-wu
Maintainer: Ho Tsung-wu <tsungwu@mail.shu.edu.tw>
Diff between iClick versions 1.3 dated 2017-11-23 and 1.4 dated 2018-02-24
DESCRIPTION | 12 ++++++------ MD5 | 26 ++++++++++++++------------ NAMESPACE | 2 +- R/iClick_ARIMA.R | 8 ++------ R/iClick_GARCH.R | 8 ++------ R/iClick_VisAssetPrice.R | 44 +++++++++++++++++++++----------------------- R/iClick_VisOneReturns.R | 11 ++--------- data/IBM.rda |binary data/world20.rda |only man/IBM.Rd | 18 ++++++++---------- man/iClick.ARIMA.Rd | 6 +++--- man/iClick.GARCH.Rd | 10 +++++----- man/iClick.VisAssetPrice.Rd | 8 ++++---- man/iClick.VisOneReturns.Rd | 15 +++++++-------- man/world20.Rd |only 15 files changed, 75 insertions(+), 93 deletions(-)
Title: Expanding Ploidy and Allele-Frequency on Nested Subpopulations
Description: Expanding Ploidy and Allele Frequency on Nested Subpopulations (expands) characterizes coexisting subpopulations in a single tumor sample using copy number and allele frequencies derived from exome- or whole genome sequencing input data (<http://www.ncbi.nlm.nih.gov/pubmed/24177718>). The model detects coexisting genotypes by leveraging run-specific tradeoffs between depth of coverage and breadth of coverage. This package predicts the number of clonal expansions, the size of the resulting subpopulations in the tumor bulk, the mutations specific to each subpopulation, tumor purity and phylogeny. The main function runExPANdS() provides the complete functionality needed to predict coexisting subpopulations from single nucleotide variations (SNVs) and associated copy numbers. The robustness of subpopulation predictions increases with the number of mutations provided. It is recommended that at least 200 mutations are used as input to obtain stable results. Updates in version 2.1 include: (i) new parameter ploidy in runExPANdS.R allows specification of non-diploid background ploidies (e.g. for near-triploid cell lines); (ii) parallel computing option is available. Further documentation and FAQ available at <http://dna-discovery.stanford.edu/software/expands>.
Author: Noemi Andor
Maintainer: Noemi Andor <expands.r@gmail.com>
Diff between expands versions 2.0.0 dated 2017-04-09 and 2.1.0 dated 2018-02-24
expands-2.0.0/expands/R/addColumn.R |only expands-2.0.0/expands/R/readSNVandCBS.R |only expands-2.0.0/expands/java/lib |only expands-2.1.0/expands/DESCRIPTION | 17 expands-2.1.0/expands/MD5 | 89 +- expands-2.1.0/expands/NAMESPACE | 13 expands-2.1.0/expands/NEWS.md | 23 expands-2.1.0/expands/R/Utils.R |only expands-2.1.0/expands/R/assignMutations.R | 148 +++- expands-2.1.0/expands/R/assignQuantityToMutation.R | 21 expands-2.1.0/expands/R/assignQuantityToSP.R | 92 +- expands-2.1.0/expands/R/buildMultiSamplePhylo.R | 12 expands-2.1.0/expands/R/buildPhylo.R | 26 expands-2.1.0/expands/R/cellfrequency_pdf.R | 19 expands-2.1.0/expands/R/clusterCellFrequencies.R | 28 expands-2.1.0/expands/R/computeCellFrequencyDistributions.R | 71 +- expands-2.1.0/expands/R/gatherEXPANDSoutput.R |only expands-2.1.0/expands/R/onLoad.R | 9 expands-2.1.0/expands/R/plotSPs.R | 39 - expands-2.1.0/expands/R/runExPANdS.R | 92 +- expands-2.1.0/expands/build/vignette.rds |binary expands-2.1.0/expands/inst/doc/expands.R | 16 expands-2.1.0/expands/inst/doc/expands.Rnw | 34 - expands-2.1.0/expands/inst/doc/expands.pdf |binary expands-2.1.0/expands/inst/java/expands.jar |binary expands-2.1.0/expands/java/src/core/ParallelSubpopulations.java | 48 - expands-2.1.0/expands/java/src/core/Subpopulation.java | 141 +++- expands-2.1.0/expands/java/src/core/utils/Common.java | 150 ++++ expands-2.1.0/expands/man/assignMutations.Rd | 33 - expands-2.1.0/expands/man/assignQuantityToMutation.Rd | 14 expands-2.1.0/expands/man/assignQuantityToSP.Rd | 35 - expands-2.1.0/expands/man/buildMultiSamplePhylo.Rd | 15 expands-2.1.0/expands/man/buildPhylo.Rd | 23 expands-2.1.0/expands/man/cellfrequency_pdf.Rd | 19 expands-2.1.0/expands/man/clusterCellFrequencies.Rd | 9 expands-2.1.0/expands/man/computeCellFrequencyDistributions.Rd | 35 - expands-2.1.0/expands/man/gatherEXPANDSoutput.Rd |only expands-2.1.0/expands/man/plotSPs.Rd | 22 expands-2.1.0/expands/man/runExPANdS.Rd | 58 - expands-2.1.0/expands/man/simulation.Rd | 4 expands-2.1.0/expands/man/snv.Rd | 4 expands-2.1.0/expands/vignettes/ID_MRD_001_metKidney.cbs | 72 +- expands-2.1.0/expands/vignettes/ID_MRD_001_metKidney.sps | 138 ++-- expands-2.1.0/expands/vignettes/ID_MRD_001_metLung.cbs | 74 +- expands-2.1.0/expands/vignettes/ID_MRD_001_metLung.sps | 248 +++---- expands-2.1.0/expands/vignettes/ID_MRD_001_primPancreas.cbs | 138 ++-- expands-2.1.0/expands/vignettes/ID_MRD_001_primPancreas.sps | 312 +++++----- expands-2.1.0/expands/vignettes/expands.Rnw | 34 - expands-2.1.0/expands/vignettes/tmp.tree |only 49 files changed, 1385 insertions(+), 990 deletions(-)
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and compact letter displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell Lenth [aut, cre, cph],
Jonathon Love [ctb],
Maxime Herve [ctb]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.1 dated 2018-01-10 and 1.1.2 dated 2018-02-24
emmeans-1.1.2/emmeans/DESCRIPTION | 13 - emmeans-1.1.2/emmeans/MD5 | 66 ++--- emmeans-1.1.2/emmeans/NAMESPACE | 1 emmeans-1.1.2/emmeans/NEWS.md |only emmeans-1.1.2/emmeans/R/contrast.R | 145 +++++++++--- emmeans-1.1.2/emmeans/R/datasets.R | 4 emmeans-1.1.2/emmeans/R/deprecated.R | 2 emmeans-1.1.2/emmeans/R/helpers.R | 2 emmeans-1.1.2/emmeans/R/ref-grid.R | 40 +-- emmeans-1.1.2/emmeans/R/summary.R | 17 - emmeans-1.1.2/emmeans/R/test.R | 25 +- emmeans-1.1.2/emmeans/README.md | 17 - emmeans-1.1.2/emmeans/inst/doc/FAQs.html | 4 emmeans-1.1.2/emmeans/inst/doc/basics.html | 4 emmeans-1.1.2/emmeans/inst/doc/comparisons.html | 24 - emmeans-1.1.2/emmeans/inst/doc/confidence-intervals.html | 4 emmeans-1.1.2/emmeans/inst/doc/extending.pdf |binary emmeans-1.1.2/emmeans/inst/doc/interactions.R | 6 emmeans-1.1.2/emmeans/inst/doc/interactions.Rmd | 30 ++ emmeans-1.1.2/emmeans/inst/doc/interactions.html | 43 +++ emmeans-1.1.2/emmeans/inst/doc/messy-data.html | 24 + emmeans-1.1.2/emmeans/inst/doc/models.html | 4 emmeans-1.1.2/emmeans/inst/doc/sophisticated.html | 5 emmeans-1.1.2/emmeans/inst/doc/transformations.html | 4 emmeans-1.1.2/emmeans/inst/doc/transition-from-lsmeans.Rmd | 4 emmeans-1.1.2/emmeans/inst/doc/transition-from-lsmeans.html | 6 emmeans-1.1.2/emmeans/inst/doc/utilities.html | 22 - emmeans-1.1.2/emmeans/man/auto.noise.Rd | 4 emmeans-1.1.2/emmeans/man/contrast.Rd | 91 +++++-- emmeans-1.1.2/emmeans/man/joint_tests.Rd | 5 emmeans-1.1.2/emmeans/man/ref_grid.Rd | 12 emmeans-1.1.2/emmeans/man/summary.emmGrid.Rd | 5 emmeans-1.1.2/emmeans/vignettes/interactions.Rmd | 30 ++ emmeans-1.1.2/emmeans/vignettes/transition-from-lsmeans.Rmd | 4 emmeans-1.1/emmeans/NEWS |only 35 files changed, 467 insertions(+), 200 deletions(-)
Title: HTTP Client
Description: A simple HTTP client, with tools for making HTTP requests,
and mocking HTTP requests. The package is built on R6, and takes
inspiration from Ruby's 'faraday' gem (<https://rubygems.org/gems/faraday>).
The package name is a play on curl, the widely used command line tool
for HTTP, and this package is built on top of the R package 'curl', an
interface to 'libcurl' (<https://curl.haxx.se/libcurl>).
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between crul versions 0.5.0 dated 2018-01-22 and 0.5.2 dated 2018-02-24
DESCRIPTION | 8 ++-- MD5 | 24 ++++++------ NEWS.md | 18 +++++++++ R/client.R | 18 ++++++++- R/curl-options.R | 33 +++++++++------- R/make_url.R | 6 +-- R/paginator.R | 33 +++++++++++++--- R/zzz.R | 10 ++++- README.md | 28 +++++++------- man/HttpClient.Rd | 10 +++++ man/curl-options.Rd | 34 +++++++++-------- tests/testthat/test-paginator.R | 78 ++++++++++++++++++++++++++++++++++++++- tests/testthat/test-user-agent.R | 54 ++++++++++++++++++++++++++- 13 files changed, 279 insertions(+), 75 deletions(-)
Title: Tables so Beautifully Fine-Tuned You Will Believe It's Magic
Description: The introduction of the 'broom' package has made converting model
objects into data frames as simple as a single function. While the 'broom'
package focuses on providing tidy data frames that can be used in advanced
analysis, it deliberately stops short of providing functionality for reporting
models in publication-ready tables. 'pixiedust' provides this functionality with
a programming interface intended to be similar to 'ggplot2's system of layers
with fine tuned control over each cell of the table. Options for output include
printing to the console and to the common markdown formats (markdown, HTML, and
LaTeX). With a little 'pixiedust' (and happy thoughts) tables can really fly.
Author: Benjamin Nutter [aut, cre],
David Kretch [ctb]
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Diff between pixiedust versions 0.8.1 dated 2017-09-16 and 0.8.2 dated 2018-02-24
pixiedust-0.8.1/pixiedust/LICENSE |only pixiedust-0.8.1/pixiedust/R/sprinkle_new.R |only pixiedust-0.8.2/pixiedust/DESCRIPTION | 18 pixiedust-0.8.2/pixiedust/MD5 | 362 pixiedust-0.8.2/pixiedust/NAMESPACE | 275 pixiedust-0.8.2/pixiedust/NEWS | 676 pixiedust-0.8.2/pixiedust/R/as.data.frame.dust.R | 218 pixiedust-0.8.2/pixiedust/R/chain.R | 62 pixiedust-0.8.2/pixiedust/R/dust.R | 885 - pixiedust-0.8.2/pixiedust/R/fixed_header_css.R |only pixiedust-0.8.2/pixiedust/R/get_dust_part.R | 142 pixiedust-0.8.2/pixiedust/R/glance_foot.R | 308 pixiedust-0.8.2/pixiedust/R/index_to_sprinkle.R | 467 pixiedust-0.8.2/pixiedust/R/is_valid_color.R | 114 pixiedust-0.8.2/pixiedust/R/knit_print.dust.R |only pixiedust-0.8.2/pixiedust/R/medley.R | 140 pixiedust-0.8.2/pixiedust/R/medley_all_borders.R | 144 pixiedust-0.8.2/pixiedust/R/perform_function.R | 86 pixiedust-0.8.2/pixiedust/R/pixie_count.R | 104 pixiedust-0.8.2/pixiedust/R/pixiedust-pkg.R | 206 pixiedust-0.8.2/pixiedust/R/pixiedust_print_method.R | 58 pixiedust-0.8.2/pixiedust/R/pixieply.R | 168 pixiedust-0.8.2/pixiedust/R/print.dust.R | 133 pixiedust-0.8.2/pixiedust/R/print_dust_console.R | 227 pixiedust-0.8.2/pixiedust/R/print_dust_html.R | 595 pixiedust-0.8.2/pixiedust/R/print_dust_latex.R | 1152 - pixiedust-0.8.2/pixiedust/R/print_dust_latex_hhline.R | 749 - pixiedust-0.8.2/pixiedust/R/print_dust_markdown.R | 279 pixiedust-0.8.2/pixiedust/R/pval_string.R | 228 pixiedust-0.8.2/pixiedust/R/redust.R | 174 pixiedust-0.8.2/pixiedust/R/sanitize_latex.R |only pixiedust-0.8.2/pixiedust/R/sprinkle.R | 2442 +-- pixiedust-0.8.2/pixiedust/R/sprinkle_align.R | 18 pixiedust-0.8.2/pixiedust/R/sprinkle_bg.R | 14 pixiedust-0.8.2/pixiedust/R/sprinkle_bg_pattern.R | 16 pixiedust-0.8.2/pixiedust/R/sprinkle_bookdown.R | 7 pixiedust-0.8.2/pixiedust/R/sprinkle_border.R | 507 pixiedust-0.8.2/pixiedust/R/sprinkle_border_collapse.R | 8 pixiedust-0.8.2/pixiedust/R/sprinkle_caption.R | 14 pixiedust-0.8.2/pixiedust/R/sprinkle_caption_number.R |only pixiedust-0.8.2/pixiedust/R/sprinkle_colnames.R | 228 pixiedust-0.8.2/pixiedust/R/sprinkle_discrete.R | 509 pixiedust-0.8.2/pixiedust/R/sprinkle_fixed_header.R |only pixiedust-0.8.2/pixiedust/R/sprinkle_float.R | 6 pixiedust-0.8.2/pixiedust/R/sprinkle_fn.R | 9 pixiedust-0.8.2/pixiedust/R/sprinkle_font.R | 580 pixiedust-0.8.2/pixiedust/R/sprinkle_gradient.R | 689 pixiedust-0.8.2/pixiedust/R/sprinkle_height.R | 10 pixiedust-0.8.2/pixiedust/R/sprinkle_hhline.R | 7 pixiedust-0.8.2/pixiedust/R/sprinkle_html_preserve.R |only pixiedust-0.8.2/pixiedust/R/sprinkle_justify.R | 6 pixiedust-0.8.2/pixiedust/R/sprinkle_label.R | 7 pixiedust-0.8.2/pixiedust/R/sprinkle_longtable.R | 6 pixiedust-0.8.2/pixiedust/R/sprinkle_merge.R |only pixiedust-0.8.2/pixiedust/R/sprinkle_na_string.R | 9 pixiedust-0.8.2/pixiedust/R/sprinkle_pad.R | 14 pixiedust-0.8.2/pixiedust/R/sprinkle_print_method.R | 96 pixiedust-0.8.2/pixiedust/R/sprinkle_replace.R | 320 pixiedust-0.8.2/pixiedust/R/sprinkle_rotate_degree.R | 9 pixiedust-0.8.2/pixiedust/R/sprinkle_round.R | 8 pixiedust-0.8.2/pixiedust/R/sprinkle_sanitize.R | 12 pixiedust-0.8.2/pixiedust/R/sprinkle_tabcolsep.R | 8 pixiedust-0.8.2/pixiedust/R/sprinkle_table.R | 90 pixiedust-0.8.2/pixiedust/R/sprinkle_width.R | 10 pixiedust-0.8.2/pixiedust/R/str_extract_base.R |only pixiedust-0.8.2/pixiedust/R/tidy_levels_labels.R | 465 pixiedust-0.8.2/pixiedust/R/zzz.R | 30 pixiedust-0.8.2/pixiedust/README.md | 410 pixiedust-0.8.2/pixiedust/build/vignette.rds |binary pixiedust-0.8.2/pixiedust/inst/doc/advancedMagic.R | 669 pixiedust-0.8.2/pixiedust/inst/doc/advancedMagic.Rmd | 987 - pixiedust-0.8.2/pixiedust/inst/doc/advancedMagic.html | 7210 +++++----- pixiedust-0.8.2/pixiedust/inst/doc/pixiedust.R | 324 pixiedust-0.8.2/pixiedust/inst/doc/pixiedust.Rmd | 586 pixiedust-0.8.2/pixiedust/inst/doc/pixiedust.html | 2927 ++-- pixiedust-0.8.2/pixiedust/inst/doc/sprinkles.R | 132 pixiedust-0.8.2/pixiedust/inst/doc/sprinkles.Rmd | 182 pixiedust-0.8.2/pixiedust/inst/doc/sprinkles.html | 4440 +++--- pixiedust-0.8.2/pixiedust/inst/save_sprinkles_rda.R | 14 pixiedust-0.8.2/pixiedust/inst/sprinkle_documentation.csv | 732 - pixiedust-0.8.2/pixiedust/inst/sprinkle_reference.csv | 96 pixiedust-0.8.2/pixiedust/inst/sprinkles.csv | 94 pixiedust-0.8.2/pixiedust/man/as.data.frame.dust.Rd | 132 pixiedust-0.8.2/pixiedust/man/chain.Rd | 35 pixiedust-0.8.2/pixiedust/man/compoundAssignment.Rd | 35 pixiedust-0.8.2/pixiedust/man/dust.Rd | 450 pixiedust-0.8.2/pixiedust/man/fixed_header_css.Rd |only pixiedust-0.8.2/pixiedust/man/get_dust_part.Rd | 74 pixiedust-0.8.2/pixiedust/man/glance_foot.Rd | 129 pixiedust-0.8.2/pixiedust/man/index_to_sprinkle.Rd | 172 pixiedust-0.8.2/pixiedust/man/is_valid_color.Rd | 56 pixiedust-0.8.2/pixiedust/man/knit_print.dust.Rd |only pixiedust-0.8.2/pixiedust/man/medley.Rd | 101 pixiedust-0.8.2/pixiedust/man/medley_all_borders.Rd | 71 pixiedust-0.8.2/pixiedust/man/pixie_count.Rd | 93 pixiedust-0.8.2/pixiedust/man/pixiedust.Rd | 224 pixiedust-0.8.2/pixiedust/man/pixiedust_print_method.Rd | 43 pixiedust-0.8.2/pixiedust/man/pixieply.Rd | 141 pixiedust-0.8.2/pixiedust/man/print.dust.Rd | 105 pixiedust-0.8.2/pixiedust/man/pval_string.Rd | 152 pixiedust-0.8.2/pixiedust/man/sanitize_latex.Rd |only pixiedust-0.8.2/pixiedust/man/sprinkle.Rd | 1409 - pixiedust-0.8.2/pixiedust/man/sprinkle_align.Rd | 174 pixiedust-0.8.2/pixiedust/man/sprinkle_bg.Rd | 210 pixiedust-0.8.2/pixiedust/man/sprinkle_bg_pattern.Rd | 146 pixiedust-0.8.2/pixiedust/man/sprinkle_bookdown.Rd | 110 pixiedust-0.8.2/pixiedust/man/sprinkle_border.Rd | 264 pixiedust-0.8.2/pixiedust/man/sprinkle_border_collapse.Rd | 114 pixiedust-0.8.2/pixiedust/man/sprinkle_caption.Rd | 96 pixiedust-0.8.2/pixiedust/man/sprinkle_caption_number.Rd |only pixiedust-0.8.2/pixiedust/man/sprinkle_colnames.Rd | 106 pixiedust-0.8.2/pixiedust/man/sprinkle_discrete.Rd | 206 pixiedust-0.8.2/pixiedust/man/sprinkle_fixed_header.Rd |only pixiedust-0.8.2/pixiedust/man/sprinkle_float.Rd | 108 pixiedust-0.8.2/pixiedust/man/sprinkle_fn.Rd | 170 pixiedust-0.8.2/pixiedust/man/sprinkle_font.Rd | 252 pixiedust-0.8.2/pixiedust/man/sprinkle_gradient.Rd | 240 pixiedust-0.8.2/pixiedust/man/sprinkle_height.Rd | 179 pixiedust-0.8.2/pixiedust/man/sprinkle_hhline.Rd | 112 pixiedust-0.8.2/pixiedust/man/sprinkle_html_preserve.Rd |only pixiedust-0.8.2/pixiedust/man/sprinkle_justify.Rd | 116 pixiedust-0.8.2/pixiedust/man/sprinkle_label.Rd | 106 pixiedust-0.8.2/pixiedust/man/sprinkle_longtable.Rd | 110 pixiedust-0.8.2/pixiedust/man/sprinkle_merge.Rd |only pixiedust-0.8.2/pixiedust/man/sprinkle_na_string.Rd | 166 pixiedust-0.8.2/pixiedust/man/sprinkle_pad.Rd | 194 pixiedust-0.8.2/pixiedust/man/sprinkle_replace.Rd | 166 pixiedust-0.8.2/pixiedust/man/sprinkle_rotate_degree.Rd | 162 pixiedust-0.8.2/pixiedust/man/sprinkle_round.Rd | 160 pixiedust-0.8.2/pixiedust/man/sprinkle_sanitize.Rd | 181 pixiedust-0.8.2/pixiedust/man/sprinkle_tabcolsep.Rd | 102 pixiedust-0.8.2/pixiedust/man/sprinkle_width.Rd | 179 pixiedust-0.8.2/pixiedust/man/str_extract_base.Rd |only pixiedust-0.8.2/pixiedust/man/tidy_levels_labels.Rd | 293 pixiedust-0.8.2/pixiedust/tests/testthat.R | 6 pixiedust-0.8.2/pixiedust/tests/testthat/test-as.data.frame.R | 302 pixiedust-0.8.2/pixiedust/tests/testthat/test-colors.R | 160 pixiedust-0.8.2/pixiedust/tests/testthat/test-dust.R | 199 pixiedust-0.8.2/pixiedust/tests/testthat/test-dust.grouped_df.R | 34 pixiedust-0.8.2/pixiedust/tests/testthat/test-fixed_header_css.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-get_dust_part.R | 184 pixiedust-0.8.2/pixiedust/tests/testthat/test-glance_foot.R | 134 pixiedust-0.8.2/pixiedust/tests/testthat/test-is_valid_color.R | 298 pixiedust-0.8.2/pixiedust/tests/testthat/test-medley.R | 44 pixiedust-0.8.2/pixiedust/tests/testthat/test-medley_all_borders.R | 86 pixiedust-0.8.2/pixiedust/tests/testthat/test-perform_function.R | 48 pixiedust-0.8.2/pixiedust/tests/testthat/test-pixie_count.R | 50 pixiedust-0.8.2/pixiedust/tests/testthat/test-pixieply.R | 52 pixiedust-0.8.2/pixiedust/tests/testthat/test-print.dust-explicit.R | 102 pixiedust-0.8.2/pixiedust/tests/testthat/test-print.dust.R | 8 pixiedust-0.8.2/pixiedust/tests/testthat/test-print_dust_html.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-print_dust_latex.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-print_dust_latex_hhline.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-print_dust_methods.R | 408 pixiedust-0.8.2/pixiedust/tests/testthat/test-pvalString.R | 152 pixiedust-0.8.2/pixiedust/tests/testthat/test-redust.R | 54 pixiedust-0.8.2/pixiedust/tests/testthat/test-roundSafe.R | 16 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_align.R | 298 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_bg.R | 236 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_bg_pattern.R | 228 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_bookdown.R | 116 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_border.R | 590 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_border_collapse.R | 96 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_caption.R | 116 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_caption_number.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_colnames.R | 78 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_discrete.R | 396 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_dust_list.R | 84 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_fixed_header.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_float.R | 114 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_fn.R | 4 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_font.R | 544 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_gradient.R | 764 - pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_height.R | 228 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_hhline.R | 114 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_html_preserve.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_justify.R | 194 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_label.R | 130 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_longtable.R | 174 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_merge.R |only pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_na_string.R | 204 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_pad.R | 212 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_replace.R | 256 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_rotate_degree.R | 174 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_round.R | 174 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_sanitize.R | 220 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_tabcolsep.R | 114 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_table.R | 24 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkle_width.R | 234 pixiedust-0.8.2/pixiedust/tests/testthat/test-sprinkles.R | 1050 - pixiedust-0.8.2/pixiedust/tests/testthat/test-tidy_label_level.R | 178 pixiedust-0.8.2/pixiedust/vignettes/advancedMagic.Rmd | 987 - pixiedust-0.8.2/pixiedust/vignettes/no_css.css | 362 pixiedust-0.8.2/pixiedust/vignettes/pixiedust.Rmd | 586 pixiedust-0.8.2/pixiedust/vignettes/sprinkles.Rmd | 182 195 files changed, 26135 insertions(+), 26434 deletions(-)
Title: Multivariate Normality Tests
Description: Performs multivariate normality tests and graphical approaches and
implements multivariate outlier detection and univariate normality of marginal
distributions through plots and tests (Korkmaz et al, (2014), <https://journal.r-project.org/archive/2014-2/korkmaz-goksuluk-zararsiz.pdf>).
Author: Selcuk Korkmaz [aut, cre],
Dincer Goksuluk [aut],
Gokmen Zararsiz [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between MVN versions 4.0.2 dated 2016-12-01 and 5.0 dated 2018-02-24
MVN-4.0.2/MVN/R/classes.R |only MVN-4.0.2/MVN/R/contourControl.R |only MVN-4.0.2/MVN/R/hzTest.R |only MVN-4.0.2/MVN/R/mardiaTest.R |only MVN-4.0.2/MVN/R/mvOutlier.R |only MVN-4.0.2/MVN/R/mvnPlot.R |only MVN-4.0.2/MVN/R/perspControl.R |only MVN-4.0.2/MVN/R/roystonTest.R |only MVN-4.0.2/MVN/R/uniNorm.R |only MVN-4.0.2/MVN/R/uniPlot.R |only MVN-4.0.2/MVN/man/MVN-package.Rd |only MVN-4.0.2/MVN/man/contourControl.Rd |only MVN-4.0.2/MVN/man/hz-class.Rd |only MVN-4.0.2/MVN/man/hzTest.Rd |only MVN-4.0.2/MVN/man/mardia-class.Rd |only MVN-4.0.2/MVN/man/mardiaTest.Rd |only MVN-4.0.2/MVN/man/mvOutlier.Rd |only MVN-4.0.2/MVN/man/mvnPlot.Rd |only MVN-4.0.2/MVN/man/perspControl.Rd |only MVN-4.0.2/MVN/man/royston-class.Rd |only MVN-4.0.2/MVN/man/roystonTest.Rd |only MVN-4.0.2/MVN/man/uniNorm.Rd |only MVN-4.0.2/MVN/man/uniPlot.Rd |only MVN-5.0/MVN/DESCRIPTION | 30 +- MVN-5.0/MVN/MD5 | 41 --- MVN-5.0/MVN/NAMESPACE | 70 +++-- MVN-5.0/MVN/R/mvn.R |only MVN-5.0/MVN/README.md |only MVN-5.0/MVN/build/vignette.rds |binary MVN-5.0/MVN/inst/doc/MVN.R | 112 +++++--- MVN-5.0/MVN/inst/doc/MVN.Rnw | 377 +++++++++++------------------- MVN-5.0/MVN/inst/doc/MVN.pdf |binary MVN-5.0/MVN/man/mvn.Rd |only MVN-5.0/MVN/vignettes/MVN-concordance.tex |only MVN-5.0/MVN/vignettes/MVN.Rnw | 377 +++++++++++------------------- 35 files changed, 441 insertions(+), 566 deletions(-)