Title: Convenient Base R String Handling
Description: Base R already ships with string handling capabilities 'out-
of-the-box' but lacks streamlined function names and workflow. The
'stringi' ('stringr') package on the other hand has well named functions,
extensive Unicode support and allows for a streamlined workflow. On the other
hand it adds dependencies and regular expression interpretation between base R
functions and 'stringi' functions might differ. This packages aims at providing
a solution to the use case of unwanted dependencies on the one hand but the need
for streamlined text processing on the other. The packages' functions are solely
based on wrapping base R functions into 'stringr'/'stringi' like function names.
Along the way it adds one or two extra functions and last but not least provides
all functions as generics, therefore allowing for adding methods for other text
structures besides plain character vectors.
Author: Peter Meissner [aut, cre]
Maintainer: Peter Meissner <retep.meissner@gmail.com>
Diff between stringb versions 0.1.14 dated 2020-02-05 and 0.1.17 dated 2021-01-25
stringb-0.1.14/stringb/README.md |only stringb-0.1.17/stringb/DESCRIPTION | 13 ++--- stringb-0.1.17/stringb/MD5 | 45 +++++++++---------- stringb-0.1.17/stringb/NEWS.md | 8 +++ stringb-0.1.17/stringb/R/tools.R | 8 +-- stringb-0.1.17/stringb/man/get_groups.Rd | 4 - stringb-0.1.17/stringb/man/plot.character.Rd | 11 +++- stringb-0.1.17/stringb/man/text_count.Rd | 3 - stringb-0.1.17/stringb/man/text_extract.Rd | 11 +++- stringb-0.1.17/stringb/man/text_extract_all.Rd | 11 +++- stringb-0.1.17/stringb/man/text_extract_group.Rd | 3 - stringb-0.1.17/stringb/man/text_extract_group_all.Rd | 6 -- stringb-0.1.17/stringb/man/text_length.Rd | 3 - stringb-0.1.17/stringb/man/text_locate_all.Rd | 6 -- stringb-0.1.17/stringb/man/text_pad.Rd | 16 +++++- stringb-0.1.17/stringb/man/text_replace.Rd | 3 - stringb-0.1.17/stringb/man/text_replace_all.Rd | 9 ++- stringb-0.1.17/stringb/man/text_replace_group.Rd | 20 ++++++-- stringb-0.1.17/stringb/man/text_replace_locates.Rd | 3 - stringb-0.1.17/stringb/man/text_show.Rd | 22 +++++++-- stringb-0.1.17/stringb/man/text_snippet.Rd | 3 - stringb-0.1.17/stringb/man/text_tokenize.Rd | 23 +++++++-- stringb-0.1.17/stringb/man/text_trim.Rd | 12 +---- stringb-0.1.17/stringb/man/text_write.Rd | 3 - 24 files changed, 154 insertions(+), 92 deletions(-)
Title: Spatiotemporal Arrays, Raster and Vector Data Cubes
Description: Reading, manipulating, writing and plotting
spatiotemporal arrays (raster and vector data cubes) in 'R', using 'GDAL'
bindings provided by 'sf', and 'NetCDF' bindings by 'ncmeta' and 'RNetCDF'.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Michael Sumner [ctb] (<https://orcid.org/0000-0002-2471-7511>),
Etienne Racine [ctb],
Adriano Fantini [ctb],
David Blodgett [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between stars versions 0.5-0 dated 2021-01-19 and 0.5-1 dated 2021-01-25
DESCRIPTION | 6 - MD5 | 39 ++++---- NEWS.md | 6 + R/ncdf.R | 19 ++-- R/read.R | 2 R/warp.R | 22 ++-- build/vignette.rds |binary inst/doc/stars1.html | 14 +-- inst/doc/stars2.R | 75 ++++++++++------ inst/doc/stars2.Rmd | 81 ++++++++++------- inst/doc/stars2.html | 186 ++++++++++++++++++++++------------------- inst/doc/stars7.Rmd | 2 man/figures/README-plot1-1.png |binary man/figures/README-plot2-1.png |binary man/figures/README-plot3-1.png |binary man/figures/README-plot4-1.png |binary man/figures/README-plot5-1.png |binary man/st_warp.Rd | 2 tests/Rplots.pdf |only vignettes/stars2.Rmd | 81 ++++++++++------- vignettes/stars7.Rmd | 2 21 files changed, 310 insertions(+), 227 deletions(-)
Title: Graphics in the Context of Analyzing High-Throughput Data
Description: Additional options for making graphics in the context of analyzing high-throughput data are available here.
This includes automatic segmenting of the current device (eg window) to accommodate multiple new plots,
automatic checking for optimal location of legends in plots, small histograms to insert as legends,
histograms re-transforming axis labels to linear when plotting log2-transformed data,
a violin-plot <doi:10.1080/00031305.1998.10480559> function for a wide variety of input-formats,
principal components analysis (PCA) <doi:10.1080/14786440109462720> with bag-plots <doi:10.1080/00031305.1999.10474494> to highlight and compare the center areas for groups of samples,
generic MA-plots (differential- versus average-value plots) <doi:10.1093/nar/30.4.e15>,
staggered count plots and generation of mouse-over interactive html pages.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrGraph versions 1.1.1 dated 2020-12-03 and 1.2.0 dated 2021-01-25
DESCRIPTION | 10 - MD5 | 26 +- NAMESPACE | 1 R/MAplotW.R | 36 ++- R/addBagPlot.R | 87 +++++---- R/plotW2Leg.R | 6 R/profileAsClu.R |only inst/doc/wrGraphVignette1.R | 10 - inst/doc/wrGraphVignette1.Rmd | 23 +- inst/doc/wrGraphVignette1.html | 396 ++++++++++++++++++++--------------------- man/MAplotW.Rd | 2 man/addBagPlot.Rd | 22 +- man/plotW2Leg.Rd | 6 man/profileAsClu.Rd |only vignettes/wrGraphVignette1.Rmd | 23 +- 15 files changed, 343 insertions(+), 305 deletions(-)
Title: Themes for Shiny
Description: Themes for use with Shiny. Includes several Bootstrap themes
from <https://bootswatch.com/>, which are packaged for use with Shiny
applications.
Author: Winston Chang [aut, cre],
RStudio [cph],
Thomas Park [ctb, cph] (Bootswatch themes),
Lukasz Dziedzic [ctb, cph] (Lato font),
Nathan Willis [ctb, cph] (News Cycle font),
Google Corporation [ctb, cph] (Open Sans and Roboto fonts),
Matt McInerney [ctb, cph] (Raleway font),
Adobe Systems Incorporated [ctb, cph] (Source Sans Pro font),
Canonical Ltd [ctb, cph] (Ubuntu font)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shinythemes versions 1.1.2 dated 2018-11-06 and 1.2.0 dated 2021-01-25
DESCRIPTION | 12 +++++----- MD5 | 18 +++++++-------- NEWS.md | 5 ++++ R/shinythemes-package.r | 34 ++++++++++++++--------------- README.md | 38 +++++++++++++++++---------------- inst/shinythemes/css/cyborg.min.css | 3 +- inst/shinythemes/css/darkly.min.css | 3 +- inst/shinythemes/css/slate.min.css | 2 + inst/shinythemes/css/superhero.min.css | 3 +- man/shinythemes.Rd | 35 ++++++++++++++---------------- 10 files changed, 82 insertions(+), 71 deletions(-)
Title: Web Application Framework for R
Description: Makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive prebuilt widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: Winston Chang [aut, cre],
Joe Cheng [aut],
JJ Allaire [aut],
Carson Sievert [aut],
Barret Schloerke [aut],
Yihui Xie [aut],
Jeff Allen [aut],
Jonathan McPherson [aut],
Alan Dipert [aut],
Barbara Borges [aut],
RStudio [cph],
jQuery Foundation [cph] (jQuery library and jQuery UI library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/www/shared/jquery-AUTHORS.txt),
jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in
inst/www/shared/jqueryui/AUTHORS.txt),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library),
Prem Nawaz Khan [ctb] (Bootstrap accessibility plugin),
Victor Tsaran [ctb] (Bootstrap accessibility plugin),
Dennis Lembree [ctb] (Bootstrap accessibility plugin),
Srinivasu Chakravarthula [ctb] (Bootstrap accessibility plugin),
Cathy O'Connor [ctb] (Bootstrap accessibility plugin),
PayPal, Inc [cph] (Bootstrap accessibility plugin),
Stefan Petre [ctb, cph] (Bootstrap-datepicker library),
Andrew Rowls [ctb, cph] (Bootstrap-datepicker library),
Dave Gandy [ctb, cph] (Font-Awesome font),
Brian Reavis [ctb, cph] (selectize.js library),
Salmen Bejaoui [ctb, cph] (selectize-plugin-a11y library),
Denis Ineshin [ctb, cph] (ion.rangeSlider library),
Sami Samhuri [ctb, cph] (Javascript strftime library),
SpryMedia Limited [ctb, cph] (DataTables library),
John Fraser [ctb, cph] (showdown.js library),
John Gruber [ctb, cph] (showdown.js library),
Ivan Sagalaev [ctb, cph] (highlight.js library),
R Core Team [ctb, cph] (tar implementation from R)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shiny versions 1.5.0 dated 2020-06-23 and 1.6.0 dated 2021-01-25
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shiny-1.6.0/shiny/man/loadSupport.Rd | 2 shiny-1.6.0/shiny/man/makeReactiveBinding.Rd | 15 shiny-1.6.0/shiny/man/markRenderFunction.Rd | 52 shiny-1.6.0/shiny/man/memoryCache.Rd | 190 -- shiny-1.6.0/shiny/man/modalDialog.Rd | 20 shiny-1.6.0/shiny/man/moduleServer.Rd | 4 shiny-1.6.0/shiny/man/navbarPage.Rd | 11 shiny-1.6.0/shiny/man/observe.Rd | 3 shiny-1.6.0/shiny/man/observeEvent.Rd | 4 shiny-1.6.0/shiny/man/quoToFunction.Rd |only shiny-1.6.0/shiny/man/radioButtons.Rd | 27 shiny-1.6.0/shiny/man/reactive.Rd | 3 shiny-1.6.0/shiny/man/reactiveConsole.Rd |only shiny-1.6.0/shiny/man/registerInputHandler.Rd | 24 shiny-1.6.0/shiny/man/registerThemeDependency.Rd |only shiny-1.6.0/shiny/man/renderCachedPlot.Rd | 135 - shiny-1.6.0/shiny/man/renderDataTable.Rd | 6 shiny-1.6.0/shiny/man/renderPlot.Rd | 8 shiny-1.6.0/shiny/man/renderPrint.Rd | 52 shiny-1.6.0/shiny/man/resourcePaths.Rd | 2 shiny-1.6.0/shiny/man/runApp.Rd | 2 shiny-1.6.0/shiny/man/runExample.Rd | 10 shiny-1.6.0/shiny/man/runGadget.Rd | 2 shiny-1.6.0/shiny/man/selectInput.Rd | 8 shiny-1.6.0/shiny/man/session.Rd | 23 shiny-1.6.0/shiny/man/shiny-package.Rd | 2 shiny-1.6.0/shiny/man/shiny.appobj.Rd | 4 shiny-1.6.0/shiny/man/shinyApp.Rd | 2 shiny-1.6.0/shiny/man/shinyDeprecated.Rd | 17 shiny-1.6.0/shiny/man/shinyOptions.Rd | 73 shiny-1.6.0/shiny/man/shinyServer.Rd | 7 shiny-1.6.0/shiny/man/shinyUI.Rd | 2 shiny-1.6.0/shiny/man/stacktrace.Rd | 10 shiny-1.6.0/shiny/man/stopApp.Rd | 2 shiny-1.6.0/shiny/man/submitButton.Rd | 2 shiny-1.6.0/shiny/man/tabsetPanel.Rd | 2 shiny-1.6.0/shiny/man/testServer.Rd | 42 shiny-1.6.0/shiny/man/textOutput.Rd | 8 shiny-1.6.0/shiny/man/updateActionButton.Rd | 19 shiny-1.6.0/shiny/man/updateCheckboxGroupInput.Rd | 4 shiny-1.6.0/shiny/man/updateCheckboxInput.Rd | 11 shiny-1.6.0/shiny/man/updateDateInput.Rd | 9 shiny-1.6.0/shiny/man/updateDateRangeInput.Rd | 14 shiny-1.6.0/shiny/man/updateNumericInput.Rd | 12 shiny-1.6.0/shiny/man/updateRadioButtons.Rd | 43 shiny-1.6.0/shiny/man/updateSelectInput.Rd | 10 shiny-1.6.0/shiny/man/updateSliderInput.Rd | 42 shiny-1.6.0/shiny/man/updateTabsetPanel.Rd | 24 shiny-1.6.0/shiny/man/updateTextAreaInput.Rd | 10 shiny-1.6.0/shiny/man/updateTextInput.Rd | 10 shiny-1.6.0/shiny/man/viewer.Rd | 2 shiny-1.6.0/shiny/man/withProgress.Rd | 5 shiny-1.6.0/shiny/tests/test-helpers/app7-port |only shiny-1.6.0/shiny/tests/testthat/test-app.R | 58 shiny-1.6.0/shiny/tests/testthat/test-bind-cache.R |only shiny-1.6.0/shiny/tests/testthat/test-bind-event.R |only shiny-1.6.0/shiny/tests/testthat/test-bootstrap.r | 27 shiny-1.6.0/shiny/tests/testthat/test-built-files.R |only shiny-1.6.0/shiny/tests/testthat/test-devmode.R |only shiny-1.6.0/shiny/tests/testthat/test-hybrid-chain.R |only shiny-1.6.0/shiny/tests/testthat/test-input-select.R |only shiny-1.6.0/shiny/tests/testthat/test-input-slider.R |only shiny-1.6.0/shiny/tests/testthat/test-mock-session.R | 36 shiny-1.6.0/shiny/tests/testthat/test-options.R | 228 ++ shiny-1.6.0/shiny/tests/testthat/test-pkgdown.R | 13 shiny-1.6.0/shiny/tests/testthat/test-reactives.R |only shiny-1.6.0/shiny/tests/testthat/test-reactivity.r | 181 ++ shiny-1.6.0/shiny/tests/testthat/test-render-functions.R |only shiny-1.6.0/shiny/tests/testthat/test-stacks.R | 2 shiny-1.6.0/shiny/tests/testthat/test-test-server.R | 744 ++++----- shiny-1.6.0/shiny/tests/testthat/test-test.R | 49 shiny-1.6.0/shiny/tests/testthat/test-update-input.R | 1 shiny-1.6.0/shiny/tests/testthat/test-utils.R | 36 255 files changed, 5501 insertions(+), 5353 deletions(-)
Title: Parse Scientific Names
Description: Parse scientific names using 'gnparser'
(<https://github.com/gnames/gnparser>), written in Go. 'gnparser'
parses scientific names into their component parts; it utilizes
a Parsing Expression Grammar specifically for scientific names.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rgnparser versions 0.1.0 dated 2020-11-05 and 0.2.0 dated 2021-01-25
rgnparser-0.1.0/rgnparser/tests/testthat/test-gn_debug.R |only rgnparser-0.2.0/rgnparser/DESCRIPTION | 10 +- rgnparser-0.2.0/rgnparser/MD5 | 33 ++++----- rgnparser-0.2.0/rgnparser/NAMESPACE | 1 rgnparser-0.2.0/rgnparser/NEWS.md | 19 +++++ rgnparser-0.2.0/rgnparser/R/gn_debug.R | 36 +--------- rgnparser-0.2.0/rgnparser/R/gn_parse.R | 32 +++++--- rgnparser-0.2.0/rgnparser/R/gn_parse_tidy.R | 20 +++-- rgnparser-0.2.0/rgnparser/R/gn_version.R | 17 ++-- rgnparser-0.2.0/rgnparser/R/gnparser.R | 32 ++++++++ rgnparser-0.2.0/rgnparser/R/install_gnparser.R | 27 +++---- rgnparser-0.2.0/rgnparser/README.md | 8 +- rgnparser-0.2.0/rgnparser/man/gn_debug.Rd | 20 ----- rgnparser-0.2.0/rgnparser/man/gn_parse.Rd | 30 ++++++-- rgnparser-0.2.0/rgnparser/man/gn_parse_tidy.Rd | 19 ++++- rgnparser-0.2.0/rgnparser/man/install_gnparser.Rd | 16 ++-- rgnparser-0.2.0/rgnparser/tests/testthat/test-gn_parse.R | 4 - rgnparser-0.2.0/rgnparser/tests/testthat/test-gn_parse_tidy.R | 2 18 files changed, 188 insertions(+), 138 deletions(-)
Title: Basic Biological Sequence Handling
Description: Basic functions for microbial sequence data analysis. The idea is to use generic R data structures as much as possible, making R data wrangling possible also for sequence data.
Author: Lars Snipen, Kristian Hovde Liland
Maintainer: Lars Snipen <lars.snipen@nmbu.no>
Diff between microseq versions 2.1.2 dated 2020-07-05 and 2.1.4 dated 2021-01-25
DESCRIPTION | 10 ++++----- MD5 | 18 ++++++++--------- R/external.R | 51 ++++++++++++++++++++++++++++++++------------------ R/fasta.R | 5 ++-- R/fastq.R | 2 - R/gff.R | 3 ++ build/vignette.rds |binary inst/doc/vignette.pdf |binary man/findGenes.Rd | 18 ++++++++++++----- man/findrRNA.Rd | 8 +++---- 10 files changed, 71 insertions(+), 44 deletions(-)
Title: Segment Images in Text Lines and Words
Description: Find text lines in scanned images and segment the lines into words.
Includes implementations of the paper 'Novel A* Path Planning Algorithm for Line Segmentation of Handwritten Documents' by Surinta O. et al (2014) <doi:10.1109/ICFHR.2014.37> available at <https://github.com/smeucci/LineSegm>,
an implementation of 'A Statistical approach to line segmentation in handwritten documents' by Arivazhagan M. et al (2007) <doi:10.1117/12.704538>,
and a wrapper for an image segmentation technique to detect words in text lines as described in the paper 'Scale Space Technique for Word Segmentation in Handwritten Documents' by Manmatha R. and Srimal N. (1999) paper at <doi:10.1007/3-540-48236-9_3>, wrapper for code available at <https://github.com/arthurflor23/text-segmentation>.
Author: Jan Wijffels [aut, cre, cph] (R wrapper),
Vrije Universiteit Brussel - DIGI: Brussels Platform for Digital
Humanities [cph] (R wrapper),
Jeroen Ooms [ctb, cph] (More details in LICENSE.note file),
Arthur Flôr [ctb, cph] (More details in LICENSE.note file),
Saverio Meucci [ctb, cph] (More details in LICENSE.note file),
Yeara Kozlov [ctb, cph] (More details in LICENSE.note file),
Tino Weinkauf [ctb, cph] (More details in LICENSE.note file)
Maintainer: Jan Wijffels <jan.wijffels@vub.be>
Diff between image.textlinedetector versions 0.1.2 dated 2020-09-22 and 0.1.3 dated 2021-01-25
DESCRIPTION | 6 LICENSE | 2 LICENSE.note | 176 ++++++++--------- MD5 | 28 +- NAMESPACE | 24 +- NEWS.md | 34 +-- R/RcppExports.R | 110 +++++----- R/pkg.R | 10 R/textlinedetector.R | 442 +++++++++++++++++++++---------------------- README.md | 178 ++++++++--------- configure | 37 +-- man/image_textlines_astar.Rd | 116 +++++------ src/LineSegmentation.cpp | 11 - src/Makevars.win | 6 tools/winlibs.R | 20 - 15 files changed, 604 insertions(+), 596 deletions(-)
More information about image.textlinedetector at CRAN
Permanent link
Title: Manhattan, Q-Q, and PCA Plots using 'ggplot2'
Description: Generate Manhattan, Q-Q, and PCA plots from GWAS and PCA results using 'ggplot2'.
Author: Lindokuhle Nkambule [aut, cre]
(<https://orcid.org/0000-0002-5682-2834>)
Maintainer: Lindokuhle Nkambule <lindonkambule116@gmail.com>
Diff between gwaRs versions 0.1.0 dated 2021-01-21 and 0.2.0 dated 2021-01-25
DESCRIPTION | 6 ++-- MD5 | 36 +++++++++++++++---------- NAMESPACE | 1 NEWS.md |only R/mirrored_man_plot.R |only README.md |only inst/doc/gwaRs.Rmd | 36 ++++++++++++++++++++++++- inst/doc/gwaRs.html | 56 +++++++++++++++++++++++++++++++--------- man/mirrored_man_plot.Rd |only vignettes/figures/figure-1.png |binary vignettes/figures/figure-10.png |binary vignettes/figures/figure-11.png |only vignettes/figures/figure-12.png |only vignettes/figures/figure-2.png |binary vignettes/figures/figure-3.png |binary vignettes/figures/figure-4.png |binary vignettes/figures/figure-5.png |binary vignettes/figures/figure-6.png |binary vignettes/figures/figure-7.png |binary vignettes/figures/figure-8.png |binary vignettes/figures/figure-9.png |binary vignettes/gwaRs.Rmd | 36 ++++++++++++++++++++++++- 22 files changed, 137 insertions(+), 34 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' with support for SSH and
HTTPS remotes. All functions in 'gert' use basic R data types (such as vectors
and data-frames) for their arguments and return values. User credentials are
shared with command line 'git' through the git-credential store and ssh keys
stored on disk or ssh-agent. On Linux, a somewhat recent version of 'libgit2'
is required; we provide a 'PPA' for older Ubuntu 'LTS' versions.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>),
Jennifer Bryan [ctb] (<https://orcid.org/0000-0002-6983-2759>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gert versions 1.0.2 dated 2020-11-12 and 1.1.0 dated 2021-01-25
DESCRIPTION | 8 MD5 | 52 ++- NAMESPACE | 15 + NEWS | 11 R/certs.R |only R/credentials.R | 12 R/init.R | 16 + R/merge.R | 2 R/submodules.R |only configure | 17 - inst/WORDLIST | 1 inst/doc/gert.html | 609 +++++++++++++++--------------------------- man/git_submodule.Rd |only src/branch.c | 13 src/clone.c | 61 +--- src/commit.c | 19 - src/config.c | 4 src/conflicts.c | 4 src/files.c | 12 src/init.c | 140 +++++---- src/rebase.c | 8 src/stash.c | 1 src/submodules.c |only src/tag.c | 4 src/utils.c | 2 src/utils.h | 11 src/version.c | 25 + tests/libgit2.R |only tests/libgit2.Rout.save |only tests/testthat/test-remotes.R | 1 30 files changed, 502 insertions(+), 546 deletions(-)
Title: Plot Shipboard DAS Data
Description: A utility program oriented to create maps, plot data, and do basic data summaries
of 'DAS' data <https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-305.PDF>
produced by 'WinCruz' from the Southwest Fisheries Science Center.
<https://www.fisheries.noaa.gov/west-coast/science-data/california-current-marine-mammal-assessment-program>.
Author: Sam Woodman [aut, cre] (<https://orcid.org/0000-0001-6071-8186>),
Tim Gerrodette [aut]
Maintainer: Sam Woodman <sam.woodman@noaa.gov>
Diff between CruzPlot versions 1.4.3 dated 2021-01-11 and 1.4.4 dated 2021-01-25
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ inst/shiny/server_1_map/cruzMapColorGrid.R | 24 +++++++++++++++++++++++- inst/shiny/server_files/server_reactiveValues.R | 1 + inst/shiny/ui_files/ui_createMap.R | 7 ++++--- tests/testthat/test-spatial.R | 11 ----------- 7 files changed, 44 insertions(+), 24 deletions(-)
Title: Fits Data into 4-Parameters Weibull Distribution
Description: Performs a curve fit to 4-parameters Weibull distribution using Metropolis algorithm - Markov chain-Monte Carlo method. Special usage for fitting COVID-19 epidemic data on daily new cases and deaths. Also, builds the 4-parameters Weibull distribution curve using given parameters (shape, scale, location and area).
Author: Vitor Hugo Moreau
Maintainer: Vitor Hugo Moreau <vitorhmc@ufba.br>
Diff between weibull4 versions 0.1.0 dated 2020-09-17 and 1.0.0 dated 2021-01-25
weibull4-0.1.0/weibull4/data/worldCOVID.rda |only weibull4-0.1.0/weibull4/man/worldCOVID.Rd |only weibull4-1.0.0/weibull4/DESCRIPTION | 8 - weibull4-1.0.0/weibull4/MD5 | 23 ++- weibull4-1.0.0/weibull4/R/weibull4.r | 141 +++++++++++++++++---- weibull4-1.0.0/weibull4/data/Brazil_COVID.rda |only weibull4-1.0.0/weibull4/data/Canada_COVID.rda |only weibull4-1.0.0/weibull4/data/US_COVID.rda |only weibull4-1.0.0/weibull4/man/Brazil_COVID.Rd |only weibull4-1.0.0/weibull4/man/Canada_COVID.Rd |only weibull4-1.0.0/weibull4/man/US_COVID.Rd |only weibull4-1.0.0/weibull4/man/likelihood.Rd | 5 weibull4-1.0.0/weibull4/man/posterior.Rd | 5 weibull4-1.0.0/weibull4/man/run_metropolis_MCMC.Rd | 5 weibull4-1.0.0/weibull4/man/weibull4.Rd | 80 +++++++++-- weibull4-1.0.0/weibull4/man/weibull4.build.Rd |only weibull4-1.0.0/weibull4/man/weibull4.fit.Rd | 45 +++++- 17 files changed, 244 insertions(+), 68 deletions(-)
Title: Fast Data Structures
Description: Fast implementation of data structures, including a key-value
store, stack, and queue. Environments are commonly used as key-value stores
in R, but every time a new key is used, it is added to R's global symbol
table, causing a small amount of memory leakage. This can be problematic in
cases where many different keys are used. Fastmap avoids this memory leak
issue by implementing the map using data structures in C++.
Author: Winston Chang [aut, cre],
RStudio [cph, fnd],
Tessil [cph] (hopscotch_map library)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between fastmap versions 1.0.1 dated 2019-10-08 and 1.1.0 dated 2021-01-25
DESCRIPTION | 21 +++---- MD5 | 24 +++++--- NAMESPACE | 2 NEWS.md | 7 ++ R/fastmap.R | 2 R/fastqueue.R |only R/faststack.R |only README.md | 113 ++++++++++++++++++++++++++++++++++++--- man/fastmap.Rd | 94 ++++++++++++++++---------------- man/fastqueue.Rd |only man/faststack.Rd |only tests/testthat/helpers-fastmap.R | 7 +- tests/testthat/test-map.R | 8 +- tests/testthat/test-queue.R |only tests/testthat/test-shrink.R | 8 +- tests/testthat/test-stack.R |only 16 files changed, 201 insertions(+), 85 deletions(-)
Title: The Metalog Distribution
Description: Implementation of the metalog distribution in R.
The metalog distribution is a modern, highly flexible, data-driven distribution.
Metalogs are developed by Keelin (2016) <doi:10.1287/deca.2016.0338>.
This package provides functions to build these distributions from raw data.
Resulting metalog objects are then useful for exploratory and probabilistic analysis.
Author: Isaac Faber [aut, cre] (<https://orcid.org/0000-0002-4478-9598>),
Jongbin Jung [aut]
Maintainer: Isaac Faber <isaacfab@gmail.com>
Diff between rmetalog versions 1.0.2 dated 2020-03-10 and 1.0.3 dated 2021-01-25
DESCRIPTION | 10 MD5 | 26 - NAMESPACE | 1 NEWS.md | 19 - R/hdr.R |only R/metalog.R | 2 R/support.R | 641 +++++++++++++++++++------------------- README.md | 390 +++++++++++------------ build/vignette.rds |binary inst/doc/rmetalog-vignette.R | 70 ++-- inst/doc/rmetalog-vignette.Rmd | 200 ++++++------ inst/doc/rmetalog-vignette.html | 664 ++++++++++++++-------------------------- man/fishSize.Rd | 6 man/rHDR.Rd |only vignettes/rmetalog-vignette.Rmd | 200 ++++++------ 15 files changed, 1034 insertions(+), 1195 deletions(-)
Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel
modeling. Includes a user-friendly interface to the packages 'pan' and 'jomo',
and several functions for visualization, data management and the analysis
of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <grund@ipn.uni-kiel.de>
Diff between mitml versions 0.3-7 dated 2019-01-07 and 0.4-0 dated 2021-01-25
mitml-0.3-7/mitml/R/internal-getCOEF.R |only mitml-0.3-7/mitml/R/internal-getLR.R |only mitml-0.3-7/mitml/R/internal-getVC.R |only mitml-0.4-0/mitml/DESCRIPTION | 14 mitml-0.4-0/mitml/MD5 | 179 +++---- mitml-0.4-0/mitml/NAMESPACE | 104 +++- mitml-0.4-0/mitml/NEWS | 20 mitml-0.4-0/mitml/R/amelia2mitml.list.R | 5 mitml-0.4-0/mitml/R/anova.mitml.result.R | 212 +++++--- mitml-0.4-0/mitml/R/as.mitml.list.R | 9 mitml-0.4-0/mitml/R/c.mitml.list.R | 4 mitml-0.4-0/mitml/R/cbind.mitml.list.R | 2 mitml-0.4-0/mitml/R/clusterMeans.R | 11 mitml-0.4-0/mitml/R/confint.mitml.testEstimates.R | 14 mitml-0.4-0/mitml/R/internal-convergence.R | 24 mitml-0.4-0/mitml/R/internal-methods-estimates.R |only mitml-0.4-0/mitml/R/internal-methods-likelihood.R |only mitml-0.4-0/mitml/R/internal-methods-zzz.R |only mitml-0.4-0/mitml/R/internal-model.R | 144 ++--- mitml-0.4-0/mitml/R/internal-pool.R |only mitml-0.4-0/mitml/R/internal-zzz.R | 119 ++++ mitml-0.4-0/mitml/R/is.mitml.list.R | 5 mitml-0.4-0/mitml/R/jomo2mitml.list.R | 2 mitml-0.4-0/mitml/R/jomoImpute.R | 338 ++++++------- mitml-0.4-0/mitml/R/long2mitml.list.R | 17 mitml-0.4-0/mitml/R/mids2mitml.list.R | 9 mitml-0.4-0/mitml/R/mitmlComplete.R | 56 +- mitml-0.4-0/mitml/R/multilevelR2.R | 82 +-- mitml-0.4-0/mitml/R/panImpute.R | 122 ++-- mitml-0.4-0/mitml/R/plot.mitml.R | 475 +++++++++---------- mitml-0.4-0/mitml/R/print.mitml.R | 34 - mitml-0.4-0/mitml/R/print.mitml.anova.R | 71 +- mitml-0.4-0/mitml/R/print.mitml.summary.R | 95 +-- mitml-0.4-0/mitml/R/print.mitml.testConstraints.R | 76 +-- mitml-0.4-0/mitml/R/print.mitml.testEstimates.R | 64 +- mitml-0.4-0/mitml/R/print.mitml.testModels.R | 79 ++- mitml-0.4-0/mitml/R/rbind.mitml.list.R | 2 mitml-0.4-0/mitml/R/read.mitml.R | 4 mitml-0.4-0/mitml/R/sort.mitml.list.R | 8 mitml-0.4-0/mitml/R/subset.mitml.list.R | 2 mitml-0.4-0/mitml/R/summary.mitml.R | 68 +- mitml-0.4-0/mitml/R/testConstraints.R | 233 ++++----- mitml-0.4-0/mitml/R/testEstimates.R | 280 +++++------ mitml-0.4-0/mitml/R/testModels.R | 425 ++++++----------- mitml-0.4-0/mitml/R/with.mitml.list.R | 22 mitml-0.4-0/mitml/R/within.mitml.list.R | 9 mitml-0.4-0/mitml/R/write.mitml.R | 7 mitml-0.4-0/mitml/R/write.mitmlMplus.R | 53 +- mitml-0.4-0/mitml/R/write.mitmlSAV.R | 22 mitml-0.4-0/mitml/R/write.mitmlSPSS.R | 88 +-- mitml-0.4-0/mitml/R/zzz.R | 6 mitml-0.4-0/mitml/build/vignette.rds |binary mitml-0.4-0/mitml/inst/doc/Analysis.R | 20 mitml-0.4-0/mitml/inst/doc/Analysis.Rmd | 26 - mitml-0.4-0/mitml/inst/doc/Analysis.html | 399 ++++----------- mitml-0.4-0/mitml/inst/doc/Introduction.R | 9 mitml-0.4-0/mitml/inst/doc/Introduction.Rmd | 9 mitml-0.4-0/mitml/inst/doc/Introduction.html | 303 ++---------- mitml-0.4-0/mitml/inst/doc/Level2.R | 2 mitml-0.4-0/mitml/inst/doc/Level2.Rmd | 4 mitml-0.4-0/mitml/inst/doc/Level2.html | 313 +++--------- mitml-0.4-0/mitml/man/amelia2mitml.list.Rd | 2 mitml-0.4-0/mitml/man/anova.mitml.result.Rd | 47 + mitml-0.4-0/mitml/man/as.mitml.list.Rd | 12 mitml-0.4-0/mitml/man/c.mitml.list.Rd | 26 - mitml-0.4-0/mitml/man/clusterMeans.Rd | 28 - mitml-0.4-0/mitml/man/confint.mitml.testEstimates.Rd | 14 mitml-0.4-0/mitml/man/is.mitml.list.Rd | 12 mitml-0.4-0/mitml/man/jomoImpute.Rd | 116 ++-- mitml-0.4-0/mitml/man/justice.Rd | 4 mitml-0.4-0/mitml/man/leadership.Rd | 7 mitml-0.4-0/mitml/man/long2mitml.list.Rd | 34 - mitml-0.4-0/mitml/man/mids2mitml.list.Rd | 10 mitml-0.4-0/mitml/man/mitml-package.Rd | 20 mitml-0.4-0/mitml/man/mitmlComplete.Rd | 34 - mitml-0.4-0/mitml/man/multilevelR2.Rd | 17 mitml-0.4-0/mitml/man/panImpute.Rd | 94 +-- mitml-0.4-0/mitml/man/plot.mitml.Rd | 48 - mitml-0.4-0/mitml/man/read.mitml.Rd | 14 mitml-0.4-0/mitml/man/sort.mitml.list.Rd | 22 mitml-0.4-0/mitml/man/studentratings.Rd | 6 mitml-0.4-0/mitml/man/subset.mitml.list.Rd | 16 mitml-0.4-0/mitml/man/summary.mitml.Rd | 32 - mitml-0.4-0/mitml/man/testConstraints.Rd | 83 +-- mitml-0.4-0/mitml/man/testEstimates.Rd | 53 +- mitml-0.4-0/mitml/man/testModels.Rd | 107 ++-- mitml-0.4-0/mitml/man/with.mitml.list.Rd | 64 +- mitml-0.4-0/mitml/man/write.mitml.Rd | 18 mitml-0.4-0/mitml/man/write.mitmlMplus.Rd | 15 mitml-0.4-0/mitml/man/write.mitmlSAV.Rd | 12 mitml-0.4-0/mitml/man/write.mitmlSPSS.Rd | 33 - mitml-0.4-0/mitml/vignettes/Analysis.Rmd | 26 - mitml-0.4-0/mitml/vignettes/Introduction.Rmd | 9 mitml-0.4-0/mitml/vignettes/Level2.Rmd | 4 94 files changed, 2763 insertions(+), 2976 deletions(-)
Title: Sign-Simplicity-Regression-Solver
Description: Implementation of the SSR-Algorithm. The Sign-Simplicity-Regression model is a nonparametric statistical model which is based on residual signs and simplicity assumptions on the regression function. Goal is to calculate the most parsimonious regression function satisfying the statistical adequacy requirements. Theory and functions are specified in Metzner (2020, ISBN: 9798682394203, "Trendbasierte Prognostik") and Metzner (2021, ISBN: 9798593470270, "Adäquates Maschinelles Lernen").
Author: Lars Metzner [aut, cre]
Maintainer: Lars Metzner <lars.metzner@ppi.de>
Diff between sisireg versions 0.8.0 dated 2021-01-22 and 0.8.1 dated 2021-01-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NAMESPACE | 2 +- man/ssr.Rd | 2 +- src/ssr.c | 4 ++-- 5 files changed, 11 insertions(+), 11 deletions(-)
Title: 'vcd' Extensions and Additions
Description: Provides additional data sets, methods and documentation to complement the 'vcd' package for Visualizing Categorical Data
and the 'gnm' package for Generalized Nonlinear Models.
In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and
adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of
'glm' and 'loglm' objects. This package is now a support package for the book, "Discrete Data Analysis with R" by
Michael Friendly and David Meyer.
Author: Michael Friendly [aut, cre],
Heather Turner [ctb],
Achim Zeileis [ctb],
Duncan Murdoch [ctb],
David Firth [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between vcdExtra versions 0.7-1 dated 2017-09-29 and 0.7-5 dated 2021-01-25
vcdExtra-0.7-1/vcdExtra/inst/doc/extdata |only vcdExtra-0.7-5/vcdExtra/DESCRIPTION | 16 +- vcdExtra-0.7-5/vcdExtra/MD5 | 143 ++++++++++----------- vcdExtra-0.7-5/vcdExtra/NEWS | 16 ++ vcdExtra-0.7-5/vcdExtra/R/datasets.R | 36 +++-- vcdExtra-0.7-5/vcdExtra/R/expand.dft.R | 2 vcdExtra-0.7-5/vcdExtra/README.md | 19 ++ vcdExtra-0.7-5/vcdExtra/build/partial.rdb |only vcdExtra-0.7-5/vcdExtra/build/vignette.rds |binary vcdExtra-0.7-5/vcdExtra/data/Abortion.rda |binary vcdExtra-0.7-5/vcdExtra/data/Accident.RData |binary vcdExtra-0.7-5/vcdExtra/data/AirCrash.RData |binary vcdExtra-0.7-5/vcdExtra/data/Alligator.RData |binary vcdExtra-0.7-5/vcdExtra/data/Bartlett.rda |binary vcdExtra-0.7-5/vcdExtra/data/Burt.RData |binary vcdExtra-0.7-5/vcdExtra/data/Caesar.rda |binary vcdExtra-0.7-5/vcdExtra/data/Cancer.rda |binary vcdExtra-0.7-5/vcdExtra/data/Cormorants.RData |binary vcdExtra-0.7-5/vcdExtra/data/CyclingDeaths.RData |binary vcdExtra-0.7-5/vcdExtra/data/DaytonSurvey.RData |binary vcdExtra-0.7-5/vcdExtra/data/Depends.RData |binary vcdExtra-0.7-5/vcdExtra/data/Detergent.rda |binary vcdExtra-0.7-5/vcdExtra/data/Donner.RData |binary vcdExtra-0.7-5/vcdExtra/data/Draft1970.RData |binary vcdExtra-0.7-5/vcdExtra/data/Draft1970table.RData |binary vcdExtra-0.7-5/vcdExtra/data/Dyke.rda |binary vcdExtra-0.7-5/vcdExtra/data/Fungicide.rda |binary vcdExtra-0.7-5/vcdExtra/data/GSS.rda |binary vcdExtra-0.7-5/vcdExtra/data/Geissler.RData |binary vcdExtra-0.7-5/vcdExtra/data/Gilby.rda |binary vcdExtra-0.7-5/vcdExtra/data/Glass.RData |binary vcdExtra-0.7-5/vcdExtra/data/HairEyePlace.RData |binary vcdExtra-0.7-5/vcdExtra/data/Hauser79.RData |binary vcdExtra-0.7-5/vcdExtra/data/Heart.rda |binary vcdExtra-0.7-5/vcdExtra/data/Heckman.rda |binary vcdExtra-0.7-5/vcdExtra/data/HospVisits.RData |binary vcdExtra-0.7-5/vcdExtra/data/Hoyt.rda |binary vcdExtra-0.7-5/vcdExtra/data/ICU.RData |binary vcdExtra-0.7-5/vcdExtra/data/JobSat.rda |binary vcdExtra-0.7-5/vcdExtra/data/Mammograms.RData |binary vcdExtra-0.7-5/vcdExtra/data/Mental.rda |binary vcdExtra-0.7-5/vcdExtra/data/Mice.RData |binary vcdExtra-0.7-5/vcdExtra/data/Mobility.rda |binary vcdExtra-0.7-5/vcdExtra/data/PhdPubs.RData |binary vcdExtra-0.7-5/vcdExtra/data/ShakeWords.RData |binary vcdExtra-0.7-5/vcdExtra/data/TV.rda |binary vcdExtra-0.7-5/vcdExtra/data/Titanicp.rda |binary vcdExtra-0.7-5/vcdExtra/data/Toxaemia.RData |binary vcdExtra-0.7-5/vcdExtra/data/Vietnam.RData |binary vcdExtra-0.7-5/vcdExtra/data/Vietnam.rda |binary vcdExtra-0.7-5/vcdExtra/data/Vote1980.RData |binary vcdExtra-0.7-5/vcdExtra/data/WorkerSat.RData |binary vcdExtra-0.7-5/vcdExtra/data/Yamaguchi87.RData |binary vcdExtra-0.7-5/vcdExtra/inst/doc/vcd-tutorial.R | 2 vcdExtra-0.7-5/vcdExtra/inst/doc/vcd-tutorial.Rnw | 2 vcdExtra-0.7-5/vcdExtra/inst/doc/vcd-tutorial.pdf |binary vcdExtra-0.7-5/vcdExtra/inst/extdata |only vcdExtra-0.7-5/vcdExtra/man/AirCrash.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/Cormorants.Rd | 24 +-- vcdExtra-0.7-5/vcdExtra/man/CyclingDeaths.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/Depends.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/Donner.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/Draft1970.Rd | 4 vcdExtra-0.7-5/vcdExtra/man/Draft1970table.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/PhdPubs.Rd | 17 +- vcdExtra-0.7-5/vcdExtra/man/Titanicp.Rd | 4 vcdExtra-0.7-5/vcdExtra/man/WorkerSat.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/logseries.Rd | 2 vcdExtra-0.7-5/vcdExtra/man/mosaic.glmlist.Rd | 3 vcdExtra-0.7-5/vcdExtra/man/mosaic3d.Rd | 4 vcdExtra-0.7-5/vcdExtra/man/seq_mosaic.Rd | 1 vcdExtra-0.7-5/vcdExtra/man/vcdExtra-package.Rd | 4 vcdExtra-0.7-5/vcdExtra/man/zero.test.Rd | 4 vcdExtra-0.7-5/vcdExtra/vignettes/vcd-tutorial.Rnw | 2 74 files changed, 186 insertions(+), 131 deletions(-)
Title: Simple Imputation
Description: Easy to use interfaces to a number of imputation methods
that fit in the not-a-pipe operator of the 'magrittr' package.
Author: Mark van der Loo [aut, cre]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between simputation versions 0.2.5 dated 2021-01-11 and 0.2.6 dated 2021-01-25
DESCRIPTION | 6 +-- MD5 | 12 +++---- NEWS | 4 ++ R/hotdeck.R | 6 ++- inst/doc/intro.html | 78 +++++------------------------------------------- inst/tinytest/test_hd.R | 2 - man/impute_hotdeck.Rd | 4 +- 7 files changed, 30 insertions(+), 82 deletions(-)
Title: Internet Memes for Data Analysts
Description: Generates internet memes that optionally include a superimposed inset plot and other atypical features,
combining the visual impact of an attention-grabbing meme with graphic results of data analysis.
The package differs from related packages that focus on imitating and reproducing standard memes.
Some packages do this by interfacing with online meme generators whereas others achieve this natively.
This package takes the latter approach. It does not interface with online meme generators or require any authentication with external websites.
It reads images directly from local files or via URL and meme generation is done by the package.
While this is similar to the 'meme' package available on CRAN, it differs in that the focus is on
allowing for non-standard meme layouts and hybrids of memes mixed with graphs.
While this package can be used to make basic memes like an online meme generator would produce,
it caters primarily to hybrid graph-meme plots where the meme presentation can be seen as a backdrop highlighting
foreground graphs of data analysis results.
The package also provides support for an arbitrary number of meme text labels with arbitrary size, position and other attributes
rather than restricting to the standard top and/or bottom text placement.
This is useful for proper aesthetic interleaving of plots of data between meme image backgrounds and overlain text labels.
The package offers a selection of templates for graph placement and appearance with respect to the underlying meme.
Graph templates also permit additional template-specific customization.
Animated gif support is provided but this is optional and functional only if the 'magick' package is installed.
'magick' is not required unless gif functionality is desired.
Author: Matthew Leonawicz [aut, cre]
Maintainer: Matthew Leonawicz <mfleonawicz@gmail.com>
Diff between memery versions 0.5.2 dated 2019-04-19 and 0.5.3 dated 2021-01-25
memery-0.5.2/memery/tests/testthat/test-lintr.R |only memery-0.5.3/memery/DESCRIPTION | 14 memery-0.5.3/memery/MD5 | 33 - memery-0.5.3/memery/NEWS.md | 4 memery-0.5.3/memery/R/meme.R | 15 memery-0.5.3/memery/build/vignette.rds |binary memery-0.5.3/memery/inst/doc/memery.R | 65 +-- memery-0.5.3/memery/inst/doc/memery.Rmd | 34 - memery-0.5.3/memery/inst/doc/memery.html | 453 ++++++++++++++++++------ memery-0.5.3/memery/man/car_shiny.Rd | 125 +++--- memery-0.5.3/memery/man/inset.Rd | 168 ++++---- memery-0.5.3/memery/man/meme.Rd | 405 +++++++++++---------- memery-0.5.3/memery/man/memeApp.Rd | 62 +-- memery-0.5.3/memery/man/memery.Rd | 61 +-- memery-0.5.3/memery/man/memetheme.Rd | 42 +- memery-0.5.3/memery/man/text_position.Rd | 54 +- memery-0.5.3/memery/tests/testthat/test-meme.R | 27 - memery-0.5.3/memery/vignettes/memery.Rmd | 34 - 18 files changed, 921 insertions(+), 675 deletions(-)
Title: Retrieves Gene Expression Dataset and Gene Symbols from GEO Code
Description: A function that reads in the GEO code of a gene expression dataset, retrieves its data from GEO, (optional) retrieves the gene symbols of the dataset, and returns a simple dataframe table containing all the data. Platforms available: GPL11532, GPL23126, GPL6244, GPL80, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>.
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Diff between geneExpressionFromGEO versions 0.3 dated 2020-11-17 and 0.4 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/geneExpressionFromGEO.r | 13 ++++++++++++- build/vignette.rds |binary 4 files changed, 19 insertions(+), 8 deletions(-)
More information about geneExpressionFromGEO at CRAN
Permanent link
Title: Accelerated Bayesian Analytics with DAGs
Description: Accelerate Bayesian analytics workflows in 'R' through interactive modelling,
visualization, and inference. Define probabilistic graphical models using directed
acyclic graphs (DAGs) as a unifying language for business stakeholders, statisticians,
and programmers. This package relies on the sleek and elegant 'greta' package for
Bayesian inference. 'greta', in turn, is an interface into 'TensorFlow' from 'R'.
Install 'greta' using instructions available here: <https://www.causact.com/install-tensorflow-greta-and-causact.html>.
See <https://github.com/flyaflya/causact> or <https://www.causact.com/> for more documentation.
Author: Adam Fleischhacker [aut, cre, cph],
Daniela Dapena [ctb],
Rose Nguyen [ctb],
Jared Sharpe [ctb]
Maintainer: Adam Fleischhacker <ajf@udel.edu>
Diff between causact versions 0.3.3 dated 2020-07-25 and 0.4.0 dated 2021-01-25
DESCRIPTION | 12 ++--- MD5 | 28 ++++++------ NAMESPACE | 29 ++++++++++++ NEWS.md | 7 +++ R/dag_greta.R | 13 ++++- R/dag_node.R | 2 R/dagp_plot.R | 6 +- R/data.R | 4 - R/utils.R | 53 ++++++++++++++++++++++- README.md | 85 ++++++++++++++++++++++++++++++-------- man/corruptDF.Rd | 2 man/figures/chimpsGraphPost-1.png |binary man/figures/gretaPost-1.png |binary man/figures/mixture.png |only man/figures/mixturePost.png |only man/totalBeachgoersRepSample.Rd | 4 - 16 files changed, 196 insertions(+), 49 deletions(-)
Title: Robustness Checks for Omitted Variable Bias
Description: Robustness checks for omitted variable bias. The package includes robustness checks proposed by Oster (2019). robomit the estimate i) the bias-adjusted treatment correlation or effect and ii) the degree of selection on unobservables relative to observables (with respect to the treatment variable) that would be necessary to eliminate the result based on the framework by Oster (2019). Additionally, robomit offers a set of sensitivity analysis and visualization functions. See: Oster, E. 2019. <doi:10.1080/07350015.2016.1227711>.
Author: Sergei Schaub [aut, cre] (<https://orcid.org/0000-0001-8477-3737>),
ETH Zurich [cph]
Maintainer: Sergei Schaub <seschaub@ethz.ch>
Diff between robomit versions 1.0.3 dated 2020-09-15 and 1.0.5 dated 2021-01-25
DESCRIPTION | 10 LICENSE | 1 MD5 | 30 R/robomit_functions.R | 2837 ++++++++++++++---------------------------------- man/o_beta.Rd | 121 +- man/o_beta_boot.Rd | 146 +- man/o_beta_boot_inf.Rd | 152 +- man/o_beta_boot_viz.Rd | 178 +-- man/o_beta_rsq.Rd | 114 - man/o_beta_rsq_viz.Rd | 116 - man/o_delta.Rd | 120 +- man/o_delta_boot.Rd | 146 +- man/o_delta_boot_inf.Rd | 152 +- man/o_delta_boot_viz.Rd | 178 +-- man/o_delta_rsq.Rd | 114 - man/o_delta_rsq_viz.Rd | 114 - 16 files changed, 1738 insertions(+), 2791 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut, cre],
Adam Banker [aut],
Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Diff between paws.common versions 0.3.7 dated 2021-01-18 and 0.3.8 dated 2021-01-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 ++++++ R/net.R | 4 ++-- 4 files changed, 14 insertions(+), 8 deletions(-)
Title: Grammar for Creating R Markdown Reports
Description: A system for creating beautiful and interactive R Markdown reports
by adding modules like plots and tables to an empty header.
Author: Philippe Heymans Smith [aut, cre]
Maintainer: Philippe Heymans Smith <pheymanss@gmail.com>
Diff between chronicle versions 0.2.0 dated 2021-01-25 and 0.2.1 dated 2021-01-25
DESCRIPTION | 8 +-- MD5 | 28 ++++++------- R/barplots.R | 2 R/boxplots.R | 2 R/densities.R | 2 R/dygraphs.R | 2 R/enchunk.R | 2 R/histograms.R | 2 R/lineplots.R | 2 R/report_interface.R | 14 ++++-- R/scatterplots.R | 2 R/tables.R | 5 -- R/text.R | 8 +-- R/violins.R | 2 README.md | 109 ++++++++++++++++++--------------------------------- 15 files changed, 81 insertions(+), 109 deletions(-)
Title: Bayesian Additive Models for Location, Scale, and Shape (and
Beyond)
Description: Infrastructure for estimating probabilistic distributional regression models in a Bayesian framework.
The distribution parameters may capture location, scale, shape, etc. and every parameter may depend
on complex additive terms (fixed, random, smooth, spatial, etc.) similar to a generalized additive model.
The conceptual and computational framework is introduced in Umlauf, Klein, Zeileis (2019)
<doi:10.1080/10618600.2017.1407325> and the R package in Umlauf, Klein, Simon, Zeileis (2019)
<arXiv:1909.11784>.
Author: Nikolaus Umlauf [aut, cre] (<https://orcid.org/0000-0003-2160-9803>),
Nadja Klein [aut] (<https://orcid.org/0000-0002-5072-5347>),
Achim Zeileis [aut] (<https://orcid.org/0000-0003-0918-3766>),
Meike Koehler [ctb],
Thorsten Simon [aut] (<https://orcid.org/0000-0002-3778-7738>),
Stanislaus Stadlmann [ctb]
Maintainer: Nikolaus Umlauf <Nikolaus.Umlauf@uibk.ac.at>
Diff between bamlss versions 1.1-2 dated 2020-02-19 and 1.1-3 dated 2021-01-25
DESCRIPTION | 28 MD5 | 122 + NAMESPACE | 29 NEWS.md | 14 R/BAMLSS.R | 521 ++++++-- R/BayesX.R | 2 R/JAGS.R | 2 R/JM.R | 12 R/families.R | 659 +++++++++- R/optimizers.R | 384 +++-- R/samplers.R | 28 R/stabsel.R | 49 R/survival.R | 9 build/partial.rdb |binary build/vignette.rds |binary data/Austria.rda |binary data/GEFCom2014.rda |only data/fatalities.rda |only inst/doc/bamlss.Rmd | 6 inst/doc/bamlss.html | 2113 ++++++++++++++++++++++++++------- man/Austria.Rd | 23 man/BayesX.Rd | 33 man/CRPS.Rd |only man/GEFCom2014.Rd |only man/GMCMC.Rd | 13 man/Golf.Rd | 2 man/JAGS.Rd | 24 man/LondonFire.Rd | 14 man/MVNORM.Rd | 14 man/Surv2.Rd | 4 man/WAIC.Rd | 11 man/bamlss-package.Rd | 4 man/bamlss.Rd | 10 man/bbfit.Rd | 11 man/bfit.Rd | 42 man/boost.Rd | 55 man/continue.Rd | 2 man/cox.mcmc.Rd | 13 man/cox.mode.Rd | 13 man/cox.predict.Rd | 12 man/engines.Rd |only man/family.bamlss.Rd | 18 man/fatalities.Rd |only man/gamlss_distributions.Rd |only man/isgd.Rd | 15 man/jm_bamlss.Rd | 27 man/kr.Rd | 2 man/lasso.Rd | 26 man/parameters.Rd | 2 man/plot.bamlss.Rd | 2 man/plot3d.Rd | 2 man/residuals.bamlss.Rd | 9 man/s2.Rd | 2 man/simJM.Rd | 2 man/simSurv.Rd | 2 man/sliceplot.Rd | 2 man/smooth.construct.ms.smooth.spec.Rd | 2 man/sr.Rd | 2 man/stabsel.Rd | 4 man/summary.bamlss.Rd | 2 man/surv.transform.Rd | 2 vignettes/bamlss.Rmd | 6 vignettes/bamlss.bib | 4 vignettes/glm_files |only 64 files changed, 3447 insertions(+), 964 deletions(-)
Title: Revisiting Base Rapply
Description: The minimal 'rrapply'-package contains a single function rrapply(), providing an extended implementation of 'R'-base rapply() by allowing to recursively apply a function to elements of a nested list based on a general condition function and including the possibility to prune or aggregate nested list elements from the result. In addition, special arguments can be supplied to access the name, location, parents and siblings in the nested list of the element under evaluation. The rrapply() function builds upon rapply()'s native 'C' implementation and requires no other package dependencies.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <joris.chau@openanalytics.eu>
Diff between rrapply versions 1.2.1 dated 2020-11-07 and 1.2.2 dated 2021-01-25
DESCRIPTION | 8 MD5 | 32 NEWS.md | 12 R/data.R | 30 R/rrapply.R | 121 ++- README.md | 164 +++- data/pokedex.rda |only inst/doc/rrapply.R | 131 ++- inst/doc/rrapply.Rnw | 56 + inst/doc/rrapply.pdf |binary inst/unit_tests/unit_test_rrapply.R | 326 ++++++--- man/pokedex.Rd |only man/rrapply.Rd | 64 + src/flatten.c |only src/list.c |only src/rrapply.c | 1302 ++++++++++-------------------------- src/rrapply.h |only src/unmelt.c | 41 - src/utils.c |only vignettes/rrapply.Rnw | 56 + 20 files changed, 1102 insertions(+), 1241 deletions(-)
Title: Stochastic Island Biogeography Theory Made Easy
Description: Tools to develop stochastic models based on the Theory of Island
Biogeography (TIB) of MacArthur and Wilson (1967) <DOI:10.1023/A:1016393430551>
and extensions. The package implements methods to estimate colonization and
extinction rates (including environmental variables) given presence-absence
data, simulate community assembly, and perform model selection.
Author: Vicente Jimenez [aut, cre],
David Alonso [aut]
Maintainer: Vicente Jimenez <vicente.jimenez.ontiveros@gmail.com>
Diff between island versions 0.2.6 dated 2020-12-07 and 0.2.7 dated 2021-01-25
DESCRIPTION | 8 - MD5 | 51 ++++++------ NEWS.md | 4 R/island.R | 4 R/simberloff.R | 8 - build/partial.rdb |only build/vignette.rds |binary configure.ac | 4 inst/doc/IBDmodels.R | 8 - inst/doc/IBDmodels.html | 28 ++++-- inst/doc/detectability.R | 8 - inst/doc/detectability.html | 26 +++--- inst/doc/island.R | 34 ++++---- inst/doc/island.html | 155 ++++++++++++++++++------------------- man/all_environmental_fit.Rd | 3 man/alonso15.Rd | 6 - man/idaho.Rd | 6 - man/irregular_multiple_datasets.Rd | 16 +++ man/irregular_single_dataset.Rd | 16 +++ man/island.Rd | 5 - man/lakshadweep.Rd | 6 - man/lakshadweepPLUS.Rd | 6 - man/mss_cedp.Rd | 35 ++++++-- man/regular_sampling_scheme.Rd | 3 man/simberloff.Rd | 14 +-- man/sss_cedp.Rd | 31 ++++++- man/upgma_model_selection.Rd | 34 ++++++-- 27 files changed, 316 insertions(+), 203 deletions(-)
More information about RcmdrPlugin.DCE at CRAN
Permanent link
Title: Create Reports Using R and 'asciidoc'
Description: Inspired by Karl Broman`s reader on using 'knitr'
with 'asciidoc'
(<http://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is
merely a wrapper to 'knitr' and 'asciidoc'.
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between rasciidoc versions 3.0.0 dated 2020-11-30 and 3.0.1 dated 2021-01-25
DESCRIPTION | 9 - MD5 | 23 +- NAMESPACE | 1 NEWS.md | 7 R/internals.R | 8 R/is_version_sufficient.R |only R/utils.R | 2 inst/doc/An_Introduction_to_rasciidoc.R | 2 inst/doc/An_Introduction_to_rasciidoc.Rasciidoc | 6 inst/doc/An_Introduction_to_rasciidoc.html | 191 +++++++++++++++++------ inst/files/minimal/plot.Rasciidoc |only inst/files/minimal/plot.asciidoc |only inst/files/minimal/plot.html |only man/is_version_sufficient.Rd |only vignettes/An_Introduction_to_rasciidoc.Rasciidoc | 6 15 files changed, 186 insertions(+), 69 deletions(-)
Title: Functions for Tabular Reporting
Description: Create pretty tables for 'HTML', 'PDF', 'Microsoft Word' and 'Microsoft PowerPoint'
documents from 'R Markdown'. Functions are provided to let users create tables, modify and format
their content. It also extends package 'officer' that does not contain any feature for customized
tabular reporting.
Author: David Gohel [aut, cre],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb] (rmarkdown for docx output),
Titouan Robert [ctb],
Michael Barrowman [ctb] (inline footnotes),
Atsushi Yasumoto [ctb] (support for bookdown cross reference),
Paul Julian [ctb] (support for gam objects)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.6.1 dated 2020-12-08 and 0.6.2 dated 2021-01-25
flextable-0.6.1/flextable/inst/doc/display.R |only flextable-0.6.1/flextable/inst/doc/display.Rmd |only flextable-0.6.1/flextable/inst/doc/display.html |only flextable-0.6.1/flextable/inst/doc/format.R |only flextable-0.6.1/flextable/inst/doc/format.Rmd |only flextable-0.6.1/flextable/inst/doc/format.html |only flextable-0.6.1/flextable/inst/doc/layout.R |only flextable-0.6.1/flextable/inst/doc/layout.Rmd |only flextable-0.6.1/flextable/inst/doc/layout.html |only flextable-0.6.1/flextable/inst/doc/overview.R |only flextable-0.6.1/flextable/inst/doc/selectors.R |only flextable-0.6.1/flextable/inst/doc/selectors.Rmd |only flextable-0.6.1/flextable/inst/doc/selectors.html |only flextable-0.6.1/flextable/vignettes/display.Rmd |only flextable-0.6.1/flextable/vignettes/format.Rmd |only flextable-0.6.1/flextable/vignettes/layout.Rmd |only flextable-0.6.1/flextable/vignettes/selectors.Rmd |only flextable-0.6.2/flextable/DESCRIPTION | 19 flextable-0.6.2/flextable/MD5 | 210 +-- flextable-0.6.2/flextable/NAMESPACE | 14 flextable-0.6.2/flextable/NEWS.md | 28 flextable-0.6.2/flextable/R/01_fpstruct.R | 7 flextable-0.6.2/flextable/R/05_content.R | 32 flextable-0.6.2/flextable/R/a_flextable_package.R | 10 flextable-0.6.2/flextable/R/as_flextable.R | 6 flextable-0.6.2/flextable/R/as_flextable_gam.R |only flextable-0.6.2/flextable/R/body_add_flextable.R | 2 flextable-0.6.2/flextable/R/border_fix.R | 21 flextable-0.6.2/flextable/R/borders.R | 49 flextable-0.6.2/flextable/R/chunk_images.R | 28 flextable-0.6.2/flextable/R/defaults.R | 159 ++ flextable-0.6.2/flextable/R/empty.R | 4 flextable-0.6.2/flextable/R/flextable.R | 37 flextable-0.6.2/flextable/R/flextable_sizes.R | 8 flextable-0.6.2/flextable/R/footnote.R | 2 flextable-0.6.2/flextable/R/format_fun.R | 29 flextable-0.6.2/flextable/R/formatters.R | 57 flextable-0.6.2/flextable/R/html_str.R | 37 flextable-0.6.2/flextable/R/latex_chunks.R | 8 flextable-0.6.2/flextable/R/latex_str.R | 15 flextable-0.6.2/flextable/R/merge_flextable.R | 22 flextable-0.6.2/flextable/R/ph_with.R | 10 flextable-0.6.2/flextable/R/printers.R | 59 flextable-0.6.2/flextable/R/proc_freq.R | 22 flextable-0.6.2/flextable/R/set_headers.R | 72 - flextable-0.6.2/flextable/R/styles.R | 26 flextable-0.6.2/flextable/R/tabpart_format.R | 3 flextable-0.6.2/flextable/R/tabpart_tools.R | 61 - flextable-0.6.2/flextable/R/themes.R | 4 flextable-0.6.2/flextable/R/utils.R | 21 flextable-0.6.2/flextable/R/xtable_to_flextable.R | 16 flextable-0.6.2/flextable/README.md | 35 flextable-0.6.2/flextable/build/vignette.rds |binary flextable-0.6.2/flextable/inst/doc/overview.Rmd | 342 ----- flextable-0.6.2/flextable/inst/doc/overview.html | 709 ------------ flextable-0.6.2/flextable/inst/web_1.0.0/tabwid.css | 5 flextable-0.6.2/flextable/man/add_body.Rd |only flextable-0.6.2/flextable/man/add_header.Rd | 16 flextable-0.6.2/flextable/man/as_b.Rd | 2 flextable-0.6.2/flextable/man/as_bracket.Rd | 2 flextable-0.6.2/flextable/man/as_chunk.Rd | 6 flextable-0.6.2/flextable/man/as_flextable.Rd | 1 flextable-0.6.2/flextable/man/as_flextable.gam.Rd |only flextable-0.6.2/flextable/man/as_flextable.glm.Rd | 1 flextable-0.6.2/flextable/man/as_flextable.grouped_data.Rd | 1 flextable-0.6.2/flextable/man/as_flextable.htest.Rd | 1 flextable-0.6.2/flextable/man/as_flextable.lm.Rd | 1 flextable-0.6.2/flextable/man/as_flextable.xtable.Rd | 1 flextable-0.6.2/flextable/man/as_grouped_data.Rd | 2 flextable-0.6.2/flextable/man/as_i.Rd | 2 flextable-0.6.2/flextable/man/as_image.Rd | 6 flextable-0.6.2/flextable/man/as_paragraph.Rd | 6 flextable-0.6.2/flextable/man/as_sub.Rd | 2 flextable-0.6.2/flextable/man/as_sup.Rd | 2 flextable-0.6.2/flextable/man/border.Rd | 9 flextable-0.6.2/flextable/man/border_inner.Rd | 2 flextable-0.6.2/flextable/man/border_inner_h.Rd | 2 flextable-0.6.2/flextable/man/border_inner_v.Rd | 2 flextable-0.6.2/flextable/man/border_outer.Rd | 2 flextable-0.6.2/flextable/man/colformat_char.Rd | 1 flextable-0.6.2/flextable/man/colformat_date.Rd | 1 flextable-0.6.2/flextable/man/colformat_datetime.Rd | 1 flextable-0.6.2/flextable/man/colformat_double.Rd | 1 flextable-0.6.2/flextable/man/colformat_image.Rd |only flextable-0.6.2/flextable/man/colformat_int.Rd | 1 flextable-0.6.2/flextable/man/colformat_lgl.Rd | 1 flextable-0.6.2/flextable/man/colformat_num.Rd | 1 flextable-0.6.2/flextable/man/compose.Rd | 1 flextable-0.6.2/flextable/man/fix_border_issues.Rd | 21 flextable-0.6.2/flextable/man/flextable-package.Rd | 4 flextable-0.6.2/flextable/man/flextable.Rd | 2 flextable-0.6.2/flextable/man/footnote.Rd | 2 flextable-0.6.2/flextable/man/fp_border_default.Rd |only flextable-0.6.2/flextable/man/fp_text_default.Rd |only flextable-0.6.2/flextable/man/gg_chunk.Rd | 2 flextable-0.6.2/flextable/man/glance_gam.Rd |only flextable-0.6.2/flextable/man/hline.Rd | 2 flextable-0.6.2/flextable/man/hline_bottom.Rd | 2 flextable-0.6.2/flextable/man/hline_top.Rd | 2 flextable-0.6.2/flextable/man/hyperlink_text.Rd | 6 flextable-0.6.2/flextable/man/knit_print.flextable.Rd | 1 flextable-0.6.2/flextable/man/linerange.Rd | 6 flextable-0.6.2/flextable/man/lollipop.Rd | 6 flextable-0.6.2/flextable/man/merge_v.Rd | 11 flextable-0.6.2/flextable/man/minibar.Rd | 6 flextable-0.6.2/flextable/man/ph_with.flextable.Rd | 8 flextable-0.6.2/flextable/man/plot_chunk.Rd | 2 flextable-0.6.2/flextable/man/print.flextable.Rd | 2 flextable-0.6.2/flextable/man/set_caption.Rd | 22 flextable-0.6.2/flextable/man/set_flextable_defaults.Rd | 14 flextable-0.6.2/flextable/man/set_formatter.Rd | 5 flextable-0.6.2/flextable/man/theme_booktabs.Rd | 4 flextable-0.6.2/flextable/man/tidy_gam.Rd |only flextable-0.6.2/flextable/man/vline.Rd | 2 flextable-0.6.2/flextable/man/vline_left.Rd | 2 flextable-0.6.2/flextable/man/vline_right.Rd | 2 flextable-0.6.2/flextable/tests/testthat/test-text-format.R |only flextable-0.6.2/flextable/tests/testthat/test-text.R | 11 flextable-0.6.2/flextable/vignettes/overview.Rmd | 342 ----- 119 files changed, 918 insertions(+), 1837 deletions(-)
Title: Miscellaneous Functions for the Analysis of Educational
Assessments
Description: Miscellaneous functions for data cleaning and data analysis of educational assessments. Includes functions for descriptive
analyses, character vector manipulations and weighted statistics. Mainly a lightweight dependency for the packages 'eatRep',
'eatGADS', 'eatPrep' and 'eatModel' (which will be subsequently submitted to 'CRAN').
The function for defining (weighted) contrasts in weighted effect coding refers to
te Grotenhuis et al. (2017) <doi:10.1007/s00038-016-0901-1>.
Functions for weighted statistics refer to
Wolter (2007) <doi:10.1007/978-0-387-35099-8>.
Author: Sebastian Weirich [aut, cre],
Martin Hecht [aut],
Karoline Sachse [aut],
Benjamin Becker [aut],
Nicole Mahler [aut]
Maintainer: Sebastian Weirich <sebastian.weirich@iqb.hu-berlin.de>
Diff between eatTools versions 0.3.8 dated 2020-10-19 and 0.4.0 dated 2021-01-25
DESCRIPTION | 9 +++++---- MD5 | 17 ++++++++++------- NAMESPACE | 1 + NEWS.md | 19 ++++++++++++------- R/do_call_rbind_withName.R |only R/wideToLong.r | 6 +++--- README.md | 7 +++++-- man/do_call_rbind_withName.Rd |only man/wideToLong.rd | 3 --- man/wtdTable.rd | 3 --- tests/testthat/test_do_call_rbind_withName.R |only 11 files changed, 36 insertions(+), 29 deletions(-)
Title: Distance-Based Measures of Spatial Structures
Description: Simple computation of spatial statistic functions of distance to characterize the spatial structures of mapped objects, following Marcon, Traissac, Puech, and Lang (2015) <doi:10.18637/jss.v067.c03>.
Includes classical functions (Ripley's K and others) and more recent ones used by spatial economists (Duranton and Overman's Kd, Marcon and Puech's M).
Relies on 'spatstat' for some core calculation.
Author: Eric Marcon [aut, cre] (<https://orcid.org/0000-0002-5249-321X>),
Gabriel Lang [aut] (<https://orcid.org/0000-0002-4325-6044>),
Stephane Traissac [aut] (<https://orcid.org/0000-0001-9255-1616>),
Florence Puech [aut] (<https://orcid.org/0000-0002-5279-6878>)
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between dbmss versions 2.7-3 dated 2020-11-17 and 2.7-4 dated 2021-01-25
DESCRIPTION | 9 MD5 | 20 - NAMESPACE | 11 NEWS.md | 13 + R/KinhomEnvelope.R | 2 R/Kmmhat.R | 2 R/as.Dtable.data.frame.R | 2 R/as.Dtable.ppp.R | 2 README.md | 5 build/vignette.rds |binary inst/doc/dbmss.html | 576 ++++++++++++++++++++++++++++------------------- 11 files changed, 390 insertions(+), 252 deletions(-)
Title: Classes and Methods for Spatio-Temporal Data
Description: Classes and methods for spatio-temporal data, including space-time regular lattices, sparse lattices, irregular data, and trajectories; utility functions for plotting data as map sequences (lattice or animation) or multiple time series; methods for spatial and temporal selection and subsetting, as well as for spatial/temporal/spatio-temporal matching or aggregation, retrieving coordinates, print, summary, etc.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Benedikt Graeler [ctb],
Tom Gottfried [ctb],
Robert J. Hijmans [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between spacetime versions 1.2-3 dated 2020-01-21 and 1.2-4 dated 2021-01-25
DESCRIPTION | 10 +- MD5 | 63 +++++++------- build/vignette.rds |binary data/air.rda |binary data/fires.rda |binary inst/CITATION | 8 - inst/doc/jss816.R | 3 inst/doc/jss816.Rnw | 4 inst/doc/jss816.pdf |binary inst/doc/stgvis.R | 26 ++--- inst/doc/stgvis.Rmd | 6 - inst/doc/stgvis.html | 222 +++++++++++++++++++++++++-------------------------- inst/doc/sto.R | 1 inst/doc/sto.pdf |binary inst/doc/stpg.R | 1 inst/doc/stpg.pdf |binary inst/doc/stsubs.R | 1 inst/doc/stsubs.pdf |binary man/ST-class.Rd | 2 man/STFDF-class.Rd | 2 man/STIDF-class.Rd | 2 man/STSDF-class.Rd | 2 man/STTDF-class.Rd | 2 man/delta.Rd | 2 man/na.Rd | 2 man/stconstruct.Rd | 2 man/stplot.Rd | 2 man/timematch.Rd | 2 tests/stconstruct.R | 2 vignettes/Style |only vignettes/jss816.Rnw | 4 vignettes/jss816.bib | 12 +- vignettes/stgvis.Rmd | 6 - 33 files changed, 193 insertions(+), 196 deletions(-)
Title: Empirical Dynamic Modeling ('EDM')
Description: An implementation of 'EDM' algorithms based on research software developed for internal use at the Sugihara Lab ('UCSD/SIO'). The package is implemented with 'Rcpp' wrappers around the 'cppEDM' library. It implements the 'simplex' projection method from Sugihara & May (1990) <doi:10.1038/344734a0>, the 'S-map' algorithm from Sugihara (1994) <doi:10.1098/rsta.1994.0106>, convergent cross mapping described in Sugihara et al. (2012) <doi:10.1126/science.1227079>, and, 'multiview embedding' described in Ye & Sugihara (2016) <doi:10.1126/science.aag0863>.
Author: Joseph Park [aut, cre] (<https://orcid.org/0000-0001-5411-1409>),
Cameron Smith [aut],
George Sugihara [aut, ccp] (<https://orcid.org/0000-0002-2863-6946>),
Ethan Deyle [aut] (<https://orcid.org/0000-0001-8704-8434>),
Erik Saberski [ctb] (<https://orcid.org/0000-0002-6475-6187>),
Hao Ye [ctb] (<https://orcid.org/0000-0002-8630-1458>),
The Regents of the University of California [cph]
Maintainer: Joseph Park <JosephPark@IEEE.org>
Diff between rEDM versions 1.7.4 dated 2021-01-11 and 1.7.5 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- src/cppEDM/src/API.cc | 8 ++++++-- src/cppEDM/src/Multiview.cc | 4 +--- src/cppEDM/src/Parameter.cc | 2 +- vignettes/rEDM-tutorial.html | 20 ++++++++++---------- 6 files changed, 27 insertions(+), 25 deletions(-)
Title: Double Machine Learning in R
Description: Implementation of the double/debiased machine learning framework of
Chernozhukov et al. (2018) <doi:10.1111/ectj.12097> for partially linear
regression models, partially linear instrumental variable regression models,
interactive regression models and interactive instrumental variable
regression models. 'DoubleML' allows estimation of the nuisance parts in
these models by machine learning methods and computation of the Neyman
orthogonal score functions. 'DoubleML' is built on top of 'mlr3' and the
'mlr3' ecosystem. The object-oriented implementation of 'DoubleML' based on
the 'R6' package is very flexible.
Author: Philipp Bach [aut],
Victor Chernozhukov [aut],
Malte S. Kurz [aut, cre],
Martin Spindler [aut]
Maintainer: Malte S. Kurz <malte.simon.kurz@uni-hamburg.de>
Diff between DoubleML versions 0.1.1 dated 2020-12-16 and 0.1.2 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 25 +++++++++++++------------ R/datasets.R | 8 ++++---- R/helper.R | 7 ++++++- README.md | 43 ++++++++++++++++++++++++++----------------- build/partial.rdb |only inst/doc/DoubleML.html | 40 +--------------------------------------- inst/doc/install.Rmd | 2 -- inst/doc/install.html | 41 +---------------------------------------- man/fetch_401k.Rd | 2 +- man/fetch_bonus.Rd | 2 +- man/make_iivm_data.Rd | 2 +- man/make_plr_CCDDHNR2018.Rd | 2 +- vignettes/install.Rmd | 2 -- 14 files changed, 59 insertions(+), 125 deletions(-)
Title: Toolkit for Credit Modeling, Analysis and Visualization
Description: Provides a highly efficient R tool suite for Credit Modeling, Analysis and Visualization.Contains infrastructure functionalities such as data exploration and preparation, missing values treatment, outliers treatment, variable derivation, variable selection, dimensionality reduction, grid search for hyper parameters, data mining and visualization, model evaluation, strategy analysis etc. This package is designed to make the development of binary classification models (machine learning based models as well as credit scorecard) simpler and faster. The references including: 1 Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS; 2 Bezdek, James C.FCM: The fuzzy c-means clustering algorithm. Computers & Geosciences (0098-3004),<DOI:10.1016/0098-3004(84)90020-7>.
Author: Dongping Fan [aut, cre]
Maintainer: Dongping Fan <fdp@pku.edu.cn>
Diff between creditmodel versions 1.2.7 dated 2020-11-09 and 1.3.0 dated 2021-01-25
creditmodel-1.2.7/creditmodel/data/datalist |only creditmodel-1.3.0/creditmodel/DESCRIPTION | 12 creditmodel-1.3.0/creditmodel/MD5 | 117 - creditmodel-1.3.0/creditmodel/NAMESPACE | 4 creditmodel-1.3.0/creditmodel/NEWS.md | 8 creditmodel-1.3.0/creditmodel/R/data_anaylsis.R | 345 +-- creditmodel-1.3.0/creditmodel/R/data_cleansing.R | 10 creditmodel-1.3.0/creditmodel/R/data_exploration.R | 113 - creditmodel-1.3.0/creditmodel/R/data_process_tools.R | 513 ++++- creditmodel-1.3.0/creditmodel/R/data_transformation.R | 430 ++-- creditmodel-1.3.0/creditmodel/R/data_visualization.R | 903 +++++----- creditmodel-1.3.0/creditmodel/R/essential_algorithms.R | 32 creditmodel-1.3.0/creditmodel/R/model_training.R | 98 - creditmodel-1.3.0/creditmodel/R/outliers_missing_treatment.R | 68 creditmodel-1.3.0/creditmodel/R/variable_binning.R | 397 ++-- creditmodel-1.3.0/creditmodel/R/variable_selection.R | 76 creditmodel-1.3.0/creditmodel/README.md | 14 creditmodel-1.3.0/creditmodel/build/partial.rdb |only creditmodel-1.3.0/creditmodel/build/vignette.rds |binary creditmodel-1.3.0/creditmodel/data/lendingclub.rda |binary creditmodel-1.3.0/creditmodel/inst/doc/introduction.R | 4 creditmodel-1.3.0/creditmodel/inst/doc/introduction.html | 231 +- creditmodel-1.3.0/creditmodel/man/char_to_num.Rd | 9 creditmodel-1.3.0/creditmodel/man/cor_heat_plot.Rd | 2 creditmodel-1.3.0/creditmodel/man/cor_plot.Rd | 2 creditmodel-1.3.0/creditmodel/man/customer_segmentation.Rd | 4 creditmodel-1.3.0/creditmodel/man/data_cleansing.Rd | 2 creditmodel-1.3.0/creditmodel/man/data_exploration.Rd | 5 creditmodel-1.3.0/creditmodel/man/date_cut.Rd | 4 creditmodel-1.3.0/creditmodel/man/fuzzy_cluster_means.Rd | 2 creditmodel-1.3.0/creditmodel/man/gbm_filter.Rd | 2 creditmodel-1.3.0/creditmodel/man/get_breaks_all.Rd | 6 creditmodel-1.3.0/creditmodel/man/get_ctree_rules.Rd | 2 creditmodel-1.3.0/creditmodel/man/get_logistic_coef.Rd | 6 creditmodel-1.3.0/creditmodel/man/get_plots.Rd | 2 creditmodel-1.3.0/creditmodel/man/get_psi_plots.Rd | 2 creditmodel-1.3.0/creditmodel/man/get_score_card.Rd | 6 creditmodel-1.3.0/creditmodel/man/ks_table.Rd | 4 creditmodel-1.3.0/creditmodel/man/lasso_filter.Rd | 4 creditmodel-1.3.0/creditmodel/man/lr_vif.Rd | 2 creditmodel-1.3.0/creditmodel/man/max_min_norm.Rd | 40 creditmodel-1.3.0/creditmodel/man/merge_category.Rd | 2 creditmodel-1.3.0/creditmodel/man/model_result_plot.Rd | 15 creditmodel-1.3.0/creditmodel/man/multi_grid.Rd | 2 creditmodel-1.3.0/creditmodel/man/n_char.Rd |only creditmodel-1.3.0/creditmodel/man/partial_dependence_plot.Rd | 2 creditmodel-1.3.0/creditmodel/man/plot_bar.Rd | 27 creditmodel-1.3.0/creditmodel/man/plot_box.Rd | 10 creditmodel-1.3.0/creditmodel/man/plot_line.Rd | 19 creditmodel-1.3.0/creditmodel/man/plot_oot_perf.Rd | 2 creditmodel-1.3.0/creditmodel/man/plot_relative_freq_histogram.Rd | 19 creditmodel-1.3.0/creditmodel/man/pred_score.Rd | 4 creditmodel-1.3.0/creditmodel/man/rules_filter.Rd | 2 creditmodel-1.3.0/creditmodel/man/rules_result.Rd | 2 creditmodel-1.3.0/creditmodel/man/score_transfer.Rd | 6 creditmodel-1.3.0/creditmodel/man/split_bins.Rd | 16 creditmodel-1.3.0/creditmodel/man/split_bins_all.Rd | 4 creditmodel-1.3.0/creditmodel/man/sql_hive_text_parse.Rd |only creditmodel-1.3.0/creditmodel/man/sum_table.Rd |only creditmodel-1.3.0/creditmodel/man/train_test_split.Rd | 2 creditmodel-1.3.0/creditmodel/man/woe_trans_all.Rd | 4 creditmodel-1.3.0/creditmodel/man/xgb_filter.Rd | 2 62 files changed, 2223 insertions(+), 1398 deletions(-)
Title: Grammar for Creating R Markdown Reports
Description: A system for creating beautiful and interactive R Markdown reports
by adding modules like plots and tables to an empty header.
Author: Philippe Heymans Smith [aut, cre]
Maintainer: Philippe Heymans Smith <pheymanss@gmail.com>
Diff between chronicle versions 0.1.0 dated 2021-01-21 and 0.2.0 dated 2021-01-25
DESCRIPTION | 11 - MD5 | 65 +++++----- NAMESPACE | 4 R/barplots.R | 4 R/boxplots.R | 12 - R/densities.R | 2 R/dygraphs.R | 6 R/enchunk.R | 24 +-- R/histograms.R | 2 R/lineplots.R | 4 R/report_columns.R | 59 ++++----- R/report_interface.R | 293 ++++++++++++++++++++++++++++++++++++++---------- R/scatterplots.R |only R/tables.R | 5 R/text.R | 13 -- R/violins.R | 2 README.md |only man/add_barplot.Rd | 4 man/add_boxplot.Rd | 6 man/add_chunk.Rd | 12 + man/add_code.Rd | 4 man/add_density.Rd | 2 man/add_dygraph.Rd | 6 man/add_histogram.Rd | 2 man/add_lineplot.Rd | 2 man/add_scatterplot.Rd |only man/add_table.Rd | 5 man/add_text.Rd | 5 man/add_title.Rd | 4 man/add_violin.Rd | 2 man/make_lineplot.Rd | 2 man/make_scatterplot.Rd |only man/new_report.Rd | 2 man/output_config.Rd |only man/render_report.Rd | 70 +++++++++-- man/report_columns.Rd | 24 +-- 36 files changed, 438 insertions(+), 220 deletions(-)
Title: Functions to Create Publication-Quality Plots
Description: Contains several plotting functions such as barplots, scatterplots, heatmaps, as well as functions to combine plots and assist in the creation of these plots. These functions will give users great ease of use and customization options in broad use for biomedical applications, as well as general purpose plotting. Each of the functions also provides valid default settings to make plotting data more efficient and producing high quality plots with standard colour schemes simpler. All functions within this package are capable of producing plots that are of the quality to be presented in scientific publications and journals. P'ng et al.; BPG: Seamless, automated and interactive visualization of scientific data; BMC Bioinformatics 2019 <doi: 10.1186/s12859-019-2610-2>.
Author: Paul Boutros [aut, cre],
Christine P'ng [ctb],
Jeff Green [ctb],
Stephenie Prokopec [ctb],
Ontario Institute for Cancer Research [cph],
The R Core Team [cph],
The R Foundation [cph],
Robert Gentleman [ctb],
Ross Ihaka [ctb],
Caden Bugh [ctb]
Maintainer: Paul Boutros <PBoutros@mednet.ucla.edu>
Diff between BoutrosLab.plotting.general versions 6.0.2 dated 2021-01-11 and 6.0.3 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 7 +++++++ inst/doc/PlottingGuide.pdf |binary man/covariates.grob.Rd | 16 +++++++++++----- man/legend.grob.Rd | 14 ++++++++++---- 6 files changed, 37 insertions(+), 18 deletions(-)
More information about BoutrosLab.plotting.general at CRAN
Permanent link
Title: Bayesian Generalized Linear Models with Time-Varying
Coefficients
Description: Bayesian generalized linear models with time-varying coefficients
as in Helske (2020, <arXiv:2009.07063>). Gaussian, Poisson, and binomial
observations are supported. The Markov chain Monte Carlo (MCMC) computations are done using
Hamiltonian Monte Carlo provided by Stan, using a state space representation
of the model in order to marginalise over the coefficients for efficient sampling.
For non-Gaussian models, the package uses the importance sampling type estimators based on
approximate marginal MCMC as in Vihola, Helske, Franks (2020, <doi:10.1111/sjos.12492>).
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between walker versions 0.5.0 dated 2020-10-19 and 1.0.1 dated 2021-01-25
walker-0.5.0/walker/inst/stan/include/common_functions.stan |only walker-1.0.1/walker/DESCRIPTION | 19 walker-1.0.1/walker/MD5 | 56 walker-1.0.1/walker/NAMESPACE | 5 walker-1.0.1/walker/R/lfo.R |only walker-1.0.1/walker/R/plot_predict.R | 4 walker-1.0.1/walker/R/predict_counterfactual.R | 2 walker-1.0.1/walker/R/print_fit.R | 4 walker-1.0.1/walker/R/rw.R | 18 walker-1.0.1/walker/R/walker.R | 293 +- walker-1.0.1/walker/R/zzz.R |only walker-1.0.1/walker/README.md | 15 walker-1.0.1/walker/configure.win |only walker-1.0.1/walker/inst/doc/walker.R | 51 walker-1.0.1/walker/inst/doc/walker.Rmd | 69 walker-1.0.1/walker/inst/doc/walker.html | 131 - walker-1.0.1/walker/inst/stan/walker_glm.stan | 241 +- walker-1.0.1/walker/inst/stan/walker_lm.stan | 211 + walker-1.0.1/walker/man/lfo.Rd |only walker-1.0.1/walker/man/plot_predict.Rd | 4 walker-1.0.1/walker/man/predict_counterfactual.Rd | 2 walker-1.0.1/walker/man/rw1.Rd | 7 walker-1.0.1/walker/man/rw2.Rd | 7 walker-1.0.1/walker/man/walker.Rd | 27 walker-1.0.1/walker/man/walker_glm.Rd | 26 walker-1.0.1/walker/src/stanExports_rw1_model.h | 20 walker-1.0.1/walker/src/stanExports_rw1_model_naive.h | 20 walker-1.0.1/walker/src/stanExports_walker_glm.h | 1389 ++++-------- walker-1.0.1/walker/src/stanExports_walker_lm.h | 1190 +++------- walker-1.0.1/walker/vignettes/vignette_results.rds |only walker-1.0.1/walker/vignettes/walker.Rmd | 69 walker-1.0.1/walker/vignettes/walker.bib | 10 32 files changed, 1800 insertions(+), 2090 deletions(-)
More information about NHSDataDictionaRy at CRAN
Permanent link
Title: Bootstrap Functions (Originally by Angelo Canty for S)
Description: Functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Application" by A. C. Davison and
D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.
Author: Angelo Canty [aut],
Brian Ripley [aut, trl, cre] (author of parallel support)
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between boot versions 1.3-25 dated 2020-04-26 and 1.3-26 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/EEF.profile.Rd | 3 ++- 3 files changed, 8 insertions(+), 7 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-13 0.2.3
Title: Hierarchical Partitioning for Canonical Analysis
Description: This function calculates the independent contribution of each explanatory variable to explained variation (R-squared) on RDA,CCA and db-RDA, applying the hierarchy algorithm of Chevan, A. and Sutherland, M. 1991 Hierarchical Partitioning.The American Statistician, 90-96 <DOI:10.1080/00031305.1991.10475776>.
Author: Jiangshan Lai,Pedro Peres-neto
Maintainer: Jiangshan Lai <lai@ibcas.ac.cn>
Diff between rdacca.hp versions 0.2.0 dated 2021-01-18 and 0.3.0 dated 2021-01-25
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NAMESPACE | 1 + R/rdacca.hp.r | 33 ++++++++++++++++++++++++--------- R/rdacca.mhp.r |only man/rdacca.hp.Rd | 24 +++++++++++++++--------- man/rdacca.mhp.Rd |only 7 files changed, 50 insertions(+), 26 deletions(-)
Title: Mixtures of Power Exponential and Skew Power Exponential
Distributions for Use in Model-Based Clustering and
Classification
Description: Mixtures of skewed and elliptical distributions are implemented using mixtures of multivariate skew
power exponential and power exponential distributions, respectively. A generalized expectation-maximization
framework is used for parameter estimation. Methodology for mixtures of power exponential distributions is
from Dang et al. (2015) <doi: 10.1111/biom.12351>.
Author: Ryan P. Browne[aut, cre], Utkarsh J. Dang[aut, cre], Michael P. B. Gallaugher[ctb], and Paul D. McNicholas[aut]
Maintainer: Utkarsh J. Dang <udang@binghamton.edu>
Diff between mixSPE versions 0.1.1 dated 2019-06-19 and 0.9.1 dated 2021-01-25
mixSPE-0.1.1/mixSPE/R/MPEcode.R |only mixSPE-0.1.1/mixSPE/R/MSPEcode.R |only mixSPE-0.1.1/mixSPE/man/mpe.Rd |only mixSPE-0.1.1/mixSPE/man/mspe.Rd |only mixSPE-0.1.1/mixSPE/man/print.pemix.Rd |only mixSPE-0.9.1/mixSPE/DESCRIPTION | 10 +- mixSPE-0.9.1/mixSPE/MD5 | 21 +--- mixSPE-0.9.1/mixSPE/NAMESPACE | 6 - mixSPE-0.9.1/mixSPE/NEWS | 4 mixSPE-0.9.1/mixSPE/R/miscfunctions.R | 114 +++++++++++-------------- mixSPE-0.9.1/mixSPE/R/skewed_models_Browne.R |only mixSPE-0.9.1/mixSPE/man/EMGr.Rd |only mixSPE-0.9.1/mixSPE/man/mixSPE-package.Rd | 4 mixSPE-0.9.1/mixSPE/man/print.spemix.Rd | 2 mixSPE-0.9.1/mixSPE/tests/testthat/test-main.R | 34 ++++--- 15 files changed, 96 insertions(+), 99 deletions(-)
Title: Lightweight Iterative Geneset Enrichment
Description: Gene Set Enrichment Analysis (GSEA) is a computational method that determines whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states. The original algorithm is detailed in Subramanian et al. with 'Java' implementations available through the Broad Institute (Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>). The 'liger' package provides a lightweight R implementation of this enrichment test on a list of values (Fan et al., 2017 <doi:10.5281/zenodo.887386>). Given a list of values, such as p-values or log-fold changes derived from differential expression analysis or other analyses comparing biological states, this package enables you to test a priori defined set of genes for enrichment to enable interpretability of highly significant or high fold-change genes.
Author: Jean Fan [aut, cre] (<https://orcid.org/0000-0002-0212-5451>),
Peter Kharchenko [aut]
Maintainer: Jean Fan <jeanfan@jhu.edu>
Diff between liger versions 1.1.2 dated 2020-07-16 and 2.0.1 dated 2021-01-25
DESCRIPTION | 10 ++++----- MD5 | 46 +++++++++++++++++++++---------------------- NEWS.md | 7 ++++++ R/data.R | 2 - README.md | 13 +++++------- build/vignette.rds |binary inst/doc/gsea.Rmd | 4 +-- inst/doc/interpreting.Rmd | 4 +-- inst/doc/permpvals.Rmd | 6 ++--- inst/doc/simulation.Rmd | 4 +-- man/bulk.gsea.Rd | 16 +++++++++++--- man/gsea.Rd | 18 +++++++++++++--- man/iterative.bulk.gsea.Rd | 9 ++++++-- man/liger.Rd | 1 man/org.Hs.GO2Symbol.list.Rd | 4 ++- src/functions.cpp | 14 +++++++++---- vignettes/gsea.Rmd | 4 +-- vignettes/gsea.html | 36 ++++++++++++++++----------------- vignettes/interpreting.Rmd | 4 +-- vignettes/interpreting.html | 16 +++++++------- vignettes/permpvals.Rmd | 6 ++--- vignettes/permpvals.html | 16 +++++++------- vignettes/simulation.Rmd | 4 +-- vignettes/simulation.html | 8 +++---- 24 files changed, 144 insertions(+), 108 deletions(-)
Title: Miscellaneous Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics
paradigm. Specialization of method ggplot(): accept and convert on the fly
time series data. Geom: "table", "plot" and "grob" add insets to plots
using native data coordinates, while "table_npc", "plot_npc" and "grob_npc"
do the same using "npc" coordinates through new aesthetics "npcx" and "npcy".
Statistics: locate and tag peaks and valleys; count observations in different
quadrants of a plot; select observations based on 2D density; label with the
equation of a polynomial fitted with lm() or other types of models; labels
with P-value, R^2 or adjusted R^2 or information criteria for fitted models;
label with ANOVA table for fitted models; label with summary for fitted
models. Model fit classes for which suitable methods are provided by package
'broom' are supported. Scales and stats to build volcano and quadrant plots
based on outcomes, fold changes, p-values and false discovery rates.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Kamil Slowikowski [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between ggpmisc versions 0.3.7 dated 2020-11-09 and 0.3.8 dated 2021-01-25
ggpmisc-0.3.7/ggpmisc/NEWS |only ggpmisc-0.3.7/ggpmisc/inst/doc/user-guide.R |only ggpmisc-0.3.7/ggpmisc/inst/doc/user-guide.Rmd |only ggpmisc-0.3.7/ggpmisc/inst/doc/user-guide.html |only ggpmisc-0.3.7/ggpmisc/vignettes/user-guide.Rmd |only ggpmisc-0.3.8/ggpmisc/DESCRIPTION | 28 ggpmisc-0.3.8/ggpmisc/MD5 | 123 +- ggpmisc-0.3.8/ggpmisc/NEWS.md |only ggpmisc-0.3.8/ggpmisc/R/annotate.r | 22 ggpmisc-0.3.8/ggpmisc/R/geom-table.R | 55 - ggpmisc-0.3.8/ggpmisc/R/stat-fit-broom-tb.R | 148 +- ggpmisc-0.3.8/ggpmisc/R/stat-fit-broom.R | 251 +++- ggpmisc-0.3.8/ggpmisc/R/stat-fmt-tb.R | 12 ggpmisc-0.3.8/ggpmisc/R/stat-peaks.R | 136 +- ggpmisc-0.3.8/ggpmisc/R/try-data-frame.R | 31 ggpmisc-0.3.8/ggpmisc/README.md | 148 +- ggpmisc-0.3.8/ggpmisc/build/vignette.rds |binary ggpmisc-0.3.8/ggpmisc/inst/doc/grammar-extensions.R |only ggpmisc-0.3.8/ggpmisc/inst/doc/grammar-extensions.Rmd |only ggpmisc-0.3.8/ggpmisc/inst/doc/grammar-extensions.html |only ggpmisc-0.3.8/ggpmisc/inst/doc/model-based-annotations.R |only ggpmisc-0.3.8/ggpmisc/inst/doc/model-based-annotations.Rmd |only ggpmisc-0.3.8/ggpmisc/inst/doc/model-based-annotations.html |only ggpmisc-0.3.8/ggpmisc/man/FC_format.Rd | 100 - ggpmisc-0.3.8/ggpmisc/man/FC_name.Rd | 70 - ggpmisc-0.3.8/ggpmisc/man/annotate.Rd | 168 +-- ggpmisc-0.3.8/ggpmisc/man/compute_npcx.Rd | 64 - ggpmisc-0.3.8/ggpmisc/man/figures/README-unnamed-chunk-1-1.png |binary ggpmisc-0.3.8/ggpmisc/man/figures/logo-ggpmisc.png |only ggpmisc-0.3.8/ggpmisc/man/find_peaks.Rd | 93 - ggpmisc-0.3.8/ggpmisc/man/geom_grob.Rd | 260 ++-- ggpmisc-0.3.8/ggpmisc/man/geom_plot.Rd | 296 ++--- ggpmisc-0.3.8/ggpmisc/man/geom_quadrant_lines.Rd | 266 ++-- ggpmisc-0.3.8/ggpmisc/man/geom_table.Rd | 465 ++++---- ggpmisc-0.3.8/ggpmisc/man/geom_text_npc.Rd | 326 +++--- ggpmisc-0.3.8/ggpmisc/man/geom_x_margin_arrow.Rd | 204 +-- ggpmisc-0.3.8/ggpmisc/man/geom_x_margin_grob.Rd | 194 +-- ggpmisc-0.3.8/ggpmisc/man/geom_x_margin_point.Rd | 204 +-- ggpmisc-0.3.8/ggpmisc/man/ggplot.Rd | 184 +-- ggpmisc-0.3.8/ggpmisc/man/ggpmisc-package.Rd | 270 ++-- ggpmisc-0.3.8/ggpmisc/man/moved-to-gginnards.Rd | 70 - ggpmisc-0.3.8/ggpmisc/man/outcome2factor.Rd | 132 +- ggpmisc-0.3.8/ggpmisc/man/quadrant_example.df.Rd | 56 - ggpmisc-0.3.8/ggpmisc/man/scale_colour_outcome.Rd | 204 +-- ggpmisc-0.3.8/ggpmisc/man/scale_continuous_npc.Rd | 44 ggpmisc-0.3.8/ggpmisc/man/scale_shape_outcome.Rd | 180 +-- ggpmisc-0.3.8/ggpmisc/man/scale_x_logFC.Rd | 306 ++--- ggpmisc-0.3.8/ggpmisc/man/scale_y_Pvalue.Rd | 238 ++-- ggpmisc-0.3.8/ggpmisc/man/stat_apply.Rd | 380 +++---- ggpmisc-0.3.8/ggpmisc/man/stat_dens1d_filter.Rd | 446 ++++---- ggpmisc-0.3.8/ggpmisc/man/stat_dens1d_labels.Rd | 378 +++--- ggpmisc-0.3.8/ggpmisc/man/stat_dens2d_filter.Rd | 368 +++--- ggpmisc-0.3.8/ggpmisc/man/stat_dens2d_labels.Rd | 308 ++--- ggpmisc-0.3.8/ggpmisc/man/stat_fit_augment.Rd | 367 +++--- ggpmisc-0.3.8/ggpmisc/man/stat_fit_deviations.Rd | 242 ++-- ggpmisc-0.3.8/ggpmisc/man/stat_fit_glance.Rd | 393 ++++--- ggpmisc-0.3.8/ggpmisc/man/stat_fit_residuals.Rd | 220 ++-- ggpmisc-0.3.8/ggpmisc/man/stat_fit_tb.Rd | 541 +++++----- ggpmisc-0.3.8/ggpmisc/man/stat_fit_tidy.Rd | 380 +++---- ggpmisc-0.3.8/ggpmisc/man/stat_fmt_tb.Rd | 280 ++--- ggpmisc-0.3.8/ggpmisc/man/stat_peaks.Rd | 331 +++--- ggpmisc-0.3.8/ggpmisc/man/stat_quadrant_counts.Rd | 322 ++--- ggpmisc-0.3.8/ggpmisc/man/symmetric_limits.Rd | 60 - ggpmisc-0.3.8/ggpmisc/man/try_data_frame.Rd | 149 +- ggpmisc-0.3.8/ggpmisc/man/ttheme_gtdefault.Rd | 398 +++---- ggpmisc-0.3.8/ggpmisc/man/ttheme_set.Rd | 108 - ggpmisc-0.3.8/ggpmisc/man/volcano_example.df.Rd | 56 - ggpmisc-0.3.8/ggpmisc/man/xy_outcomes2factor.Rd | 114 +- ggpmisc-0.3.8/ggpmisc/vignettes/grammar-extensions.Rmd |only ggpmisc-0.3.8/ggpmisc/vignettes/model-based-annotations.Rmd |only 70 files changed, 5845 insertions(+), 5344 deletions(-)
Title: Assertive Programming for R Analysis Pipelines
Description: Provides functionality to assert conditions
that have to be met so that errors in data used in
analysis pipelines can fail quickly. Similar to
'stopifnot()' but more powerful, friendly, and easier
for use in pipelines.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between assertr versions 2.7 dated 2020-02-05 and 2.8 dated 2021-01-25
DESCRIPTION | 12 MD5 | 50 +- NAMESPACE | 11 NEWS | 4 R/assertions.R | 215 ++++++++-- R/errors.R | 292 +++++++++++++- R/predicates.R | 1 R/row-redux.R | 42 ++ R/utils.R | 45 ++ README.md | 2 build/vignette.rds |binary inst/doc/assertr.Rmd | 121 +++++- inst/doc/assertr.html | 497 +++++++++++++----------- man/assert.Rd | 19 man/assert_rows.Rd | 19 man/chaining_functions.Rd | 4 man/duplicates_across_cols.Rd |only man/generate_id.Rd |only man/has_class.Rd |only man/insist.Rd | 19 man/insist_rows.Rd | 19 man/print.assertr_defect.Rd |only man/print.assertr_success.Rd |only man/success_and_error_functions.Rd | 53 ++ man/verify.Rd | 24 + tests/testthat/test-assertions.R | 740 ++++++++++++++++++++++++++++++++++++- tests/testthat/test-errors.R |only tests/testthat/test-utils.r | 20 + vignettes/assertr.Rmd | 121 +++++- 29 files changed, 1971 insertions(+), 359 deletions(-)