Title: Fit Text Inside a Box in 'ggplot2'
Description: Provides 'ggplot2' geoms to fit text into a box by growing, shrinking
or wrapping the text.
Author: David Wilkins [aut, cre]
Maintainer: David Wilkins <david@wilkox.org>
Diff between ggfittext versions 0.7.0 dated 2019-05-29 and 0.8.0 dated 2019-06-23
ggfittext-0.7.0/ggfittext/man/figures/README-doesnt_fit-1.png |only ggfittext-0.7.0/ggfittext/man/figures/README-geom_fit_text_2-1.png |only ggfittext-0.7.0/ggfittext/man/figures/README-geom_fit_text_3-1.png |only ggfittext-0.7.0/ggfittext/man/figures/README-heatmap-1.png |only ggfittext-0.7.0/ggfittext/man/figures/README-reflow-1.png |only ggfittext-0.7.0/ggfittext/man/figures/README-reflow_and_grow-1.png |only ggfittext-0.8.0/ggfittext/DESCRIPTION | 9 ggfittext-0.8.0/ggfittext/MD5 | 47 ggfittext-0.8.0/ggfittext/NAMESPACE | 1 ggfittext-0.8.0/ggfittext/NEWS.md | 26 ggfittext-0.8.0/ggfittext/R/data.R |only ggfittext-0.8.0/ggfittext/R/geom_bar_text.R |only ggfittext-0.8.0/ggfittext/R/geom_fit_text.R | 600 ++++++---- ggfittext-0.8.0/ggfittext/README.md | 336 ++--- ggfittext-0.8.0/ggfittext/data |only ggfittext-0.8.0/ggfittext/inst/doc/introduction-to-ggfittext.R | 160 -- ggfittext-0.8.0/ggfittext/inst/doc/introduction-to-ggfittext.Rmd | 299 ++-- ggfittext-0.8.0/ggfittext/inst/doc/introduction-to-ggfittext.html | 234 +-- ggfittext-0.8.0/ggfittext/man/altitudes.Rd |only ggfittext-0.8.0/ggfittext/man/animals.Rd |only ggfittext-0.8.0/ggfittext/man/coffees.Rd |only ggfittext-0.8.0/ggfittext/man/figures/README-hero-1.png |binary ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-10-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-11-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-12-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-4-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-5-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-6-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-7-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-8-1.png |only ggfittext-0.8.0/ggfittext/man/figures/README-unnamed-chunk-9-1.png |only ggfittext-0.8.0/ggfittext/man/geom_fit_text.Rd | 118 + ggfittext-0.8.0/ggfittext/tests/testthat/test-geom_fit_text.R | 5 ggfittext-0.8.0/ggfittext/vignettes/introduction-to-ggfittext.Rmd | 299 ++-- 34 files changed, 1098 insertions(+), 1036 deletions(-)
Title: 'RStudio' Addin for Removing Objects from the Global Environment
Based on Patterns and Object Type
Description: An 'RStudio' addin to assist with removing objects from the global environment. Features include removing objects according to name patterns and object type. During the course of an analysis, temporary objects are often created and this tool assists with removing them quickly. This can be useful when memory management within 'R' is important.
Author: Alan Yeung [aut, cre] (<https://orcid.org/0000-0001-5226-3695>)
Maintainer: Alan Yeung <alan_y987@hotmail.com>
Diff between objectremover versions 0.6.4 dated 2019-03-06 and 0.7.0 dated 2019-06-23
DESCRIPTION | 9 +++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/object_remove.R | 31 +++++++++++++++++++++++-------- README.md | 15 ++++++++++++--- 5 files changed, 48 insertions(+), 19 deletions(-)
Title: Access 'The Guardian' Newspaper Open Data API
Description: Access to 'The Guardian' newspaper's open API
<https://open-platform.theguardian.com/>, containing all articles published
in 'The Guardian' from 1999 to the present, including article text, metadata,
tags and contributor information. An API key and registration is required.
Author: Evan Odell [aut, cre] (<https://orcid.org/0000-0003-1845-808X>)
Maintainer: Evan Odell <evanodell91@gmail.com>
Diff between guardianapi versions 0.1.0 dated 2019-02-03 and 0.1.1 dated 2019-06-23
DESCRIPTION | 13 LICENSE | 4 MD5 | 73 +- NAMESPACE | 36 - NEWS.md | 7 R/api_key.R | 98 +-- R/content.R | 332 +++++------ R/editions.R | 114 ++-- R/guardianapi-package.R | 4 R/items.R | 322 +++++------ R/sections.R | 108 +-- R/tags.R | 314 +++++------ R/utils-baseurl.R | 4 R/utils-looper.R | 78 +- R/utils-tidy.R | 108 +-- README.md | 281 +++++----- build/vignette.rds |binary inst/doc/introduction.R | 296 +++++----- inst/doc/introduction.Rmd | 76 ++ inst/doc/introduction.html | 1056 ++++++++++++++++++-------------------- man/gu_api_key.Rd | 48 - man/gu_content.Rd | 248 ++++---- man/gu_editions.Rd | 76 +- man/gu_items.Rd | 238 ++++---- man/gu_section.Rd | 86 +-- man/gu_tags.Rd | 178 +++--- man/guardianapi.Rd | 34 - tests/testthat.R | 8 tests/testthat/test-content.R | 88 +-- tests/testthat/test-editions.R | 46 - tests/testthat/test-items.R | 20 tests/testthat/test-sections.R | 20 tests/testthat/test-tags.R | 58 +- vignettes/bradshaw-area.png |only vignettes/bradshaw-plot.png |only vignettes/introduction.Rmd | 76 ++ vignettes/logan-area.png |only vignettes/logan-bradshaw-comp.png |only vignettes/logan-plot.png |only vignettes/relations.rds |only vignettes/relations_sex.rds |only 41 files changed, 2335 insertions(+), 2213 deletions(-)
Title: Population Genetic Data Analysis Using Genepop
Description: Makes the Genepop software available in R. This software implements a mixture of traditional population genetic methods and some more focused developments: it computes exact tests for Hardy-Weinberg equilibrium, for population differentiation and for genotypic disequilibrium among pairs of loci; it computes estimates of F-statistics, null allele frequencies, allele size-based statistics for microsatellites, etc.; and it performs analyses of isolation by distance from pairwise comparisons of individuals or population samples.
Author: François Rousset [aut, cre, cph],
Jimmy Lopez [ctb],
Khalid Belkhir [ctb]
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between genepop versions 1.0.5 dated 2017-08-23 and 1.1.2 dated 2019-06-23
genepop-1.0.5/genepop/CHANGELOG |only genepop-1.0.5/genepop/README.md |only genepop-1.0.5/genepop/src/init.c |only genepop-1.1.2/genepop/DESCRIPTION | 14 genepop-1.1.2/genepop/MD5 | 86 +- genepop-1.1.2/genepop/NAMESPACE | 6 genepop-1.1.2/genepop/R/Genepop.R | 59 + genepop-1.1.2/genepop/R/RcppExports.R | 118 +-- genepop-1.1.2/genepop/R/summary.R |only genepop-1.1.2/genepop/inst/NEWS.Rd | 20 genepop-1.1.2/genepop/inst/doc/GenepopS.Rmd | 25 genepop-1.1.2/genepop/inst/doc/GenepopS.pdf |binary genepop-1.1.2/genepop/inst/doc/GenepopS.tex | 60 - genepop-1.1.2/genepop/inst/doc/all-menu-options.html | 32 - genepop-1.1.2/genepop/inst/doc/bibliography.html | 10 genepop-1.1.2/genepop/inst/doc/code-maintenance-credits-contact-etc-.html | 12 genepop-1.1.2/genepop/inst/doc/copyright.html | 12 genepop-1.1.2/genepop/inst/doc/evaluating-the-performance-of-inferences-for-isolation-by-distance.html | 12 genepop-1.1.2/genepop/inst/doc/genepop.bib | 30 genepop-1.1.2/genepop/inst/doc/installing-genepop-and-session-examples.html | 12 genepop-1.1.2/genepop/inst/doc/introduction.html | 22 genepop-1.1.2/genepop/inst/doc/methods.html | 12 genepop-1.1.2/genepop/inst/doc/opt81.md | 6 genepop-1.1.2/genepop/inst/doc/sec-settings.html | 12 genepop-1.1.2/genepop/inst/doc/the-input-file.html | 12 genepop-1.1.2/genepop/inst/extdoc/GenepopS.Rmd | 8 genepop-1.1.2/genepop/man/Contingency-test.Rd | 5 genepop-1.1.2/genepop/man/Differentiation.Rd | 1 genepop-1.1.2/genepop/man/Fst.Rd | 1 genepop-1.1.2/genepop/man/Hardy-Weinberg.Rd | 12 genepop-1.1.2/genepop/man/IBD.Rd | 11 genepop-1.1.2/genepop/man/Linkage.Rd | 2 genepop-1.1.2/genepop/man/Nm_private.Rd | 1 genepop-1.1.2/genepop/man/basic_info.Rd | 1 genepop-1.1.2/genepop/man/clean_workdir.Rd |only genepop-1.1.2/genepop/man/conversion.Rd | 1 genepop-1.1.2/genepop/man/genedivFis.Rd | 1 genepop-1.1.2/genepop/man/genepop-internals.Rd | 22 genepop-1.1.2/genepop/man/genepop-utils.Rd |only genepop-1.1.2/genepop/man/manipulation.Rd | 4 genepop-1.1.2/genepop/src/F_est.cpp | 301 +++++----- genepop-1.1.2/genepop/src/GenepopS.cpp | 137 ++-- genepop-1.1.2/genepop/src/RGenepop.cpp | 7 genepop-1.1.2/genepop/src/RcppExports.cpp | 183 ++++-- genepop-1.1.2/genepop/src/bootstrap.cpp | 33 - genepop-1.1.2/genepop/src/settings.cpp | 4 genepop-1.1.2/genepop/tests/testthat/test_IBD.R | 4 47 files changed, 748 insertions(+), 563 deletions(-)
Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Access and manipulate 'Microsoft Word' and 'Microsoft PowerPoint' documents from R.
The package focuses on tabular and graphical reporting from R; it also provides two functions
that let users get document content into data objects. A set of functions
lets add and remove images, tables and paragraphs of text in new or existing documents.
When working with 'PowerPoint' presentations, slides can be added or removed; shapes inside
slides can also be added or removed. When working with 'Word' documents, a cursor can be
used to help insert or delete content at a specific location in the document. The package
does not require any installation of Microsoft products to be able to write Microsoft files.
Author: David Gohel [aut, cre],
Frank Hangler [ctb] (function body_replace_all_text),
Liz Sander [ctb] (several documentation fixes),
Anton Victorson [ctb] (fixes xml structures),
Jon Calder [ctb] (update vignettes),
John Harrold [ctb] (fuction annotate_base)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officer versions 0.3.4 dated 2019-04-30 and 0.3.5 dated 2019-06-23
DESCRIPTION | 6 - MD5 | 61 +++++------ NAMESPACE | 2 NEWS | 16 ++ R/core_properties.R | 2 R/docx_add.R | 2 R/pack_folder.R | 2 R/ph_location.R | 9 - R/ppt_ph_add.R | 31 ++--- R/ppt_ph_with_methods.R | 187 +++++++++++++++++++++++----------- R/read_docx.R | 4 inst/doc/powerpoint.html | 28 ++--- inst/doc/word.html | 22 ++-- man/body_add_table.Rd | 2 man/location_eval.Rd |only man/ph_add_fpar.Rd | 8 - man/ph_add_par.Rd | 4 man/ph_add_text.Rd | 19 +-- man/ph_location.Rd | 6 - man/ph_with.Rd | 10 + man/ph_with_gg.Rd | 2 man/ph_with_img.Rd | 2 man/ph_with_table.Rd | 2 man/ph_with_text.Rd | 2 man/ph_with_ul.Rd | 2 tests/testthat/test-pptx-add-at.R | 4 tests/testthat/test-pptx-add.R | 32 ++--- tests/testthat/test-pptx-info.R | 8 - tests/testthat/test-pptx-misc.R | 22 ++-- tests/testthat/test-pptx-move.R | 6 - tests/testthat/test-pptx-selections.R | 16 +- tests/testthat/test-pptx-table.R | 4 32 files changed, 315 insertions(+), 208 deletions(-)
Title: Toolkit for Data Analytics in Human Resources
Description: Transform and analyze workforce data in meaningful ways for
human resources (HR) analytics. Two functions, 'hierarchyLong' and 'hierarchyWide',
convert standard employee and supervisor relationship data into useful formats.
A 'workforcePlan' app is available for simple workforce planning.
Author: Dale Kube [aut, cre]
Maintainer: Dale Kube <dkube@uwalumni.com>
Diff between hR versions 0.1.9 dated 2019-04-29 and 0.2.0 dated 2019-06-23
DESCRIPTION | 7 - MD5 | 25 ++-- R/hierarchyLong.R | 48 ++++--- R/hierarchyWide.R | 74 ++++++------ R/workforceHistory.R |only README.md | 9 + build/vignette.rds |binary data |only inst/doc/hR.R | 43 ++++--- inst/doc/hR.Rmd | 66 +++++----- inst/doc/hR.html | 290 ++++++++++-------------------------------------- man/hierarchyLong.Rd | 14 +- man/hierarchyWide.Rd | 13 +- man/workforceHistory.Rd |only vignettes/hR.Rmd | 66 +++++----- 15 files changed, 263 insertions(+), 392 deletions(-)
Title: Propensity to Cycle Tool
Description: Functions and example data to teach and
increase the reproducibility of the methods and code underlying
the Propensity to Cycle Tool (PCT), a research project and web application
hosted at <https://www.pct.bike/>.
For an academic paper on the methods,
see Lovelace et al (2017) <doi:10.5198/jtlu.2016.862>.
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>),
Layik Hama [aut] (<https://orcid.org/0000-0003-1912-4890>)
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between pct versions 0.2.1 dated 2019-05-14 and 0.2.2 dated 2019-06-23
DESCRIPTION | 8 MD5 | 22 NEWS.md | 5 R/msoa_centroids.R | 10 build/vignette.rds |binary inst/doc/pct-international.html | 4370 ++++++++++++++++++++++++++++++++- inst/doc/pct.html | 4385 ++++++++++++++++++++++++++++++++- inst/doc/pct_training.R | 193 + inst/doc/pct_training.Rmd | 313 ++ inst/doc/pct_training.html | 5172 +++++++++++++++++++++++++++++++++++++++- inst/rmd |only vignettes/pct_training.Rmd | 313 ++ 12 files changed, 14361 insertions(+), 430 deletions(-)
Title: Econometric Tools for Performance and Risk Analysis
Description: Collection of econometric functions for performance and risk
analysis. In addition to standard risk and performance metrics, this
package aims to aid practitioners and researchers in utilizing the latest
research in analysis of non-normal return streams. In general, it is most
tested on return (rather than price) data on a regular scale, but most
functions will work with irregular return data as well, and increasing
numbers of functions will work with P&L or price data where possible.
Author: Brian G. Peterson [cre, aut, cph],
Peter Carl [aut, cph],
Kris Boudt [ctb, cph],
Ross Bennett [ctb],
Joshua Ulrich [ctb],
Eric Zivot [ctb],
Dries Cornilly [ctb],
Eric Hung [ctb],
Matthieu Lestel [ctb],
Kyle Balkissoon [ctb],
Diethelm Wuertz [ctb]
Maintainer: Brian G. Peterson <brian@braverock.com>
Diff between PerformanceAnalytics versions 1.5.2 dated 2018-03-02 and 1.5.3 dated 2019-06-23
DESCRIPTION | 29 MD5 | 197 +++--- NAMESPACE | 1 R/CoMoments.R | 13 R/DrawdownPeak.R | 3 R/ES.R | 120 ++++ R/Level.calculate.R |only R/MarketTiming.R | 4 R/MultivariateMoments.R | 2 R/PortfolioRisk.R | 4 R/Return.annualized.R | 29 R/Return.calculate.R | 19 R/Return.clean.R | 2 R/Return.convert.R |only R/Return.portfolio.R | 35 - R/VaR.R | 174 +++++ R/chart.BarVaR.R | 2 R/chart.Correlation.R | 3 R/chart.QQPlot.R | 294 +++++----- R/checkSeedValue.R |only R/lpm.R | 54 + R/mean.utils.R | 6 R/table.Distributions.R | 6 R/table.DownsideRiskRatio.R | 4 R/table.Variability.R | 4 R/test_returns.R |only R/test_weights.R |only R/to.period.contributions.R | 5 R/zzz.R | 14 README.md | 4 build/vignette.rds |binary data/test_returns.rda |only data/test_weights.rda |only inst/doc/EstimationComoments.R | 1 inst/doc/EstimationComoments.pdf |binary inst/doc/PA-Bacon.R | 1 inst/doc/PA-Bacon.pdf |binary inst/doc/PA-charts.R | 1 inst/doc/PA-charts.pdf |binary inst/doc/PerformanceAnalyticsChartsPresentation-Meielisalp-2007.pdf |binary inst/doc/PerformanceAnalyticsPresentation-UseR-2007.pdf |binary inst/doc/portfolio_returns.R | 1 inst/doc/portfolio_returns.pdf |binary inst/doc/textplotPresentation-CRUG-2011.pdf |binary man/BetaCoMoments.Rd | 80 +- man/CAPM.RiskPremium.Rd | 3 man/CAPM.beta.Rd | 3 man/CDD.Rd | 3 man/CalmarRatio.Rd | 1 man/CoMoments.Rd | 10 man/DownsideDeviation.Rd | 3 man/ES.Rd | 59 +- man/EWMAMoments.Rd | 9 man/Level.calculate.Rd |only man/MCA.Rd | 8 man/MSquaredExcess.Rd | 3 man/MarketTiming.Rd | 2 man/Omega.Rd | 4 man/Return.calculate.Rd | 3 man/Return.clean.Rd | 3 man/Return.convert.Rd |only man/Return.portfolio.Rd | 5 man/Return.read.Rd | 7 man/SharpeRatio.Rd | 5 man/ShrinkageMoments.Rd | 12 man/SmoothingIndex.Rd | 3 man/StdDev.Rd | 6 man/StructuredMoments.Rd | 12 man/VaR.Rd | 24 man/VolatilitySkewness.Rd | 3 man/apply.rolling.Rd | 4 man/centeredmoments.Rd | 2 man/chart.ACF.Rd | 4 man/chart.Bar.Rd | 1 man/chart.BarVaR.Rd | 17 man/chart.Boxplot.Rd | 13 man/chart.CumReturns.Rd | 3 man/chart.Drawdown.Rd | 4 man/chart.Events.Rd | 4 man/chart.Histogram.Rd | 16 man/chart.QQPlot.Rd | 86 ++ man/chart.RiskReturnScatter.Rd | 12 man/chart.RollingMean.Rd | 4 man/chart.RollingRegression.Rd | 11 man/chart.Scatter.Rd | 8 man/chart.SnailTrail.Rd | 11 man/chart.TimeSeries.Rd | 41 - man/checkSeedValue.Rd |only man/findDrawdowns.Rd | 1 man/legend.Rd | 17 man/mean.geometric.Rd | 3 man/skewness.Rd | 3 man/table.CalendarReturns.Rd | 3 man/table.CaptureRatios.Rd | 1 man/table.Distributions.Rd | 2 man/table.DownsideRiskRatio.Rd | 2 man/table.ProbOutPerformance.Rd | 3 man/table.RollingPeriods.Rd | 5 man/table.Variability.Rd | 2 man/test_returns.Rd |only man/test_weights.Rd |only man/textplot.Rd | 52 - tests/Examples/PerformanceAnalytics-Ex.Rout.save | 197 ++++-- tests/testthat/test_ReturnPortfolio.R |only tests/testthat/test_toPeriodContributions.R | 21 vignettes/PerformanceAnalyticsGraphicalExamples.pdf |binary 106 files changed, 1150 insertions(+), 706 deletions(-)
More information about PerformanceAnalytics at CRAN
Permanent link
Title: Hierarchical Multiple Imputation
Description: Runs single level and multilevel imputation models. The user just has to pass the data to the main function and, optionally, his analysis model. Basically the package then translates this analysis model into commands to impute the data according to it with functions from 'mice', 'MCMCglmm' or routines build for this package.
Author: Matthias Speidel [aut, cre] (Munich, Germany),
Joerg Drechsler [aut] (Institute for Employment Research, Nuremberg,
Germany),
Shahab Jolani [aut] (Maastricht University, Maastricht, The
Netherlands)
Maintainer: Matthias Speidel <matthias.speidel@googlemail.com>
Diff between hmi versions 0.9.15 dated 2018-12-13 and 0.9.16 dated 2019-06-23
DESCRIPTION | 11 - MD5 | 14 - R/hmi_cycle.R | 2 R/hmi_imp_cont_multi.R | 11 + R/hmi_smallfunctions.R | 2 R/hmi_wrapper.R | 45 ++++- build/vignette.rds |binary inst/doc/myvignette.html | 385 ++++++++++++++++++++++++++++++++++++----------- 8 files changed, 357 insertions(+), 113 deletions(-)
Title: 'binb' is not 'Beamer'
Description: A collection of 'LaTeX' styles using 'Beamer' customization for
pdf-based presentation slides in 'RMarkdown'. At present it contains
'RMarkdown' adaptations of the LaTeX themes 'Metropolis' (formerly 'mtheme')
theme by Matthias Vogelgesang and others (now included in 'TeXLive'), the
'IQSS' by Ista Zahn (which is included here), and the 'Monash' theme by
Rob J Hyndman. Additional (free) fonts may be needed: 'Metropolis' prefers
'Fira', and 'IQSS' requires 'Libertinus'.
Author: Dirk Eddelbuettel, Ista Zahn and Rob Hyndman
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between binb versions 0.0.3 dated 2018-10-12 and 0.0.4 dated 2019-06-23
ChangeLog | 46 +++++++++- DESCRIPTION | 10 +- MD5 | 34 +++---- R/binb.R | 6 + README.md | 6 - build/vignette.rds |binary inst/NEWS.Rd | 14 +++ inst/doc/metropolisDemo.R | 22 ++++ inst/doc/metropolisDemo.Rmd | 34 +++++++ inst/doc/metropolisDemo.pdf |binary inst/monashDemo |only inst/rmarkdown/templates/iqss/resources/template.tex | 6 + inst/rmarkdown/templates/metropolis/resources/template.tex | 4 inst/rmarkdown/templates/monash/resources/template.tex | 22 +++- inst/rmarkdown/templates/monash/skeleton/beamerthememonash.sty | 6 - inst/rmarkdown/templates/presento/resources/template.tex | 4 man/metropolis.Rd | 10 +- vignettes/metropolisDemo.Rmd | 34 +++++++ 18 files changed, 216 insertions(+), 42 deletions(-)
Title: A Small Message Queue for Parallel Processes
Description: This queue is a data structure that lets
parallel processes send and receive messages,
and it can help coordinate the work
of complicated parallel tasks.
Processes can push new messages to the queue,
pop old messages, and obtain a
log of all the messages ever pushed. File locking
preserves the integrity of the data even when
multiple processes access the queue simultaneously.
Author: William Michael Landau [aut, cre]
(<https://orcid.org/0000-0003-1878-3253>),
Ian E. Fellows [ctb],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between txtq versions 0.1.2 dated 2019-01-06 and 0.1.3 dated 2019-06-23
DESCRIPTION | 6 +- MD5 | 10 +-- NEWS.md | 4 + R/txtq.R | 66 ++++++++++++----------- README.md | 163 ++++++++++++++++++++++++++++++++++------------------------ inst/WORDLIST | 2 6 files changed, 145 insertions(+), 106 deletions(-)
Title: Create Guitar Tablature
Description: Creates guitar tablature from R code by providing functions for describing and organizing musical structures and wrapping around the 'LilyPond' backend (<http://lilypond.org>).
'LilyPond' is open source music engraving software for generating high quality sheet music based on markup language. 'tabr' provides a wrapper around this
software and generates files following the 'LilyPond' markup syntax to be subsequently processed by 'LilyPond' into sheet music pdf files.
A standalone 'LilyPond' file can be created or the package can make a system call to 'LilyPond' directly to render the guitar tablature output.
While 'LilyPond' caters to sheet music in general, 'tabr' is focused on leveraging it specifically for creating quality guitar tablature.
'tabr' offers nominal MIDI file support in addition to its focus on tablature transcription. See the 'tuneR' package for more general use of MIDI files in R.
'tabr' also provides a collection of helper functions for manipulating and transforming strings of musical notes, pitches, chords, keys, scales and modes.
Author: Matthew Leonawicz [aut, cre]
Maintainer: Matthew Leonawicz <matt_leonawicz@esource.com>
Diff between tabr versions 0.2.0 dated 2018-05-17 and 0.3.0 dated 2019-06-23
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Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>,
Rolf Turner <r.turner@auckland.ac.nz>
and Ege Rubak <rubak@math.aau.dk>,
with substantial contributions of code by
Kasper Klitgaard Berthelsen;
Ottmar Cronie;
Tilman Davies;
Yongtao Guan;
Ute Hahn;
Abdollah Jalilian;
Marie-Colette van Lieshout;
Greg McSwiggan;
Tuomas Rajala;
Suman Rakshit;
Dominic Schuhmacher;
Rasmus Waagepetersen;
and Hangsheng Wang.
Additional contributions
by M. Adepeju;
C. Anderson;
Q.W. Ang;
R. Arellano;
J. Astrom;
M. Austenfeld;
S. Azaele;
M. Baddeley;
C. Beale;
M. Bell;
R. Bernhardt;
T. Bendtsen;
A. Bevan;
B. Biggerstaff;
A. Bilgrau;
L. Bischof;
C. Biscio;
R. Bivand;
J.M. Blanco Moreno;
F. Bonneu;
J. Burgos;
S. Byers;
Y.M. Chang;
J.B. Chen;
I. Chernayavsky;
Y.C. Chin;
B. Christensen;
L. Cobo Sanchez;
J.-F. Coeurjolly;
K. Colyvas;
H. Commenges;
R. Constantine;
R. Corria Ainslie;
R. Cotton;
M. de la Cruz;
P. Dalgaard;
M. D'Antuono;
S. Das;
P.J. Diggle;
P. Donnelly;
I. Dryden;
S. Eglen;
A. El-Gabbas;
B. Fandohan;
O. Flores;
E.D. Ford;
P. Forbes;
S. Frank;
J. Franklin;
N. Funwi-Gabga;
O. Garcia;
A. Gault;
J. Geldmann;
M. Genton;
S. Ghalandarayeshi;
J. Gilbey;
J. Goldstick;
P. Grabarnik;
C. Graf;
U. Hahn;
A. Hardegen;
M.B. Hansen;
M. Hazelton;
J. Heikkinen;
M. Hering;
M. Herrmann;
M. Hesselbarth;
P. Hewson;
H. Heydarian;
K. Hingee;
K. Hornik;
P. Hunziker;
J. Hywood;
R. Ihaka;
C. Icos;
A. Jammalamadaka;
R. John-Chandran;
D. Johnson;
M. Khanmohammadi;
R. Klaver;
P. Kovesi;
L. Kozmian-Ledward;
M. Kuhn;
J. Laake;
R.A. Lamb;
F. Lavancier;
T. Lawrence;
T. Lazauskas;
J. Lee;
G.P. Leser;
A. Li;
H.T. Li;
G. Limitsios;
A. Lister;
B. Madin;
M. Maechler;
J. Marcus;
K. Marchikanti;
R. Mark;
J. Mateu;
P. McCullagh;
U. Mehlig;
F. Mestre;
S. Meyer;
X.C. Mi;
L. De Middeleer;
R.K. Milne;
E. Miranda;
J. Moller;
I. Moncada;
M. Moradi;
V. Morera Pujol;
E. Mudrak;
G.M. Nair;
N. Najari;
N. Nava;
L.S. Nielsen;
F. Nunes;
J.R. Nyengaard;
J. Oehlschlaegel;
T. Onkelinx;
S. O'Riordan;
E. Parilov;
J. Picka;
N. Picard;
T. Pollington;
M. Porter;
S. Protsiv;
A. Raftery;
S. Rakshit;
B. Ramage;
P. Ramon;
X. Raynaud;
N. Read;
M. Reiter;
I. Renner;
T.O. Richardson;
B.D. Ripley;
E. Rosenbaum;
B. Rowlingson;
J. Rudokas;
J. Rudge;
C. Ryan;
F. Safavimanesh;
A. Sarkka;
C. Schank;
K. Schladitz;
S. Schutte;
B.T. Scott;
O. Semboli;
F. Semecurbe;
V. Shcherbakov;
G.C. Shen;
P. Shi;
H.-J. Ship;
T.L. Silva;
I.-M. Sintorn;
Y. Song;
M. Spiess;
M. Stevenson;
K. Stucki;
J. Sulavik;
M. Sumner;
P. Surovy;
B. Taylor;
T. Thorarinsdottir;
L. Torres;
B. Turlach;
T. Tvedebrink;
K. Ummer;
M. Uppala;
A. van Burgel;
T. Verbeke;
M. Vihtakari;
A. Villers;
F. Vinatier;
S. Voss;
S. Wagner;
H. Wang;
H. Wendrock;
J. Wild;
C. Witthoft;
S. Wong;
M. Woringer;
L. Yates;
M.E. Zamboni
and
A. Zeileis.
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 1.59-0 dated 2019-03-22 and 1.60-1 dated 2019-06-23
spatstat-1.59-0/spatstat/R/daogenton.R |only spatstat-1.60-1/spatstat/DESCRIPTION | 13 spatstat-1.60-1/spatstat/MD5 | 174 +++++----- spatstat-1.60-1/spatstat/NAMESPACE | 24 + spatstat-1.60-1/spatstat/NEWS | 138 ++++++++ spatstat-1.60-1/spatstat/R/Kinhom.R | 44 ++ spatstat-1.60-1/spatstat/R/Kmeasure.R | 11 spatstat-1.60-1/spatstat/R/Kmulti.inhom.R | 30 - spatstat-1.60-1/spatstat/R/bw.abram.R | 18 - spatstat-1.60-1/spatstat/R/colourtools.R | 4 spatstat-1.60-1/spatstat/R/dclftest.R | 89 +++-- spatstat-1.60-1/spatstat/R/densityVoronoi.R | 19 - spatstat-1.60-1/spatstat/R/edgeRipley.R | 49 ++- spatstat-1.60-1/spatstat/R/eval.fv.R | 21 - spatstat-1.60-1/spatstat/R/eval.im.R | 24 - spatstat-1.60-1/spatstat/R/fv.R | 6 spatstat-1.60-1/spatstat/R/linim.R | 26 - spatstat-1.60-1/spatstat/R/localK.R | 91 ++--- spatstat-1.60-1/spatstat/R/localKcross.R |only spatstat-1.60-1/spatstat/R/localpcf.R | 36 -- spatstat-1.60-1/spatstat/R/lohboot.R | 238 ++++++++++++-- spatstat-1.60-1/spatstat/R/markcorr.R | 12 spatstat-1.60-1/spatstat/R/nndistlpp.R | 6 spatstat-1.60-1/spatstat/R/parres.R | 16 - spatstat-1.60-1/spatstat/R/pcfinhom.R | 7 spatstat-1.60-1/spatstat/R/plot.im.R | 9 spatstat-1.60-1/spatstat/R/predict.ppm.R | 6 spatstat-1.60-1/spatstat/R/psp.R | 12 spatstat-1.60-1/spatstat/R/rLGCP.R | 56 ++- spatstat-1.60-1/spatstat/R/random.R | 20 + spatstat-1.60-1/spatstat/R/rlabel.R | 28 + spatstat-1.60-1/spatstat/R/rmhmodel.R | 49 ++- spatstat-1.60-1/spatstat/R/stienen.R | 12 spatstat-1.60-1/spatstat/R/sysdata.rda |binary spatstat-1.60-1/spatstat/R/twostage.R |only spatstat-1.60-1/spatstat/R/unique.ppp.R | 84 +++-- spatstat-1.60-1/spatstat/R/uniquemap.R |only spatstat-1.60-1/spatstat/R/vblogistic.R | 5 spatstat-1.60-1/spatstat/build/vignette.rds |binary spatstat-1.60-1/spatstat/inst/doc/Nickname.txt | 3 spatstat-1.60-1/spatstat/inst/doc/bugfixes.pdf |binary spatstat-1.60-1/spatstat/inst/doc/datasets.pdf |binary spatstat-1.60-1/spatstat/inst/doc/getstart.pdf |binary spatstat-1.60-1/spatstat/inst/doc/packagesizes.txt | 2 spatstat-1.60-1/spatstat/inst/doc/replicated.pdf |binary spatstat-1.60-1/spatstat/inst/doc/shapefiles.pdf |binary spatstat-1.60-1/spatstat/inst/doc/spatstatlocalsize.txt | 2 spatstat-1.60-1/spatstat/inst/doc/updates.Rnw | 109 ++++++ spatstat-1.60-1/spatstat/inst/doc/updates.pdf |binary spatstat-1.60-1/spatstat/man/Jcross.Rd | 2 spatstat-1.60-1/spatstat/man/Jdot.Rd | 2 spatstat-1.60-1/spatstat/man/Kcross.inhom.Rd | 2 spatstat-1.60-1/spatstat/man/Kdot.Rd | 7 spatstat-1.60-1/spatstat/man/Kdot.inhom.Rd | 2 spatstat-1.60-1/spatstat/man/angles.psp.Rd | 6 spatstat-1.60-1/spatstat/man/bits.envelope.Rd |only spatstat-1.60-1/spatstat/man/bw.abram.Rd | 53 ++- spatstat-1.60-1/spatstat/man/compatible.fv.Rd | 11 spatstat-1.60-1/spatstat/man/dg.envelope.Rd | 4 spatstat-1.60-1/spatstat/man/endpoints.psp.Rd | 7 spatstat-1.60-1/spatstat/man/extrapolate.psp.Rd |only spatstat-1.60-1/spatstat/man/lengths.psp.Rd | 5 spatstat-1.60-1/spatstat/man/localK.Rd | 7 spatstat-1.60-1/spatstat/man/localKcross.Rd |only spatstat-1.60-1/spatstat/man/localKcross.inhom.Rd |only spatstat-1.60-1/spatstat/man/localKdot.Rd |only spatstat-1.60-1/spatstat/man/localKinhom.Rd | 29 + spatstat-1.60-1/spatstat/man/localpcf.Rd | 24 + spatstat-1.60-1/spatstat/man/lohboot.Rd | 29 + spatstat-1.60-1/spatstat/man/midpoints.psp.Rd | 7 spatstat-1.60-1/spatstat/man/nnclean.Rd | 8 spatstat-1.60-1/spatstat/man/nndist.Rd | 2 spatstat-1.60-1/spatstat/man/pcfinhom.Rd | 3 spatstat-1.60-1/spatstat/man/plot.im.Rd | 27 + spatstat-1.60-1/spatstat/man/plot.linim.Rd | 30 + spatstat-1.60-1/spatstat/man/psp.Rd | 13 spatstat-1.60-1/spatstat/man/rlabel.Rd | 27 + spatstat-1.60-1/spatstat/man/rthin.Rd | 19 - spatstat-1.60-1/spatstat/man/spatstat-internal.Rd | 21 + spatstat-1.60-1/spatstat/man/spatstat-package.Rd | 7 spatstat-1.60-1/spatstat/man/uniquemap.default.Rd |only spatstat-1.60-1/spatstat/man/uniquemap.ppp.Rd |only spatstat-1.60-1/spatstat/src/corrections.c | 255 +--------------- spatstat-1.60-1/spatstat/src/init.c | 4 spatstat-1.60-1/spatstat/src/proto.h | 6 spatstat-1.60-1/spatstat/src/ripleypoly.h |only spatstat-1.60-1/spatstat/src/uniquemap.c |only spatstat-1.60-1/spatstat/src/uniquemap.h |only spatstat-1.60-1/spatstat/tests/testsAtoD.R | 61 +++ spatstat-1.60-1/spatstat/tests/testsGtoK.R | 96 +++++- spatstat-1.60-1/spatstat/tests/testsLtoM.R | 17 - spatstat-1.60-1/spatstat/tests/testsNtoP.R | 44 ++ spatstat-1.60-1/spatstat/tests/testsQtoR.R | 58 +++ spatstat-1.60-1/spatstat/tests/testsStoZ.R | 32 +- spatstat-1.60-1/spatstat/vignettes/updates.Rnw | 109 ++++++ 95 files changed, 1705 insertions(+), 824 deletions(-)
Title: Compute Krippendorff's Alpha
Description: Provides functions to compute and plot Krippendorff's inter-coder
reliability coefficient alpha and bootstrapped uncertainty estimates
(Krippendorff 2004, ISBN:0761915443). The bootstrap routines are set up to
make use of parallel threads where supported.
Author: Alexander Staudt [aut, cre], Pierre L'Ecuyer [ctb] (author of the C++ RNG code)
Maintainer: Alexander Staudt <staudtlex@live.de>
Diff between icr versions 0.5.9 dated 2019-02-14 and 0.6.0 dated 2019-06-23
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- src/alpha.cpp | 2 +- src/alpha.h | 4 +++- src/bootstrap_alpha.cpp | 40 +++++++++++++++++++++++++++++++++++++++- src/bootstrap_alpha.h | 4 +++- 6 files changed, 55 insertions(+), 13 deletions(-)
Title: Antimicrobial Resistance Analysis
Description: Functions to simplify the analysis and prediction of Antimicrobial
Resistance (AMR) and to work with microbial and antimicrobial properties by
using evidence-based methods.
Author: Matthijs S. Berends [aut, cre]
(<https://orcid.org/0000-0001-7620-1800>),
Christian F. Luz [aut] (<https://orcid.org/0000-0001-5809-5995>),
Erwin E. A. Hassing [ctb],
Corinna Glasner [aut, ths] (<https://orcid.org/0000-0003-1241-1328>),
Alex W. Friedrich [aut, ths] (<https://orcid.org/0000-0003-4881-038X>),
Bhanu N. M. Sinha [aut, ths] (<https://orcid.org/0000-0003-1634-0010>)
Maintainer: Matthijs S. Berends <m.s.berends@umcg.nl>
Diff between AMR versions 0.7.0 dated 2019-06-03 and 0.7.1 dated 2019-06-23
AMR-0.7.0/AMR/inst/doc/ab_property.R |only AMR-0.7.0/AMR/inst/doc/ab_property.Rmd |only AMR-0.7.0/AMR/inst/doc/ab_property.html |only AMR-0.7.0/AMR/inst/doc/mo_property.R |only AMR-0.7.0/AMR/inst/doc/mo_property.Rmd |only AMR-0.7.0/AMR/inst/doc/mo_property.html |only AMR-0.7.0/AMR/vignettes/ab_property.Rmd |only AMR-0.7.0/AMR/vignettes/mo_property.Rmd |only AMR-0.7.1/AMR/DESCRIPTION | 8 AMR-0.7.1/AMR/MD5 | 135 ++---- AMR-0.7.1/AMR/NAMESPACE | 10 AMR-0.7.1/AMR/NEWS.md | 61 ++ AMR-0.7.1/AMR/R/ab.R | 56 +- AMR-0.7.1/AMR/R/ab_property.R | 19 AMR-0.7.1/AMR/R/age.R | 9 AMR-0.7.1/AMR/R/amr.R | 1 AMR-0.7.1/AMR/R/catalogue_of_life.R | 15 AMR-0.7.1/AMR/R/count.R | 6 AMR-0.7.1/AMR/R/data.R | 11 AMR-0.7.1/AMR/R/eucast_rules.R | 14 AMR-0.7.1/AMR/R/extended.R |only AMR-0.7.1/AMR/R/first_isolate.R | 16 AMR-0.7.1/AMR/R/freq.R | 26 + AMR-0.7.1/AMR/R/ggplot_rsi.R | 48 +- AMR-0.7.1/AMR/R/globals.R | 2 AMR-0.7.1/AMR/R/key_antibiotics.R | 63 +- AMR-0.7.1/AMR/R/mic.R | 48 +- AMR-0.7.1/AMR/R/misc.R | 21 AMR-0.7.1/AMR/R/mo.R | 84 ++- AMR-0.7.1/AMR/R/mo_property.R | 142 ++++-- AMR-0.7.1/AMR/R/portion.R | 4 AMR-0.7.1/AMR/R/rsi.R | 64 +- AMR-0.7.1/AMR/R/rsi_calc.R | 16 AMR-0.7.1/AMR/R/rsi_df.R |only AMR-0.7.1/AMR/R/sysdata.rda |binary AMR-0.7.1/AMR/R/zzz.R | 34 + AMR-0.7.1/AMR/build/vignette.rds |binary AMR-0.7.1/AMR/data/antibiotics.rda |binary AMR-0.7.1/AMR/data/microorganisms.codes.rda |binary AMR-0.7.1/AMR/data/microorganisms.old.rda |binary AMR-0.7.1/AMR/data/microorganisms.rda |binary AMR-0.7.1/AMR/inst/doc/AMR.R | 38 - AMR-0.7.1/AMR/inst/doc/AMR.Rmd | 60 +- AMR-0.7.1/AMR/inst/doc/AMR.html | 528 +++++++++++------------- AMR-0.7.1/AMR/inst/doc/EUCAST.html | 4 AMR-0.7.1/AMR/inst/doc/MDR.html | 60 +- AMR-0.7.1/AMR/inst/doc/SPSS.html | 6 AMR-0.7.1/AMR/inst/doc/WHONET.html | 8 AMR-0.7.1/AMR/inst/doc/benchmarks.html | 78 +-- AMR-0.7.1/AMR/inst/doc/freq.html | 22 - AMR-0.7.1/AMR/inst/doc/resistance_predict.R | 4 AMR-0.7.1/AMR/inst/doc/resistance_predict.Rmd | 4 AMR-0.7.1/AMR/inst/doc/resistance_predict.html | 16 AMR-0.7.1/AMR/man/antibiotics.Rd | 2 AMR-0.7.1/AMR/man/as.mo.Rd | 7 AMR-0.7.1/AMR/man/catalogue_of_life.Rd | 6 AMR-0.7.1/AMR/man/catalogue_of_life_version.Rd | 4 AMR-0.7.1/AMR/man/count.Rd | 6 AMR-0.7.1/AMR/man/extended-functions.Rd |only AMR-0.7.1/AMR/man/ggplot_rsi.Rd | 22 - AMR-0.7.1/AMR/man/key_antibiotics.Rd | 42 + AMR-0.7.1/AMR/man/microorganisms.Rd | 9 AMR-0.7.1/AMR/man/mo_property.Rd | 15 AMR-0.7.1/AMR/man/portion.Rd | 11 AMR-0.7.1/AMR/tests/testthat/Rplots.pdf |binary AMR-0.7.1/AMR/tests/testthat/test-ab.R | 4 AMR-0.7.1/AMR/tests/testthat/test-count.R | 6 AMR-0.7.1/AMR/tests/testthat/test-data.R | 7 AMR-0.7.1/AMR/tests/testthat/test-ggplot_rsi.R | 12 AMR-0.7.1/AMR/tests/testthat/test-mo.R | 15 AMR-0.7.1/AMR/tests/testthat/test-mo_property.R | 97 ++-- AMR-0.7.1/AMR/tests/testthat/test-portion.R | 6 AMR-0.7.1/AMR/vignettes/AMR.Rmd | 60 +- AMR-0.7.1/AMR/vignettes/resistance_predict.Rmd | 4 74 files changed, 1174 insertions(+), 902 deletions(-)
Title: eBird Data Extraction and Processing in R
Description: Extract and process bird sightings records from
eBird (<http://ebird.org>), an online tool for recording bird
observations. Public access to the full eBird database is via the
eBird Basic Dataset (EBD; see <http://ebird.org/ebird/data/download>
for access), a downloadable text file. This package is an interface to
AWK for extracting data from the EBD based on taxonomic, spatial, or
temporal filters, to produce a manageable file size that can be
imported into R.
Author: Matthew Strimas-Mackey [aut, cre]
(<https://orcid.org/0000-0001-8929-7776>),
Eliot Miller [aut],
Wesley Hochachka [aut],
Cornell Lab of Ornithology [cph]
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>
Diff between auk versions 0.3.2 dated 2019-02-04 and 0.3.3 dated 2019-06-23
DESCRIPTION | 6 MD5 | 50 - NEWS.md | 10 R/auk-date.r | 21 R/auk-filter.r | 1191 ++++++++++++++++++------------------ R/auk-protocol.r | 17 R/auk-rollup.r | 4 R/auk-select.r | 183 ++--- R/auk-set-awk-path.r | 120 +-- R/auk-set-ebd-path.r | 104 +-- R/auk-version.r | 4 R/data.r | 9 R/ebird-species.r | 2 build/vignette.rds |binary data/valid_protocols.rda |only inst/doc/auk.html | 15 inst/doc/development.html | 3 man/auk_date.Rd | 8 man/auk_protocol.Rd | 10 man/auk_rollup.Rd | 2 man/auk_select.Rd | 3 man/auk_version.Rd | 2 man/ebird_species.Rd | 2 man/valid_protocols.Rd |only tests/testthat/test_auk-filter.r | 398 ++++++------ tests/testthat/test_ebird-species.r | 2 tests/testthat/test_filters.r | 9 27 files changed, 1112 insertions(+), 1063 deletions(-)
Title: Extra String Manipulation Functions
Description: There are some things that I wish were easier with the 'stringr'
or 'stringi' packages. The foremost of these is the extraction of numbers
from strings. 'stringr' and 'stringi' make you figure out the regular
expression for yourself; 'strex' takes care of this for you. There are many
other handy functionalities in 'strex'. Contributions to this package are
encouraged: it is intended as a miscellany of string manipulation functions
that cannot be found in 'stringi' or 'stringr'.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between strex versions 1.1.0 dated 2019-06-15 and 1.1.1 dated 2019-06-23
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 7 +++++++ build/partial.rdb |binary inst/doc/alphordering-numbers.html | 4 ++-- inst/doc/argument-matching.html | 4 ++-- inst/doc/before-and-after.html | 4 ++-- inst/doc/important-miscellany.html | 4 ++-- inst/doc/numbers-in-strings.html | 4 ++-- src/split-by-nums.cpp | 2 +- 10 files changed, 32 insertions(+), 25 deletions(-)
Title: Analyze Cricketers and Cricket Teams Based on ESPN Cricinfo
Statsguru
Description: Tools for analyzing performances of cricketers based on stats in
ESPN Cricinfo Statsguru. The toolset can be used for analysis of Tests,ODIs
and Twenty20 matches of both batsmen and bowlers. The package can also be used to
analyze team performances.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between cricketr versions 0.0.19 dated 2019-06-08 and 0.0.20 dated 2019-06-23
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/getTeamNumber.R | 2 +- R/plotTimelineofWinsLosses.R | 2 +- R/teamWinLossStatusAtGrounds.R | 8 +++++--- R/teamWinLossStatusVsOpposition.R | 21 +++++++++++---------- build/partial.rdb |binary 7 files changed, 28 insertions(+), 25 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 0.2-5 dated 2019-02-27 and 0.2-6 dated 2019-06-23
DESCRIPTION | 13 ++++++----- MD5 | 26 +++++++++++------------ NAMESPACE | 3 +- R/methods.R | 3 ++ R/tram.R | 6 ++++- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 6 +++++ inst/doc/tram.pdf |binary man/Lm.Rd | 2 - man/tram.Rd | 2 - tests/Coxph-Ex.R | 20 ++++++++++++++++++ tests/Coxph-Ex.Rout.save | 26 ++++++++++++++++++++--- tests/bugfixes.R | 52 +++++++++++++++++++++++++++++++++++++++++++++++ 14 files changed, 133 insertions(+), 26 deletions(-)
Title: Sample Size Calculations for Complex Surveys
Description: Computes the required sample size for estimation of totals, means
and proportions under complex sampling designs.
Author: Hugo Andres Gutierrez Rojas
Maintainer: Hugo Andres Gutierrez Rojas <hagutierrezro@gmail.com>
Diff between samplesize4surveys versions 3.6.1.0 dated 2018-07-23 and 3.7.5.1 dated 2019-06-23
DESCRIPTION | 10 - MD5 | 32 +-- NAMESPACE | 1 R/ss4pLN.R |only build/vignette.rds |binary inst/doc/Power-and-sample-size.html | 327 ++++++++++++++++++++++++++++++------ man/b4ddm.Rd | 4 man/e4dm.Rd | 3 man/e4dp.Rd | 3 man/ss4ddm.Rd | 3 man/ss4ddmH.Rd | 5 man/ss4ddp.Rd | 4 man/ss4ddpH.Rd | 4 man/ss4dmH.Rd | 4 man/ss4dp.Rd | 4 man/ss4dpH.Rd | 4 man/ss4p.Rd | 3 man/ss4pLN.Rd |only 18 files changed, 323 insertions(+), 88 deletions(-)
More information about samplesize4surveys at CRAN
Permanent link
Title: Most Likely Transformations: Documentation and Regression Tests
Description: Additional documentation, a package vignette and
regression tests for package mlt.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt.docreg versions 1.0-2 dated 2018-08-16 and 1.0-3 dated 2019-06-23
DESCRIPTION | 11 +++--- MD5 | 14 +++---- build/vignette.rds |binary inst/NEWS.Rd | 5 ++ inst/doc/mlt.pdf |binary tests/AFT-Ex.Rout.save | 76 +++++++++++++++++++++--------------------- tests/GBSG2.Rout.save | 16 ++++---- tests/timedep_covar.Rout.save | 10 ++--- 8 files changed, 69 insertions(+), 63 deletions(-)
Title: Missing Outcome Data in Health Economic Evaluation
Description: Contains a suite of functions for health economic evaluations with missing outcome data.
The package can fit different types of statistical models under a fully Bayesian approach using the software 'JAGS' (which should be installed locally and which is loaded in 'missingHE' via the 'R' package 'R2jags').
Three classes of models can be fitted under a variety of missing data assumptions: selection models, pattern mixture models and hurdle models.
In addition to model fitting, 'missingHE' provides a set of specialised functions to assess model convergence and summarise the statistical and economic results using different types of measures and graphs.
The methods implemented are described in Mason (2018) <doi:10.1002/hec.3793>, Molenberghs (2000) <doi:10.1007/978-1-4419-0300-6_18> and Gabrio (2019) <doi:10.1002/sim.8045>.
Author: Andrea Gabrio [aut, cre]
Maintainer: Andrea Gabrio <ucakgab@ucl.ac.uk>
Diff between missingHE versions 1.0.1 dated 2019-06-05 and 1.1.1 dated 2019-06-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/print.missingHE.R | 28 +++++++++++++++++----------- man/print.missingHE.Rd | 7 ++++++- 4 files changed, 29 insertions(+), 18 deletions(-)
Title: Calculates the Leaf Area Index (LAD) and Other Related Functions
Description: A set of functions for analyzing the structure
of forests based on the leaf area density (LAD) and leaf area index (LAI) measures
calculated from Airborne Laser Scanning (ALS), i.e., scanning lidar (Light Detection
and Ranging) data. The methodology is discussed and described in
Almeida et al. (2019) <doi:10.3390/rs11010092> and
Stark et al. (2012) <doi:10.1111/j.1461-0248.2012.01864.x>.
Author: Danilo Roberti Alves de Almeida [aut, cre]
(<https://orcid.org/0000-0002-8747-0085>),
Scott Christopher Stark [aut] (<https://orcid.org/0000-0002-1579-1648>),
Carlos Alberto Silva [aut] (<https://orcid.org/0000-0002-7844-3560>),
Caio Hamamura [aut] (<https://orcid.org/0000-0001-6149-5885>)
Maintainer: Danilo Roberti Alves de Almeida <daniloflorestas@gmail.com>
Diff between leafR versions 0.1.4 dated 2019-06-11 and 0.2 dated 2019-06-23
DESCRIPTION | 12 +++++------ MD5 | 7 +++--- NAMESPACE | 2 + R/main.R | 52 +++++++++++++++++++++++++++++++++++++++++++------- man/pointsByZSlice.Rd |only 5 files changed, 57 insertions(+), 16 deletions(-)
Title: Tools for Message Passing Between Processes
Description: Provides tools for passing messages between R processes.
Shiny Examples are provided showing how to perform useful tasks such as:
updating reactive values from within a future, progress bars for long running
async tasks, and interrupting async tasks based on user input.
Author: Ian E. Fellows
Maintainer: Ian E. Fellows <ian@fellstat.com>
Diff between ipc versions 0.1.2 dated 2019-01-11 and 0.1.3 dated 2019-06-23
ipc-0.1.2/ipc/README.md |only ipc-0.1.3/ipc/DESCRIPTION | 8 ipc-0.1.3/ipc/MD5 | 17 ipc-0.1.3/ipc/R/async-progress.R | 6 ipc-0.1.3/ipc/inst/doc/shinymp.R | 2 ipc-0.1.3/ipc/inst/doc/shinymp.Rmd | 10 ipc-0.1.3/ipc/inst/doc/shinymp.html | 830 +++++++++++++++++++------------ ipc-0.1.3/ipc/man/AsyncProgress.Rd | 6 ipc-0.1.3/ipc/tests/testthat/test-main.R | 5 ipc-0.1.3/ipc/vignettes/shinymp.Rmd | 10 10 files changed, 552 insertions(+), 342 deletions(-)
Title: Benchmarking and Visualization Toolkit for Penalized Cox Models
Description: Creates nomogram visualizations for penalized Cox regression
models, with the support of reproducible survival model building,
validation, calibration, and comparison for high-dimensional data.
Author: Nan Xiao [aut, cre] (<https://orcid.org/0000-0002-0250-5673>),
Qing-Song Xu [aut],
Miao-Zhu Li [aut],
Frank Harrell [ctb]
Maintainer: Nan Xiao <me@nanx.me>
Diff between hdnom versions 5.0 dated 2018-05-13 and 6.0.0 dated 2019-06-23
hdnom-5.0/hdnom/R/01-hdnom-models.R |only hdnom-5.0/hdnom/R/02-hdnom-nomogram.R |only hdnom-5.0/hdnom/R/03-hdnom-validate.R |only hdnom-5.0/hdnom/R/04-hdnom-calibrate.R |only hdnom-5.0/hdnom/R/05-hdnom-external-validate.R |only hdnom-5.0/hdnom/R/06-hdnom-external-calibrate.R |only hdnom-5.0/hdnom/R/07-hdnom-kmplot.R |only hdnom-5.0/hdnom/R/08-hdnom-logrank.R |only hdnom-5.0/hdnom/R/09-hdnom-compare-validate.R |only hdnom-5.0/hdnom/R/10-hdnom-compare-calibrate.R |only hdnom-5.0/hdnom/R/11-hdnom-color-palette.R |only hdnom-5.0/hdnom/R/hdnom-datalist.R |only hdnom-5.0/hdnom/R/hdnom-package.R |only hdnom-5.0/hdnom/TODO |only hdnom-5.0/hdnom/man/glmnet.basesurv.Rd |only hdnom-5.0/hdnom/man/glmnet.calibrate.internal.pred.Rd |only hdnom-5.0/hdnom/man/glmnet.external.calibrate.internal.pred.Rd |only hdnom-5.0/hdnom/man/glmnet.external.validate.internal.Rd |only hdnom-5.0/hdnom/man/glmnet.survcurve.Rd |only hdnom-5.0/hdnom/man/glmnet.tune.alpha.Rd |only 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Title: 'ggplot2' Based Publication Ready Plots
Description: The 'ggplot2' package is excellent and flexible for elegant data
visualization in R. However the default generated plots requires some formatting
before we can send them for publication. Furthermore, to customize a 'ggplot',
the syntax is opaque and this raises the level of difficulty for researchers
with no advanced R programming skills. 'ggpubr' provides some easy-to-use
functions for creating and customizing 'ggplot2'- based publication ready plots.
Author: Alboukadel Kassambara [aut, cre]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>
Diff between ggpubr versions 0.2 dated 2018-11-15 and 0.2.1 dated 2019-06-23
DESCRIPTION | 15 +- MD5 | 102 ++++++++--------- NAMESPACE | 2 NEWS.md | 22 +++ R/compare_means.R | 9 - R/facet.R | 14 +- R/ggadd.R | 2 R/ggarrange.R | 14 ++ R/ggbarplot.R | 3 R/ggdotplot.R | 4 R/gghistogram.R | 1 R/ggscatter.R | 2 R/ggviolin.R | 3 R/reexports.R | 4 R/stat_compare_means.R | 13 +- R/stat_cor.R | 17 ++ R/stat_pvalue_manual.R | 143 ++++++++++++++++++++----- man/annotate_figure.Rd | 7 - man/facet.Rd | 11 + man/font.Rd | 3 man/ggadd.Rd | 5 man/ggarrange.Rd | 10 - man/ggballoonplot.Rd | 9 - man/ggbarplot.Rd | 21 +-- man/ggboxplot.Rd | 19 +-- man/ggdensity.Rd | 3 man/ggdonutchart.Rd | 8 - man/ggdotchart.Rd | 19 +-- man/ggdotplot.Rd | 20 +-- man/ggerrorplot.Rd | 11 + man/ggexport.Rd | 4 man/gghistogram.Rd | 10 - man/ggline.Rd | 21 +-- man/ggmaplot.Rd | 6 - man/ggpaired.Rd | 11 + man/ggpar.Rd | 15 +- man/ggparagraph.Rd | 4 man/ggpie.Rd | 6 - man/ggqqplot.Rd | 4 man/ggscatter.Rd | 17 +- man/ggscatterhist.Rd | 4 man/ggstripchart.Rd | 14 +- man/ggtext.Rd | 4 man/ggtexttable.Rd | 9 - man/ggviolin.Rd | 10 - man/reexports.Rd | 5 man/rotate_axis_text.Rd | 1 man/stat_compare_means.Rd | 14 +- man/stat_cor.Rd | 4 man/stat_pvalue_manual.Rd | 26 ++++ man/text_grob.Rd | 6 - tools/README-deviation-graphs-horizontal-1.png |binary 52 files changed, 458 insertions(+), 253 deletions(-)
Title: Analysis of Large Affymetrix Microarray Data Sets
Description: A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system. The only parameter that limits the number of chips that can be processed is the amount of available disk space. The Aroma Framework has successfully been used in studies to process tens of thousands of arrays. This package has actively been used since 2006.
Author: Henrik Bengtsson [aut, cre, cph],
James Bullard [ctb],
Kasper Hansen [ctb],
Pierre Neuvial [ctb],
Elizabeth Purdom [ctb],
Mark Robinson [ctb],
Ken Simpson [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between aroma.affymetrix versions 3.1.1 dated 2018-04-16 and 3.2.0 dated 2019-06-23
DESCRIPTION | 18 MD5 | 549 - NEWS | 1779 +-- R/999.AromaAffymetrix.R | 2 R/999.package.R | 8 R/AffymetrixCdfFile.R | 6 R/AffymetrixCelFile.R | 2 R/AffymetrixCelSet.R | 2 R/AffymetrixPgfFile.R | 2 R/ChipEffectSet.R | 2 R/FirmaModel.R | 2 R/FirmaSet.R | 2 R/GcContentNormalization2.plotCovariateEffects.R | 2 R/ResidualSet.R | 2 R/WeightsSet.R | 2 inst/CITATION | 154 inst/annotationData/dataSets/HapMap,testSet/all,fullnames.txt | 8 inst/annotationData/genomes/Human/Human,chromosomes.txt | 52 inst/annotationData/samples/HapMap270.saf | 4870 +++++----- inst/buildScripts/chipTypes/Canine_2/Canine_2,ACS.R | 88 inst/buildScripts/chipTypes/CytoScanHD_Array/CytoScanHD_Array,ACS.R | 94 inst/buildScripts/chipTypes/Cytogenetics_Array/Cytogenetics_Array,ACS.R | 94 inst/buildScripts/chipTypes/DogSty06m520431/DogSty06m520431,ACS.R | 104 inst/buildScripts/chipTypes/GenomeWideSNP_5/na26/GenomeWideSNP_5,UFL,na26,GWS6.R | 260 inst/buildScripts/chipTypes/GenomeWideSNP_6/GenomeWideSNP_6,UFL.R | 2 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inst/testScripts/futures/HG-U133_Plus_2/01a.downloadAnnotationData.R | 22 inst/testScripts/futures/HG-U133_Plus_2/01b.downloadRawData.R | 22 inst/testScripts/futures/HG-U133_Plus_2/01c.installPackages.R | 26 inst/testScripts/futures/Hs_PromPR_v02/01b.downloadRawData.R | 2 inst/testScripts/futures/Mapping10K_Xba142/01b.downloadRawData.R | 2 inst/testScripts/launch.R | 260 inst/testScripts/menu.R |only inst/testScripts/replication/chipTypes/GenomeWideSNP_6/01a.downloadAnnotationData.R | 26 inst/testScripts/replication/chipTypes/GenomeWideSNP_6/01b.downloadRawData.R | 24 inst/testScripts/replication/chipTypes/GenomeWideSNP_6/01c.installPackages.R | 36 inst/testScripts/replication/chipTypes/GenomeWideSNP_6/11.justSNPRMA_vs_oligo.R | 234 inst/testScripts/replication/chipTypes/HG-U133_Plus_2/01a.downloadAnnotationData.R | 32 inst/testScripts/replication/chipTypes/HG-U133_Plus_2/01b.downloadRawData.R | 82 inst/testScripts/replication/chipTypes/HG-U133_Plus_2/01c.installPackages.R | 36 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inst/testScripts/replication/chipTypes/Mapping50K_Hind240/01b.downloadRawData.R | 22 inst/testScripts/replication/chipTypes/Mapping50K_Hind240/01c.installPackages.R | 36 inst/testScripts/replication/chipTypes/Mapping50K_Hind240/11.justSNPRMA_vs_oligo.R | 174 inst/testScripts/replication/chipTypes/Mapping50K_Hind240/12.CRLMM_vs_oligo.R | 250 inst/testScripts/robustness/chipTypes/Mapping10K_Xba142/01a.downloadAnnotData.R | 44 inst/testScripts/robustness/chipTypes/Mapping10K_Xba142/01b.downloadRawData.R | 82 inst/testScripts/robustness/chipTypes/Mapping10K_Xba142/11.doASCRMAv1,CBS,invalid.R | 70 inst/testScripts/robustness/chipTypes/Mapping50K_Hind240/01a.downloadAnnotData.R | 44 inst/testScripts/robustness/chipTypes/Mapping50K_Hind240/01b.downloadRawData.R | 22 inst/testScripts/robustness/chipTypes/Mapping50K_Hind240/21.doASCRMAv2,CRLMM.R | 70 inst/testScripts/robustness/chipTypes/MoGene-1_0-st-v1/01a.downloadAnnotationData.R | 32 inst/testScripts/robustness/chipTypes/MoGene-1_0-st-v1/01b.downloadRawData.R | 88 inst/testScripts/robustness/chipTypes/MoGene-1_0-st-v1/11.GcRmaBgCorr.R | 64 inst/testScripts/setup.R | 47 inst/testScripts/setup/01a.downloadAllAnnotationData.R | 54 inst/testScripts/setup/01b.downloadAllRawDataSet.R | 54 inst/testScripts/setup/01c.installAllPackages.R | 54 inst/testScripts/setup/99a.cleanupRootDirectories.R | 104 inst/testScripts/setup/spawnTests.sh | 72 inst/testScripts/system/chipTypes/CytoScanHD_Array/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/CytoScanHD_Array/01b.downloadRawData.R | 72 inst/testScripts/system/chipTypes/CytoScanHD_Array/21,doASCRMAv2,CBS.R | 60 inst/testScripts/system/chipTypes/CytoScanHD_Array/21,doASCRMAv2.R | 36 inst/testScripts/system/chipTypes/CytoScanHD_Array/21.doASCRMAv2,PSCN.R | 66 inst/testScripts/system/chipTypes/Cytogenetics_Array/01a.downloadAnnotationData.R | 32 inst/testScripts/system/chipTypes/Cytogenetics_Array/01b.downloadRawData.R | 72 inst/testScripts/system/chipTypes/Cytogenetics_Array/test20090828,cyto.R | 146 inst/testScripts/system/chipTypes/GenomeWideSNP_5/01a.downloadAnnotationData.R | 46 inst/testScripts/system/chipTypes/GenomeWideSNP_5/01b.downloadRawData.R | 72 inst/testScripts/system/chipTypes/GenomeWideSNP_5/21.doASCRMAv2,ArrayExplorer.R | 98 inst/testScripts/system/chipTypes/GenomeWideSNP_5/21.doASCRMAv2.R | 98 inst/testScripts/system/chipTypes/GenomeWideSNP_6/01a.downloadAnnotationData.R | 70 inst/testScripts/system/chipTypes/GenomeWideSNP_6/01b.downloadRawData.R | 24 inst/testScripts/system/chipTypes/GenomeWideSNP_6/01c.installPackages.R | 36 inst/testScripts/system/chipTypes/GenomeWideSNP_6/11.justSNPRMA.R | 98 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,AlleleSummation.R | 100 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,ArrayExplorer.R | 126 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,GCNorm.R | 104 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,extract.R | 88 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,plotACC.R | 50 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,plots.R | 534 - inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2,singleArray.R | 116 inst/testScripts/system/chipTypes/GenomeWideSNP_6/21.doASCRMAv2.R | 52 inst/testScripts/system/chipTypes/HG-U133_Plus_2/01a.downloadAnnotationData.R | 32 inst/testScripts/system/chipTypes/HG-U133_Plus_2/01b.downloadRawData.R | 80 inst/testScripts/system/chipTypes/HG-U133_Plus_2/01c.installPackages.R | 44 inst/testScripts/system/chipTypes/HG-U133_Plus_2/11.doRMA,PLM,withPriors.R | 68 inst/testScripts/system/chipTypes/HG-U133_Plus_2/11.doRMA.R | 14 inst/testScripts/system/chipTypes/HG-U133_Plus_2/12.doGCRMA.R | 18 inst/testScripts/system/chipTypes/HG-U133_Plus_2/21.BackgroundCorrections.R | 124 inst/testScripts/system/chipTypes/HG-U133_Plus_2/81.doRMA,extractAffyBatch.R | 16 inst/testScripts/system/chipTypes/HG-U133_Plus_2/81.doRMA,extractExpressionSet.R | 58 inst/testScripts/system/chipTypes/Hs_PromPR_v02/01a.downloadAnnotationData.R | 48 inst/testScripts/system/chipTypes/Hs_PromPR_v02/01b.downloadRawData.R | 100 inst/testScripts/system/chipTypes/Hs_PromPR_v02/01c.installPackages.R | 36 inst/testScripts/system/chipTypes/Hs_PromPR_v02/11.MatNormalization.R | 104 inst/testScripts/system/chipTypes/Hs_PromPR_v02/21.MatSmoothing.R | 56 inst/testScripts/system/chipTypes/Hs_PromPR_v02/31.AromaCellCpgFile.R | 56 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/01a.downloadAnnotationData.R | 34 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/01b.downloadRawData,GEO.R | 2 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/01b.downloadRawData.R | 72 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/21.doFIRMA,QC.R | 186 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/21.doFIRMA,extras.R | 116 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/21.doFIRMA.R | 86 inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/test20101202,gcrma.R | 74 inst/testScripts/system/chipTypes/MOUSEDIVm520650/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/MOUSEDIVm520650/01b.downloadRawData.R | 82 inst/testScripts/system/chipTypes/MOUSEDIVm520650/21.doASCRMAv2.R | 44 inst/testScripts/system/chipTypes/Mapping10K_Xba142/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/Mapping10K_Xba142/01b.downloadRawData.R | 20 inst/testScripts/system/chipTypes/Mapping10K_Xba142/01c.installPackages.R | 36 inst/testScripts/system/chipTypes/Mapping10K_Xba142/10.CDF,groupUnitsBy.R | 72 inst/testScripts/system/chipTypes/Mapping10K_Xba142/10.CDF,readDataFrame.R | 18 inst/testScripts/system/chipTypes/Mapping10K_Xba142/11.doCRMAv1,SmNorm.R | 64 inst/testScripts/system/chipTypes/Mapping10K_Xba142/11.doCRMAv1.R | 66 inst/testScripts/system/chipTypes/Mapping10K_Xba142/12.doASCRMAv1.R | 66 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,CBS,any.R | 102 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,CBS.R | 34 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,FLN,zero.R | 124 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,QA.R | 208 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,extractAndWrite.R | 108 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2.R | 92 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,CBS,CE.R | 90 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,CBS,ref.R | 92 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,GLAD.R | 44 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,HaarSeg.R | 44 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,PSCN.R | 82 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,TotalFreqB.R | 52 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,extract.R | 174 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,plotACC.R | 50 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,plots,pairs.R | 188 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,plots.R | 148 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,singleArray.R | 100 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2.R | 122 inst/testScripts/system/chipTypes/Mapping10K_Xba142/31.ACC,BCN.R | 62 inst/testScripts/system/chipTypes/Mapping10K_Xba142/31.ACC,mergeShifts.R | 56 inst/testScripts/system/chipTypes/Mapping10K_Xba142/31.doASCRMAv1.ArrayExplorer.R | 138 inst/testScripts/system/chipTypes/Mapping10K_Xba142/41.ACC,expectile.R | 50 inst/testScripts/system/chipTypes/Mapping250K_Nsp/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/Mapping250K_Nsp/01b.downloadRawData.R | 20 inst/testScripts/system/chipTypes/Mapping250K_Nsp/21.doASCRMAv1,ArrayExplorer.R | 128 inst/testScripts/system/chipTypes/Mapping250K_Nsp/31.doASCRMAv2,TumorNormalPair.R | 22 inst/testScripts/system/chipTypes/Mapping250K_Nsp/31.doASCRMAv2.R | 52 inst/testScripts/system/chipTypes/Mapping250K_Sty/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/Mapping250K_Sty/01b.downloadRawData.R | 116 inst/testScripts/system/chipTypes/Mapping250K_Sty/21.doASCRMAv2,ArrayExplorer.R | 128 inst/testScripts/system/chipTypes/Mapping250K_Sty/21.doASCRMAv2.R | 52 inst/testScripts/system/chipTypes/Mapping250K_Sty/22.doASCRMAv2,singleArray.R | 102 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/01a.downloadAnnotData.R | 78 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/01b.downloadRawData.R | 26 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/11.RmaPlm.R | 220 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/21.CRMA,QA.R | 216 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/21.CRMA,paired.R | 86 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/21.CRMA.R | 246 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/31.ASCRMA.R | 190 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/41.BCN.R | 174 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/42.BPN,AS.R | 296 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/42.BPN.R | 174 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/51.ACC,merge.R | 44 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/61.TCN,XYbias.R | 212 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/71.doCBS,tuple.R | 76 inst/testScripts/system/chipTypes/Mapping50K_Hind240,Xba240/81.fnt.R | 80 inst/testScripts/system/chipTypes/Mapping50K_Hind240/01a.downloadAnnotationData.R | 44 inst/testScripts/system/chipTypes/Mapping50K_Hind240/01b.downloadRawData.R | 22 inst/testScripts/system/chipTypes/Mapping50K_Hind240/01c.installPackages.R | 36 inst/testScripts/system/chipTypes/Mapping50K_Hind240/10.CDF,groupUnitsBy.R | 72 inst/testScripts/system/chipTypes/Mapping50K_Hind240/11.justSNPRMA.R | 40 inst/testScripts/system/chipTypes/Mapping50K_Hind240/12.justSNPRMA,CRLMM.R | 124 inst/testScripts/system/chipTypes/Mapping50K_Hind240/21.doASCRMAv2,ArrayExplorer.R | 128 inst/testScripts/system/chipTypes/Mapping50K_Hind240/21.doASCRMAv2,plotACC.R | 58 inst/testScripts/system/chipTypes/Mapping50K_Hind240/21.doASCRMAv2.R | 38 inst/testScripts/system/chipTypes/Mm_PromPR_v02/01a.downloadAnnotationData.R | 26 inst/testScripts/system/chipTypes/Mm_PromPR_v02/10,CDF,unique.R | 16 inst/testScripts/system/chipTypes/MoEx-1_0-st-v1/01a.downloadAnnotationData.R | 38 inst/testScripts/system/chipTypes/MoEx-1_0-st-v1/01b.downloadRawData.R | 88 inst/testScripts/system/chipTypes/MoEx-1_0-st-v1/11.GcRmaBackgroundCorrection.R | 64 inst/testScripts/system/chipTypes/MoGene-1_0-st-v1/01a.downloadAnnotationData.R | 32 inst/testScripts/system/chipTypes/MoGene-1_0-st-v1/01b.downloadRawData.R | 88 inst/testScripts/system/chipTypes/MoGene-1_0-st-v1/11.RmaBackgroundCorrection.R | 54 inst/testScripts/system/chipTypes/MoGene-1_0-st-v1/12.QuantileNormalization.R | 68 inst/testScripts/system/chipTypes/Test3/01a.downloadAnnotationData.R | 26 inst/testScripts/system/chipTypes/Test3/01c.installPackages.R | 36 inst/testScripts/system/chipTypes/Test3/01d.downloadRawData.R | 70 inst/testScripts/system/chipTypes/Test3/11.ArrayExplorer.R | 30 inst/testScripts/testAll.R | 208 inst/vignettes/CRMA,Mapping50K_Hind240,BiasCorrectedChrXY.R | 510 - inst/vignettes/replication-MAT/R/01b.downloadRawData.R | 4 inst/vignettes/replication-RMA/R/01b.downloadRawData.R | 2 man/aroma.affymetrix-package.Rd | 8 276 files changed, 14144 insertions(+), 14121 deletions(-)
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