Title: Functions to Embed Video in HTML
Description: A set of functions for generating HTML to
embed hosted video in your R Markdown documents or Shiny apps.
Author: Ian Lyttle [aut, cre, cph],
Schneider Electric [cph]
Maintainer: Ian Lyttle <ian.lyttle@schneider-electric.com>
Diff between vembedr versions 0.1.1 dated 2016-07-15 and 0.1.2 dated 2017-01-11
vembedr-0.1.1/vembedr/inst/doc/embed.R |only vembedr-0.1.1/vembedr/inst/doc/embed.Rmd |only vembedr-0.1.1/vembedr/inst/doc/embed.html |only vembedr-0.1.1/vembedr/tests/testthat/test-deprecate-allow_full_screen.R |only vembedr-0.1.1/vembedr/vignettes/embed.Rmd |only vembedr-0.1.2/vembedr/DESCRIPTION | 12 vembedr-0.1.2/vembedr/LICENSE | 4 vembedr-0.1.2/vembedr/MD5 | 51 +- vembedr-0.1.2/vembedr/NAMESPACE | 5 vembedr-0.1.2/vembedr/NEWS.md | 16 vembedr-0.1.2/vembedr/R/embed.R | 45 -- vembedr-0.1.2/vembedr/R/embed_url.R |only vembedr-0.1.2/vembedr/R/helper.R | 4 vembedr-0.1.2/vembedr/R/parse.R |only vembedr-0.1.2/vembedr/R/rickroll.R | 11 vembedr-0.1.2/vembedr/R/use_start_time.R | 20 - vembedr-0.1.2/vembedr/R/vimeo_js.R |only vembedr-0.1.2/vembedr/README.md | 181 +++------- vembedr-0.1.2/vembedr/build/vignette.rds |binary vembedr-0.1.2/vembedr/inst/doc/helpers.R |only vembedr-0.1.2/vembedr/inst/doc/helpers.Rmd |only vembedr-0.1.2/vembedr/inst/doc/helpers.html |only vembedr-0.1.2/vembedr/inst/doc/services.R |only vembedr-0.1.2/vembedr/inst/doc/services.Rmd |only vembedr-0.1.2/vembedr/inst/doc/services.html |only vembedr-0.1.2/vembedr/man/build_suggestion.Rd |only vembedr-0.1.2/vembedr/man/embed.Rd | 28 - vembedr-0.1.2/vembedr/man/embed_url.Rd |only vembedr-0.1.2/vembedr/man/hms.Rd | 4 vembedr-0.1.2/vembedr/man/parse_video_url.Rd |only vembedr-0.1.2/vembedr/man/rickroll.Rd | 6 vembedr-0.1.2/vembedr/man/secs.Rd | 2 vembedr-0.1.2/vembedr/man/suggest_embed.Rd |only vembedr-0.1.2/vembedr/man/use_start_time.Rd | 19 - vembedr-0.1.2/vembedr/tests/testthat/test-suggest.R |only vembedr-0.1.2/vembedr/vignettes/helpers.Rmd |only vembedr-0.1.2/vembedr/vignettes/services.Rmd |only 37 files changed, 182 insertions(+), 226 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 pre-built 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],
Yihui Xie [aut],
Jonathan McPherson [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),
Alexander Farkas [ctb, cph] (html5shiv library),
Scott Jehl [ctb, cph] (Respond.js library),
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),
Kristopher Michael Kowal [ctb, cph] (es5-shim library),
es5-shim contributors [ctb, cph] (es5-shim 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 0.14.2 dated 2016-11-01 and 1.0.0 dated 2017-01-11
DESCRIPTION | 8 MD5 | 144 NAMESPACE | 2 NEWS.md | 66 R/app.R | 13 R/bootstrap-layout.R | 2 R/bootstrap.R | 70 R/imageutils.R | 2 R/input-date.R | 2 R/input-daterange.R | 2 R/input-select.R | 52 R/input-slider.R | 3 R/input-submit.R | 43 R/progress.R | 1 R/reactives.R | 414 + R/render-plot.R | 2 R/server.R | 83 R/shiny.R | 121 R/shinyui.R | 14 R/shinywrappers.R | 9 R/test-export.R | 13 R/utils.R | 27 README.md | 4 inst/examples/07_widgets/Readme.md | 2 inst/examples/07_widgets/server.R | 24 inst/examples/07_widgets/ui.R | 20 inst/staticdocs/index.r | 19 inst/www/shared/font-awesome/css/font-awesome.css | 144 inst/www/shared/font-awesome/css/font-awesome.min.css | 4 inst/www/shared/font-awesome/fonts/FontAwesome.otf |binary inst/www/shared/font-awesome/fonts/fontawesome-webfont.eot |binary inst/www/shared/font-awesome/fonts/fontawesome-webfont.svg | 3350 ++++++++--- inst/www/shared/font-awesome/fonts/fontawesome-webfont.ttf |binary inst/www/shared/font-awesome/fonts/fontawesome-webfont.woff |binary inst/www/shared/font-awesome/fonts/fontawesome-webfont.woff2 |binary inst/www/shared/shiny-testmode.js |only inst/www/shared/shiny.css | 14 inst/www/shared/shiny.js | 99 inst/www/shared/shiny.js.map | 2 inst/www/shared/shiny.min.js | 8 inst/www/shared/shiny.min.js.map | 2 man/addResourcePath.Rd | 2 man/builder.Rd | 2 man/dateInput.Rd | 2 man/dateRangeInput.Rd | 2 man/debounce.Rd |only man/downloadButton.Rd | 6 man/exportTestValues.Rd | 13 man/isolate.Rd | 2 man/observeEvent.Rd | 133 man/plotOutput.Rd | 2 man/plotPNG.Rd | 2 man/reactiveTimer.Rd | 2 man/reactiveValuesToList.Rd | 2 man/renderDataTable.Rd | 2 man/renderImage.Rd | 1 man/renderPlot.Rd | 2 man/renderPrint.Rd | 6 man/req.Rd | 2 man/runApp.Rd | 9 man/selectInput.Rd | 52 man/session.Rd | 18 man/shinyApp.Rd | 10 man/sidebarLayout.Rd | 1 man/sliderInput.Rd | 3 man/splitLayout.Rd | 1 man/submitButton.Rd | 44 man/tag.Rd | 2 man/updateSelectInput.Rd | 9 man/validate.Rd | 1 man/verbatimTextOutput.Rd | 31 man/withProgress.Rd | 1 tests/testthat/test-reactivity.r | 80 tests/testthat/test-utils.R | 25 74 files changed, 4181 insertions(+), 1074 deletions(-)
Title: 'IUCN' Red List Client
Description: 'IUCN' Red List (<http://apiv3.iucnredlist.org/api/v3/docs>) client.
The 'IUCN' Red List is a global list of threatened and endangered species.
Functions cover all of the Red List 'API' routes. An 'API' key is required.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rredlist versions 0.2.0 dated 2016-10-15 and 0.3.0 dated 2017-01-11
DESCRIPTION | 12 +-- LICENSE | 2 MD5 | 106 +++++++++++++++++----------------- NAMESPACE | 5 - NEWS.md | 27 ++++++++ R/rl_citation.R | 7 -- R/rl_common_names.R | 4 + R/rl_countries.R | 2 R/rl_habitats.R | 24 ++----- R/rl_history.R | 24 ++----- R/rl_measures.R | 24 ++----- R/rl_narrative.R | 24 ++----- R/rl_occ_country.R |only R/rl_regions.R | 2 R/rl_search.R | 24 ++----- R/rl_sp.R | 6 + R/rl_sp_category.R | 4 + R/rl_sp_citation.R | 24 ++----- R/rl_sp_count.R | 2 R/rl_sp_country.R | 7 +- R/rl_synonyms.R | 4 + R/rl_threats.R | 26 +++----- R/rl_version.R | 7 -- R/rredlist-package.R | 1 R/zzz.R | 76 +++++++++++++++++++++--- README.md | 42 +++++++------ man/rl_citation.Rd | 6 - man/rl_common_names.Rd | 2 man/rl_countries.Rd | 2 man/rl_habitats.Rd | 2 man/rl_history.Rd | 2 man/rl_measures.Rd | 2 man/rl_narrative.Rd | 2 man/rl_occ_country.Rd |only man/rl_regions.Rd | 2 man/rl_search.Rd | 11 ++- man/rl_sp.Rd | 4 - man/rl_sp_category.Rd | 2 man/rl_sp_citation.Rd | 2 man/rl_sp_count.Rd | 2 man/rl_sp_country.Rd | 5 - man/rl_synonyms.Rd | 2 man/rl_threats.Rd | 4 - man/rl_version.Rd | 6 - tests/testthat/test-fail-well.R | 14 ++-- tests/testthat/test-rl_citation.R |only tests/testthat/test-rl_common_names.R | 17 +++++ tests/testthat/test-rl_countries.R |only tests/testthat/test-rl_habitat.R | 25 ++++++++ tests/testthat/test-rl_history.R |only tests/testthat/test-rl_measures.R | 25 ++++++++ tests/testthat/test-rl_narrative.R | 25 ++++++++ tests/testthat/test-rl_search.R | 25 ++++++++ tests/testthat/test-rl_sp_category.R | 17 +++++ tests/testthat/test-rl_synonyms.R | 18 +++++ tests/testthat/test-rl_threats.R | 26 ++++++++ tests/testthat/test-rl_version.R |only 57 files changed, 490 insertions(+), 246 deletions(-)
Title: Robust Estimation for Compositional Data
Description: Methods for analysis of compositional data including robust
methods, imputation, methods to replace rounded zeros, (robust) outlier
detection for compositional data, (robust) principal component analysis for
compositional data, (robust) factor analysis for compositional data, (robust)
discriminant analysis for compositional data (Fisher rule), robust regression
with compositional predictors and (robust) Anderson-Darling normality tests for
compositional data as well as popular log-ratio transformations (addLR, cenLR,
isomLR, and their inverse transformations). In addition, visualisation and
diagnostic tools are implemented as well as high and low-level plot functions
for the ternary diagram.
Author: Matthias Templ, Karel Hron, Peter Filzmoser
Maintainer: Matthias Templ <templ@tuwien.ac.at>
Diff between robCompositions versions 2.0.2 dated 2016-08-22 and 2.0.3 dated 2017-01-11
robCompositions-2.0.2/robCompositions/man/isomLR.Rd |only robCompositions-2.0.3/robCompositions/DESCRIPTION | 11 robCompositions-2.0.3/robCompositions/MD5 | 182 +++++----- robCompositions-2.0.3/robCompositions/NAMESPACE | 14 robCompositions-2.0.3/robCompositions/NEWS | 18 robCompositions-2.0.3/robCompositions/R/aDist.R | 43 +- robCompositions-2.0.3/robCompositions/R/addLR.R | 15 robCompositions-2.0.3/robCompositions/R/addLRinv.R | 8 robCompositions-2.0.3/robCompositions/R/adtest.R | 8 robCompositions-2.0.3/robCompositions/R/adtestWrapper.R | 4 robCompositions-2.0.3/robCompositions/R/balances.R |only robCompositions-2.0.3/robCompositions/R/biomarker.R |only robCompositions-2.0.3/robCompositions/R/cenLR.R | 12 robCompositions-2.0.3/robCompositions/R/cenLRinv.R | 11 robCompositions-2.0.3/robCompositions/R/center.R |only robCompositions-2.0.3/robCompositions/R/clustCoDa.R | 16 robCompositions-2.0.3/robCompositions/R/compareMahal.R | 8 robCompositions-2.0.3/robCompositions/R/daCoDa.R | 2 robCompositions-2.0.3/robCompositions/R/daFisher.R | 17 robCompositions-2.0.3/robCompositions/R/dataSets.R | 148 +++++++- robCompositions-2.0.3/robCompositions/R/gm.R | 21 - robCompositions-2.0.3/robCompositions/R/gm_backup.R |only robCompositions-2.0.3/robCompositions/R/ilrregression.R | 2 robCompositions-2.0.3/robCompositions/R/impCoda.R | 17 robCompositions-2.0.3/robCompositions/R/impRZilr.R | 36 - robCompositions-2.0.3/robCompositions/R/imputeBDLs.R | 40 +- robCompositions-2.0.3/robCompositions/R/isomLR.R | 152 +++++--- robCompositions-2.0.3/robCompositions/R/lmCoDaX.R | 5 robCompositions-2.0.3/robCompositions/R/orthbasis.R | 17 robCompositions-2.0.3/robCompositions/R/outCoDa.R | 4 robCompositions-2.0.3/robCompositions/R/perturbation.R |only robCompositions-2.0.3/robCompositions/R/pfa.R | 6 robCompositions-2.0.3/robCompositions/R/robCompositions-package.R | 2 robCompositions-2.0.3/robCompositions/R/robilrregression.R | 2 robCompositions-2.0.3/robCompositions/R/ternaryDiag.R | 32 - robCompositions-2.0.3/robCompositions/R/ternaryDiagAbline.R | 2 robCompositions-2.0.3/robCompositions/R/ternaryDiagEllipse.R | 4 robCompositions-2.0.3/robCompositions/R/utils.R | 4 robCompositions-2.0.3/robCompositions/R/variation.R | 3 robCompositions-2.0.3/robCompositions/R/zeroOut.R | 2 robCompositions-2.0.3/robCompositions/build/vignette.rds |binary robCompositions-2.0.3/robCompositions/data/ageCatWorld.rda |binary robCompositions-2.0.3/robCompositions/data/alcohol.rda |binary robCompositions-2.0.3/robCompositions/data/alcoholreg.rda |binary robCompositions-2.0.3/robCompositions/data/arcticLake.rda |binary robCompositions-2.0.3/robCompositions/data/cancer.rda |binary robCompositions-2.0.3/robCompositions/data/coffee.rda |binary robCompositions-2.0.3/robCompositions/data/economy.rda |binary robCompositions-2.0.3/robCompositions/data/election.rda |binary robCompositions-2.0.3/robCompositions/data/electionATbp.rda |only robCompositions-2.0.3/robCompositions/data/expenditures.rda |binary robCompositions-2.0.3/robCompositions/data/expendituresEU.rda |binary robCompositions-2.0.3/robCompositions/data/gemas.rda |binary robCompositions-2.0.3/robCompositions/data/haplogroups.rda |binary robCompositions-2.0.3/robCompositions/data/laborForce.rda |binary robCompositions-2.0.3/robCompositions/data/lifeExpGdp.rda |binary robCompositions-2.0.3/robCompositions/data/machineOperators.rda |binary robCompositions-2.0.3/robCompositions/data/mcad.rda |binary robCompositions-2.0.3/robCompositions/data/mortality.rda |binary robCompositions-2.0.3/robCompositions/data/nutrients.rda |only robCompositions-2.0.3/robCompositions/data/nutrients_branded.rda |only robCompositions-2.0.3/robCompositions/data/payments.rda |binary robCompositions-2.0.3/robCompositions/data/phd.rda |binary robCompositions-2.0.3/robCompositions/data/production.rda |binary robCompositions-2.0.3/robCompositions/data/skyeLavas.rda |binary robCompositions-2.0.3/robCompositions/data/trondelagC.rda |binary robCompositions-2.0.3/robCompositions/data/trondelagO.rda |binary robCompositions-2.0.3/robCompositions/inst/doc/gm.cpp |only robCompositions-2.0.3/robCompositions/inst/doc/imputation.R | 2 robCompositions-2.0.3/robCompositions/inst/doc/imputation.Rnw | 2 robCompositions-2.0.3/robCompositions/inst/doc/imputation.pdf |binary robCompositions-2.0.3/robCompositions/inst/doc/robCompositions-overview.pdf |binary robCompositions-2.0.3/robCompositions/man/aDist.Rd | 9 robCompositions-2.0.3/robCompositions/man/addLR.Rd | 7 robCompositions-2.0.3/robCompositions/man/addLRinv.Rd | 6 robCompositions-2.0.3/robCompositions/man/adtest.Rd | 8 robCompositions-2.0.3/robCompositions/man/adtestWrapper.Rd | 2 robCompositions-2.0.3/robCompositions/man/ageCatWorld.Rd | 2 robCompositions-2.0.3/robCompositions/man/arcticLake.Rd | 2 robCompositions-2.0.3/robCompositions/man/balances.Rd |only robCompositions-2.0.3/robCompositions/man/biomarker.Rd |only robCompositions-2.0.3/robCompositions/man/cenLR.Rd | 11 robCompositions-2.0.3/robCompositions/man/cenLRinv.Rd | 6 robCompositions-2.0.3/robCompositions/man/clustCoDa.Rd | 4 robCompositions-2.0.3/robCompositions/man/compareMahal.Rd | 2 robCompositions-2.0.3/robCompositions/man/electionATbp.Rd |only robCompositions-2.0.3/robCompositions/man/gm.Rd | 17 robCompositions-2.0.3/robCompositions/man/impCoda.Rd | 5 robCompositions-2.0.3/robCompositions/man/imputeBDLs.Rd | 2 robCompositions-2.0.3/robCompositions/man/lmCoDaX.Rd | 1 robCompositions-2.0.3/robCompositions/man/nutrients.Rd |only robCompositions-2.0.3/robCompositions/man/nutrients_branded.Rd |only robCompositions-2.0.3/robCompositions/man/orthbasis.Rd | 12 robCompositions-2.0.3/robCompositions/man/outCoDa.Rd | 2 robCompositions-2.0.3/robCompositions/man/perturbation.Rd |only robCompositions-2.0.3/robCompositions/man/pfa.Rd | 4 robCompositions-2.0.3/robCompositions/man/phd.Rd | 2 robCompositions-2.0.3/robCompositions/man/pivotCoord.Rd |only robCompositions-2.0.3/robCompositions/man/robCompositions-package.Rd | 2 robCompositions-2.0.3/robCompositions/tests/importFood.R |only robCompositions-2.0.3/robCompositions/vignettes/imputation.Rnw | 2 101 files changed, 632 insertions(+), 348 deletions(-)
More information about robCompositions at CRAN
Permanent link
Title: Detect Marine Heat Waves and Marine Cold Spells
Description: Given a time series of daily temperatures, the package provides tools
to detect extreme thermal events, including marine heat waves, and to
calculate the exceedences above or below specified threshold values.
It outputs the properties of all detected events and exceedences.
Author: Albertus J. Smit [aut, cre] (R implementation.),
Eric C. J. Oliver [aut] (The brain behind the Python implementation.),
Robert W. Schlegel [ctb] (Graphical and data summaries.)
Maintainer: Albertus J. Smit <albertus.smit@gmail.com>
Diff between RmarineHeatWaves versions 0.14.0 dated 2016-12-11 and 0.14.1 dated 2017-01-11
DESCRIPTION | 8 +- LICENSE | 2 MD5 | 30 +++++----- R/RmarineHeatWaves.R | 79 ++++++++++++++------------ R/exceedence.R | 12 ++-- R/graphFunctions.R | 4 - README.md | 101 +++++++++++++++++----------------- inst/CITATION | 10 +-- inst/doc/gridded-event-detection.R | 18 ++++-- inst/doc/gridded-event-detection.Rmd | 20 ++++-- inst/doc/gridded-event-detection.html | 32 ++++++---- man/detect.Rd | 15 +++-- man/event_line.Rd | 3 - vignettes/README-fig-example3.png |binary vignettes/README-fig-example4.png |binary vignettes/gridded-event-detection.Rmd | 20 ++++-- 16 files changed, 193 insertions(+), 161 deletions(-)
More information about RmarineHeatWaves at CRAN
Permanent link
Title: Fast and Stable Estimation of the Probability of Informed
Trading (PIN)
Description: Utilities for fast and stable estimation of the probability of
informed trading (PIN) in the model introduced by Easley et al. (2002)
<DOI:10.1111/1540-6261.00493> are implemented. Since the basic model developed
by Easley et al. (1996) <DOI:10.1111/j.1540-6261.1996.tb04074.x> is nested in the
former due to equating the intensity of uninformed buys and sells, functions
can also be applied to this simpler model structure, if needed.
State-of-the-art factorization of the model likelihood function as well as
most recent algorithms for generating initial values for optimization routines are implemented.
In total, two likelihood factorizations and three methodologies for
starting values are included.
Furthermore, functions for simulating datasets of daily aggregated buys and sells,
calculating confidence intervals for the probability of informed trading and posterior probabilities
of trading days' conditions are available.
Author: Andreas Recktenwald [aut, cre]
Maintainer: Andreas Recktenwald <a.recktenwald@mx.uni-saarland.de>
Diff between pinbasic versions 1.0.0 dated 2017-01-09 and 1.0.1 dated 2017-01-11
pinbasic-1.0.0/pinbasic/vignettes/tikzfigs |only pinbasic-1.0.1/pinbasic/DESCRIPTION | 6 +- pinbasic-1.0.1/pinbasic/MD5 | 50 +++-------------- pinbasic-1.0.1/pinbasic/NAMESPACE | 15 +++-- pinbasic-1.0.1/pinbasic/NEWS | 9 +++ pinbasic-1.0.1/pinbasic/NEWS.md | 6 ++ pinbasic-1.0.1/pinbasic/R/initialCAR.R | 4 - pinbasic-1.0.1/pinbasic/R/pin_confint.R | 7 +- pinbasic-1.0.1/pinbasic/R/pin_max.R | 2 pinbasic-1.0.1/pinbasic/R/simulate_data.R | 2 pinbasic-1.0.1/pinbasic/build/partial.rdb |binary pinbasic-1.0.1/pinbasic/inst/doc/pinbasicVignette.html | 18 +++--- pinbasic-1.0.1/pinbasic/man/initial_vals.Rd | 3 - 13 files changed, 57 insertions(+), 65 deletions(-)
Title: Observed-Score Linking and Equating
Description: Contains methods for observed-score linking
and equating under the single-group, equivalent-groups,
and nonequivalent-groups with anchor test(s) designs.
Equating types include identity, mean, linear, general
linear, equipercentile, circle-arc, and composites of
these. Equating methods include synthetic, nominal
weights, Tucker, Levine observed score, Levine true
score, Braun/Holland, frequency estimation, and chained
equating. Plotting and summary methods, and methods for
multivariate presmoothing and bootstrap error estimation
are also provided.
Author: Anthony Albano <tony.d.albano@gmail.com>
Maintainer: Anthony Albano <tony.d.albano@gmail.com>
Diff between equate versions 2.0-5 dated 2016-10-21 and 2.0.6 dated 2017-01-11
DESCRIPTION | 28 +- MD5 | 36 +- NAMESPACE | 4 NEWS | 27 ++ NEWS.md | 14 + R/bootstrap.R | 181 +++++++------ R/equate-package.R | 7 R/equate.R | 11 R/linear.R | 3 R/plot.bootstrap.R | 26 - R/plot.equate.R | 48 ++- R/plot.freqtab.R | 10 R/presmoothing.R | 586 +++++++++++++++++++++++--------------------- build/vignette.rds |binary inst/doc/equatevignette.pdf |binary man/bootstrap.Rd | 7 man/equate-package.Rd | 4 man/plot.freqtab.Rd | 2 man/presmoothing.Rd | 13 19 files changed, 553 insertions(+), 454 deletions(-)
Title: Cognitive Diagnosis Modeling
Description:
Functions for cognitive diagnosis modeling
and multidimensional item response modeling for
dichotomous and polytomous data. This package
enables the estimation of the DINA and DINO model,
the multiple group (polytomous) GDINA model,
the multiple choice DINA model, the general diagnostic
model (GDM), the multidimensional linear compensatory
item response model and the structured latent class
model (SLCA).
Author:
Alexander Robitzsch [aut, cre], Thomas Kiefer [aut],
Ann Cathrice George [aut], Ali Uenlue [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between CDM versions 5.2-1 dated 2016-10-14 and 5.3-0 dated 2017-01-11
CDM-5.2-1/CDM/R/gdina_proc_noninvariance_multiple_groups.R.R |only CDM-5.2-1/CDM/R/gdina_reduced_skillspace.R.R |only CDM-5.2-1/CDM/R/gdina_se_itemwise.R.R |only CDM-5.2-1/CDM/inst/NEWS.txt |only CDM-5.3-0/CDM/DESCRIPTION | 10 CDM-5.3-0/CDM/MD5 | 55 ++- CDM-5.3-0/CDM/NAMESPACE | 2 CDM-5.3-0/CDM/R/IRT.RMSD.R |only CDM-5.3-0/CDM/R/WaldTest.R | 35 +- CDM-5.3-0/CDM/R/cdm.est.calc.accuracy.R | 22 - CDM-5.3-0/CDM/R/dataframe_summary.R |only CDM-5.3-0/CDM/R/itemfit.rmsea.R | 23 - CDM-5.3-0/CDM/R/mad_aux.R |only CDM-5.3-0/CDM/R/md_aux.R |only CDM-5.3-0/CDM/R/rmsd_chisquare.R |only CDM-5.3-0/CDM/R/rmsea_aux.R |only CDM-5.3-0/CDM/R/rowMaxs.R | 6 CDM-5.3-0/CDM/R/sequential.items.R | 28 - CDM-5.3-0/CDM/R/summary.IRT.RMSD.R |only CDM-5.3-0/CDM/R/summary.IRT.RMSD_print_statistics.R |only CDM-5.3-0/CDM/inst/CITATION | 33 ++ CDM-5.3-0/CDM/inst/NEWS | 18 + CDM-5.3-0/CDM/man/CDM-package.Rd | 159 +++++------ CDM-5.3-0/CDM/man/IRT.RMSD.Rd |only CDM-5.3-0/CDM/man/IRT.likelihood.Rd | 7 CDM-5.3-0/CDM/man/data.ecpe.Rd | 4 CDM-5.3-0/CDM/man/data.fraction1.Rd | 4 CDM-5.3-0/CDM/man/din.validate.qmatrix.Rd | 5 CDM-5.3-0/CDM/man/fraction.subtraction.data.Rd | 2 CDM-5.3-0/CDM/man/gdina.Rd | 13 CDM-5.3-0/CDM/man/gdina.dif.Rd | 7 CDM-5.3-0/CDM/man/gdina.wald.Rd | 7 CDM-5.3-0/CDM/man/itemfit.rmsea.Rd | 3 CDM-5.3-0/CDM/man/sim.gdina.Rd | 3 CDM-5.3-0/CDM/man/skillspace.hierarchy.Rd | 3 35 files changed, 266 insertions(+), 183 deletions(-)
Title: Statistical Inference of Vine Copulas
Description: Provides tools for the statistical analysis of vine copula models.
The package includes tools for parameter estimation, model selection,
simulation, goodness-of-fit tests, and visualization. Tools for estimation,
selection and exploratory data analysis of bivariate copula models are also
provided.
Author: Ulf Schepsmeier [aut],
Jakob Stoeber [aut],
Eike Christian Brechmann [aut],
Benedikt Graeler [aut],
Thomas Nagler [aut, cre],
Tobias Erhardt [aut],
Carlos Almeida [ctb],
Aleksey Min [ctb, ths],
Claudia Czado [ctb, ths],
Mathias Hofmann [ctb],
Matthias Killiches [ctb],
Harry Joe [ctb],
Thibault Vatter [ctb]
Maintainer: Thomas Nagler <thomas.nagler@tum.de>
Diff between VineCopula versions 2.1.0 dated 2016-12-23 and 2.1.1 dated 2017-01-11
VineCopula-2.1.0/VineCopula/src/include |only VineCopula-2.1.1/VineCopula/DESCRIPTION | 10 +- VineCopula-2.1.1/VineCopula/MD5 | 86 ++++++++++----------- VineCopula-2.1.1/VineCopula/NEWS.md | 18 ++++ VineCopula-2.1.1/VineCopula/inst |only VineCopula-2.1.1/VineCopula/src/Makevars |only VineCopula-2.1.1/VineCopula/src/Makevars.win |only VineCopula-2.1.1/VineCopula/src/cdvine.c | 10 +- VineCopula-2.1.1/VineCopula/src/condsim.c | 8 - VineCopula-2.1.1/VineCopula/src/deriv.c | 8 - VineCopula-2.1.1/VineCopula/src/deriv2.c | 12 +- VineCopula-2.1.1/VineCopula/src/evCopula.c | 4 VineCopula-2.1.1/VineCopula/src/gof.c | 12 +- VineCopula-2.1.1/VineCopula/src/hfunc.c | 6 - VineCopula-2.1.1/VineCopula/src/hfuncderiv.c | 8 - VineCopula-2.1.1/VineCopula/src/hfuncderiv2.c | 10 +- VineCopula-2.1.1/VineCopula/src/incompleteBeta.c | 4 VineCopula-2.1.1/VineCopula/src/likelihood.c | 10 +- VineCopula-2.1.1/VineCopula/src/logderiv.c | 16 +-- VineCopula-2.1.1/VineCopula/src/memoryhandling.c | 4 VineCopula-2.1.1/VineCopula/src/pit.c | 10 +- VineCopula-2.1.1/VineCopula/src/rvine.c | 10 +- VineCopula-2.1.1/VineCopula/src/rvinederiv.c | 16 +-- VineCopula-2.1.1/VineCopula/src/rvinederiv2.c | 20 ++-- VineCopula-2.1.1/VineCopula/src/rvinesample.c | 6 - VineCopula-2.1.1/VineCopula/src/tcopuladeriv.c | 10 +- VineCopula-2.1.1/VineCopula/src/tcopuladeriv_new.c | 14 +-- VineCopula-2.1.1/VineCopula/src/tools.c | 6 - 28 files changed, 168 insertions(+), 150 deletions(-)
Title: Supplementary Item Response Theory Models
Description:
Supplementary item response theory models to complement existing
functions in R, including multidimensional compensatory and
noncompensatory IRT models, MCMC for hierarchical IRT models and
testlet models, NOHARM, Rasch copula model, faceted and
hierarchical rater models, ordinal IRT model (ISOP),
DETECT statistic, local structural equation modeling (LSEM),
mean and covariance structure modelling for multivariate normally
distributed data.
Author: Alexander Robitzsch [aut,cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between sirt versions 1.13-1 dated 2016-11-17 and 1.14-0 dated 2017-01-11
sirt-1.13-1/sirt/R/ARb_utils.R |only sirt-1.13-1/sirt/R/detect.R |only sirt-1.13-1/sirt/R/osink.R |only sirt-1.14-0/sirt/DESCRIPTION | 8 sirt-1.14-0/sirt/MD5 | 44 ++-- sirt-1.14-0/sirt/NAMESPACE | 2 sirt-1.14-0/sirt/R/Rhat_sirt.R |only sirt-1.14-0/sirt/R/btm.R | 10 sirt-1.14-0/sirt/R/conf.detect.R | 52 +++- sirt-1.14-0/sirt/R/create.ccov.R |only sirt-1.14-0/sirt/R/detect.index.R |only sirt-1.14-0/sirt/R/expl.detect.R | 28 +- sirt-1.14-0/sirt/R/lsem.estimate.R | 23 +- sirt-1.14-0/sirt/R/lsem.fitsem.R | 19 - sirt-1.14-0/sirt/R/mcmc_Rhat.R |only sirt-1.14-0/sirt/R/rasch.mml.raschtype.R | 30 -- sirt-1.14-0/sirt/R/read.fwf2.R |only sirt-1.14-0/sirt/R/sim.raschtype.R |only sirt-1.14-0/sirt/R/summary.conf.detect.R |only sirt-1.14-0/sirt/R/summary.lsem.R | 10 sirt-1.14-0/sirt/R/summary.lsem.permutationTest.R | 6 sirt-1.14-0/sirt/R/write.format2.R |only sirt-1.14-0/sirt/R/write.fwf2.R |only sirt-1.14-0/sirt/inst/CITATION |only sirt-1.14-0/sirt/inst/NEWS | 23 ++ sirt-1.14-0/sirt/man/conf.detect.Rd | 42 +++ sirt-1.14-0/sirt/man/expl.detect.Rd | 2 sirt-1.14-0/sirt/man/lsem.estimate.Rd | 13 - sirt-1.14-0/sirt/man/mcmc_Rhat.Rd |only sirt-1.14-0/sirt/man/sirt-package.Rd | 233 +++++++++++----------- 30 files changed, 315 insertions(+), 230 deletions(-)
Title: Scoring Rules for Parametric and Simulated Distribution
Forecasts
Description: Dictionary-like reference for computing scoring rules in a wide
range of situations. Covers both parametric forecast distributions (such as
mixtures of Gaussians) and distributions generated via simulation.
Author: Alexander Jordan, Fabian Krueger, Sebastian Lerch
Maintainer: Fabian Krueger <Fabian.Krueger83@gmail.com>
Diff between scoringRules versions 0.9.1 dated 2016-09-06 and 0.9.2 dated 2017-01-11
DESCRIPTION | 8 MD5 | 58 - NAMESPACE | 137 ++-- R/RcppExports.R | 150 ++--- R/checkFunctions.R | 1256 ++++++++++++++++++++++-------------------- R/crpsFunctions.R | 1100 ++++++++++++++++++++++--------------- R/distributionFunctions.R | 591 ++++++++++++-------- R/header.R | 236 ++++---- R/header_replication.R | 1262 +++++++++++++++++++++---------------------- R/lsFunctions.R | 184 +++--- R/procs_casestudy.R | 512 ++++++++--------- R/procs_mc.R | 330 +++++------ build/vignette.rds |binary data/datalist | 4 inst/doc/gettingstarted.R | 74 +- inst/doc/gettingstarted.Rmd | 154 ++--- inst/doc/gettingstarted.html | 256 ++++---- man/Posrealline.Rd | 48 - man/Realline.Rd | 96 +-- man/Variablesupport.Rd | 88 +- man/ar_ms.Rd | 166 ++--- man/gdp_mcmc.Rd | 106 +-- man/parametric.Rd | 250 ++++---- man/plot.casestudy.Rd | 76 +- man/plot.mcstudy.Rd | 78 +- man/run_casestudy.Rd | 114 +-- man/run_mcstudy.Rd | 80 +- man/sample.Rd | 118 ++-- src/RcppExports.cpp | 146 ++-- vignettes/gettingstarted.Rmd | 154 ++--- 30 files changed, 4149 insertions(+), 3683 deletions(-)
Title: API for Mixpanel
Description: Provides an interface to many endpoints of Mixpanel's Data Export, Engage and JQL API. The R functions allow for event and profile data export as well as for segmentation, retention, funnel and addiction analysis. Results are always parsed into convenient R objects. Furthermore it is possible to load and update profiles.
Author: Meinhard Ploner [aut, cre, cph],
ProSiebenSat.1 Digital GmbH [cph],
BCG Digital Ventures GmbH [cph]
Maintainer: Meinhard Ploner <meinhard.ploner@gmail.com>
Diff between RMixpanel versions 0.5-2 dated 2016-12-15 and 0.6-0 dated 2017-01-11
DESCRIPTION | 19 +++++++----- LICENSE | 4 +- MD5 | 18 +++++------ R/getFlatMatrix.R | 3 - R/mixpanelGetData.R | 62 ++++++++++++++++++----------------------- R/mixpanelGetFunnel.R | 9 +++-- build/partial.rdb |binary man/mixpanelGetData.Rd | 3 - man/mixpanelGetSegmentation.Rd | 2 - man/mixpanelJQLQuery.Rd | 4 +- 10 files changed, 60 insertions(+), 64 deletions(-)
Title: Animal Movement Modelling using Hidden Markov Models
Description: Provides tools for animal movement modelling using hidden Markov
models. These include processing of tracking data, fitting hidden Markov models
to movement data, visualization of data and fitted model, decoding of the state
process...
Author: Theo Michelot, Roland Langrock, Toby Patterson, Eric Rexstad (ctb)
Maintainer: Theo Michelot <tmichelot1@sheffield.ac.uk>
Diff between moveHMM versions 1.2 dated 2016-06-04 and 1.3 dated 2017-01-11
DESCRIPTION | 14 MD5 | 88 ++--- R/AIC_moveHMM.R | 58 +-- R/CI.R | 252 +++++++-------- R/RcppExports.R | 2 R/allProbs.R | 116 +++---- R/angleCI.R | 140 ++++---- R/exGen.R | 80 ++-- R/fitHMM.R | 515 +++++++++++++++---------------- R/logAlpha.R | 58 +-- R/logBeta.R | 52 +-- R/moveData.R | 12 R/moveHMM.R | 12 R/n2w.R | 72 ++-- R/nLogLike.R | 122 +++---- R/parDef.R | 124 +++---- R/plotPR.R | 94 ++--- R/plotSat.R | 325 ++++++++++--------- R/plotStates.R | 104 +++--- R/plot_moveData.R | 305 +++++++++--------- R/plot_moveHMM.R | 723 +++++++++++++++++++++++--------------------- R/prepData.R | 198 ++++++------ R/print_moveHMM.R | 66 ++-- R/pseudoRes.R | 184 +++++------ R/simData.R | 606 ++++++++++++++++++------------------ R/stateProbs.R | 30 - R/summary_moveData.R | 72 ++-- R/turnAngle.R | 12 R/viterbi.R | 116 +++---- R/w2n.R | 132 ++++---- README.md | 6 build/vignette.rds |binary inst/CITATION | 6 inst/doc/moveHMM-guide.Rnw | 12 inst/doc/moveHMM-guide.pdf |binary man/fitHMM.Rd | 6 man/plot.moveHMM.Rd | 6 man/plotSat.Rd | 9 man/prepData.Rd | 4 man/simData.Rd | 2 src/RcppExports.cpp | 66 ++-- src/densities.h | 114 +++--- src/nLogLike.cpp | 369 +++++++++++----------- src/trMatrix.cpp | 48 +- vignettes/moveHMM-guide.Rnw | 12 45 files changed, 2713 insertions(+), 2631 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description:
Contains some auxiliary functions for multiple
imputation which complements existing functionality
in R.
In addition to some utility functions, main features
include plausible value imputation, multilevel
imputation functions, imputation using partial least
squares (PLS) for high dimensional predictors, nested
multiple imputation.
Author:
Alexander Robitzsch [aut, cre], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer:
Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 2.1-0 dated 2016-11-25 and 2.2-0 dated 2017-01-11
miceadds-2.1-0/miceadds/R/Rutils.R |only miceadds-2.1-0/miceadds/R/cppfunction.R |only miceadds-2.2-0/miceadds/DESCRIPTION | 16 - miceadds-2.2-0/miceadds/MD5 | 67 +++-- miceadds-2.2-0/miceadds/NAMESPACE | 16 + miceadds-2.2-0/miceadds/R/Reval.R |only miceadds-2.2-0/miceadds/R/Rhat.mice.R | 36 -- miceadds-2.2-0/miceadds/R/Rhat1.R |only miceadds-2.2-0/miceadds/R/cor_avoid_zero.R |only miceadds-2.2-0/miceadds/R/crlem.R |only miceadds-2.2-0/miceadds/R/cxxfunction.copy.R |only miceadds-2.2-0/miceadds/R/grep.vec.R |only miceadds-2.2-0/miceadds/R/index.dataframe.R |only miceadds-2.2-0/miceadds/R/load.Rdata.R |only miceadds-2.2-0/miceadds/R/load.Rdata2.R |only miceadds-2.2-0/miceadds/R/max0.R |only miceadds-2.2-0/miceadds/R/mean0.R |only miceadds-2.2-0/miceadds/R/mice.impute.plausible.values.R | 87 +++--- miceadds-2.2-0/miceadds/R/mice.impute.pls.R | 44 +-- miceadds-2.2-0/miceadds/R/mice_imputation_create_interactions.R | 26 + miceadds-2.2-0/miceadds/R/mice_imputation_pls_correlation_criteria.R | 6 miceadds-2.2-0/miceadds/R/mice_imputation_pls_helper.R | 23 + miceadds-2.2-0/miceadds/R/mice_imputation_pls_include_interactions.R | 16 - miceadds-2.2-0/miceadds/R/mice_imputation_pls_largest_correlations.R | 6 miceadds-2.2-0/miceadds/R/mice_imputation_prepare_2l_functions.R | 5 miceadds-2.2-0/miceadds/R/min0.R |only miceadds-2.2-0/miceadds/R/output.format1.R |only miceadds-2.2-0/miceadds/R/prop_miss.R |only miceadds-2.2-0/miceadds/R/quantile0.R |only miceadds-2.2-0/miceadds/R/save.Rdata.R |only miceadds-2.2-0/miceadds/R/scale_datlist.R | 132 +++++----- miceadds-2.2-0/miceadds/R/sd0.R |only miceadds-2.2-0/miceadds/R/source.all.R |only miceadds-2.2-0/miceadds/R/stats0.R |only miceadds-2.2-0/miceadds/R/var0.R |only miceadds-2.2-0/miceadds/inst/NEWS | 26 + miceadds-2.2-0/miceadds/man/data.ma.Rd | 2 miceadds-2.2-0/miceadds/man/files_move.Rd | 4 miceadds-2.2-0/miceadds/man/kernelpls.fit2.Rd | 10 miceadds-2.2-0/miceadds/man/mice.impute.2lonly.function.Rd | 6 miceadds-2.2-0/miceadds/man/mice.impute.plausible.values.Rd | 8 miceadds-2.2-0/miceadds/man/mice.impute.pls.Rd | 8 miceadds-2.2-0/miceadds/man/miceadds-package.Rd | 20 - miceadds-2.2-0/miceadds/man/scale_datlist.Rd | 24 + miceadds-2.2-0/miceadds/man/stats0.Rd |only miceadds-2.2-0/miceadds/man/subset_datlist.Rd | 2 46 files changed, 352 insertions(+), 238 deletions(-)
Title: Landscape Meteorology Tools
Description: Functions to estimate weather variables at any position of a landscape.
Author: Miquel De Caceres, Nicolas Martin, Antoine Cabon
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between meteoland versions 0.4.9 dated 2016-11-21 and 0.5.2 dated 2017-01-11
DESCRIPTION | 11 ++- MD5 | 26 +++++--- NAMESPACE | 35 ++++++------ R/DefineSpatialDataClasses.R | 99 +++++++++++++++++++++++----------- R/downloadAEMETcurrentday.R |only R/downloadAEMETpoints.R |only R/downloadAEMETstationdata.R |only data/examplegridtopography.rda |binary data/exampleinterpolationdata.rda |binary inst/doc/Meteorology.Rnw | 10 +++ inst/doc/Meteorology.pdf |binary man/SpatialPointsMeteorology-class.Rd | 83 +++++++++++++++------------- man/SpatialPointsTopography-class.Rd | 83 +++++++++++++++------------- man/downloadAEMETpoints.Rd |only src/wind.cpp | 2 vignettes/Meteorology.Rnw | 10 +++ 16 files changed, 217 insertions(+), 142 deletions(-)
Title: Download Occurrence Data of Vascular Plants in Germany from the
FLORKART Database
Description: Download data from the FlorKart database of the floristic field mapping in Germany in a convenient way. The database incorporates distribution data for plants in Germany on the basis of quadrants on a topographical map with a resolution of 1 : 25000 (TK 25). The data is owned and provided by the German Federal Agency for Nature Conservation (BfN) and the Network Phytodiversity in Germany (NetPhyD). For further information please visit <http://www.floraweb.de/pflanzenarten/hintergrundtexte_florkart_organisation.html>. The author of this package is in no way associated with the BfN or NetPhyD.
Author: Nicolas Friess [aut, cre]
Maintainer: Nicolas Friess <nico.friess@posteo.de>
Diff between distdrawr versions 0.1.1 dated 2016-09-17 and 0.1.2 dated 2017-01-11
distdrawr-0.1.1/distdrawr/README.md |only distdrawr-0.1.2/distdrawr/DESCRIPTION | 8 ++++---- distdrawr-0.1.2/distdrawr/MD5 | 13 ++++++------- distdrawr-0.1.2/distdrawr/NAMESPACE | 2 ++ distdrawr-0.1.2/distdrawr/NEWS.md | 7 +++++++ distdrawr-0.1.2/distdrawr/R/check_species.R | 4 ++-- distdrawr-0.1.2/distdrawr/R/distdrawr.R | 4 ++-- distdrawr-0.1.2/distdrawr/R/get.dist.R | 15 ++++++++------- 8 files changed, 31 insertions(+), 22 deletions(-)
Title: Vector Generalized Linear and Additive Models
Description: An implementation of about 6 major classes of
statistical regression models. At the heart of it are the
vector generalized linear and additive model (VGLM/VGAM)
classes, and the book "Vector Generalized Linear and
Additive Models: With an Implementation in R" (Yee, 2015)
<DOI:10.1007/978-1-4939-2818-7>
gives details of the statistical framework and VGAM package.
Currently only fixed-effects models are implemented,
i.e., no random-effects models. Many (150+) models and
distributions are estimated by maximum likelihood estimation
(MLE) or penalized MLE, using Fisher scoring. VGLMs can be
loosely thought of as multivariate GLMs. VGAMs are data-driven
VGLMs (i.e., with smoothing). The other classes are RR-VGLMs
(reduced-rank VGLMs), quadratic RR-VGLMs, reduced-rank VGAMs,
RCIMs (row-column interaction models)---these classes perform
constrained and unconstrained quadratic ordination (CQO/UQO)
models in ecology, as well as constrained additive ordination
(CAO). Note that these functions are subject to change;
see the NEWS and ChangeLog files for latest changes.
Author: Thomas W. Yee <t.yee@auckland.ac.nz>
Maintainer: Thomas Yee <t.yee@auckland.ac.nz>
Diff between VGAM versions 1.0-2 dated 2016-05-27 and 1.0-3 dated 2017-01-11
VGAM-1.0-2/VGAM/R/penvps.R |only VGAM-1.0-2/VGAM/R/psfun.R |only VGAM-1.0-2/VGAM/man/ps.Rd |only VGAM-1.0-3/VGAM/BUGS | 8 VGAM-1.0-3/VGAM/DESCRIPTION | 8 VGAM-1.0-3/VGAM/MD5 | 1069 ++- VGAM-1.0-3/VGAM/NAMESPACE | 130 VGAM-1.0-3/VGAM/NEWS | 53 VGAM-1.0-3/VGAM/R/Links.R | 4 VGAM-1.0-3/VGAM/R/aamethods.q | 67 VGAM-1.0-3/VGAM/R/attrassign.R | 4 VGAM-1.0-3/VGAM/R/bAIC.q | 14 VGAM-1.0-3/VGAM/R/build.terms.vlm.q | 20 VGAM-1.0-3/VGAM/R/calibrate.q | 36 VGAM-1.0-3/VGAM/R/cao.R | 24 VGAM-1.0-3/VGAM/R/cao.fit.q | 150 VGAM-1.0-3/VGAM/R/coef.vlm.q | 16 VGAM-1.0-3/VGAM/R/confint.vlm.R | 88 VGAM-1.0-3/VGAM/R/cqo.R | 24 VGAM-1.0-3/VGAM/R/cqo.fit.q | 85 VGAM-1.0-3/VGAM/R/deviance.vlm.q | 27 VGAM-1.0-3/VGAM/R/effects.vglm.q | 2 VGAM-1.0-3/VGAM/R/family.actuary.R | 781 +- VGAM-1.0-3/VGAM/R/family.aunivariate.R | 3172 ++++++++++- VGAM-1.0-3/VGAM/R/family.basics.R | 208 VGAM-1.0-3/VGAM/R/family.binomial.R | 441 + VGAM-1.0-3/VGAM/R/family.bivariate.R | 446 - VGAM-1.0-3/VGAM/R/family.categorical.R | 244 VGAM-1.0-3/VGAM/R/family.censored.R | 88 VGAM-1.0-3/VGAM/R/family.circular.R | 32 VGAM-1.0-3/VGAM/R/family.exp.R | 78 VGAM-1.0-3/VGAM/R/family.extremes.R | 216 VGAM-1.0-3/VGAM/R/family.functions.R | 144 VGAM-1.0-3/VGAM/R/family.genetic.R | 85 VGAM-1.0-3/VGAM/R/family.glmgam.R | 305 - VGAM-1.0-3/VGAM/R/family.loglin.R | 63 VGAM-1.0-3/VGAM/R/family.math.R | 143 VGAM-1.0-3/VGAM/R/family.mixture.R | 89 VGAM-1.0-3/VGAM/R/family.nbd.R |only VGAM-1.0-3/VGAM/R/family.nonlinear.R | 27 VGAM-1.0-3/VGAM/R/family.normal.R | 326 - VGAM-1.0-3/VGAM/R/family.oneinf.R |only VGAM-1.0-3/VGAM/R/family.others.R | 424 - VGAM-1.0-3/VGAM/R/family.positive.R | 558 +- VGAM-1.0-3/VGAM/R/family.qreg.R | 522 + VGAM-1.0-3/VGAM/R/family.rcim.R | 53 VGAM-1.0-3/VGAM/R/family.rcqo.R | 4 VGAM-1.0-3/VGAM/R/family.robust.R | 32 VGAM-1.0-3/VGAM/R/family.rrr.R | 331 - VGAM-1.0-3/VGAM/R/family.sur.R | 19 VGAM-1.0-3/VGAM/R/family.survival.R | 40 VGAM-1.0-3/VGAM/R/family.ts.R | 354 - VGAM-1.0-3/VGAM/R/family.univariate.R | 6218 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| 2 VGAM-1.0-3/VGAM/man/coefvlm.Rd | 2 VGAM-1.0-3/VGAM/man/confintvglm.Rd | 118 VGAM-1.0-3/VGAM/man/constraints.Rd | 2 VGAM-1.0-3/VGAM/man/corbet.Rd | 2 VGAM-1.0-3/VGAM/man/cqo.Rd | 38 VGAM-1.0-3/VGAM/man/crashes.Rd | 12 VGAM-1.0-3/VGAM/man/cratio.Rd | 2 VGAM-1.0-3/VGAM/man/cumulative.Rd | 18 VGAM-1.0-3/VGAM/man/dagum.Rd | 12 VGAM-1.0-3/VGAM/man/deplot.lmscreg.Rd | 4 VGAM-1.0-3/VGAM/man/depvar.Rd | 2 VGAM-1.0-3/VGAM/man/df.residual.Rd | 4 VGAM-1.0-3/VGAM/man/diffzeta.Rd |only VGAM-1.0-3/VGAM/man/diffzetaUC.Rd |only VGAM-1.0-3/VGAM/man/dirichlet.Rd | 4 VGAM-1.0-3/VGAM/man/dirmul.old.Rd | 8 VGAM-1.0-3/VGAM/man/dirmultinomial.Rd | 31 VGAM-1.0-3/VGAM/man/double.cens.normal.Rd | 2 VGAM-1.0-3/VGAM/man/double.expbinomial.Rd | 8 VGAM-1.0-3/VGAM/man/eexpUC.Rd | 4 VGAM-1.0-3/VGAM/man/enormUC.Rd | 4 VGAM-1.0-3/VGAM/man/enzyme.Rd | 2 VGAM-1.0-3/VGAM/man/erlang.Rd | 8 VGAM-1.0-3/VGAM/man/eunifUC.Rd | 4 VGAM-1.0-3/VGAM/man/expexpff.Rd | 2 VGAM-1.0-3/VGAM/man/expexpff1.Rd | 2 VGAM-1.0-3/VGAM/man/expint3.Rd | 12 VGAM-1.0-3/VGAM/man/explink.Rd | 2 VGAM-1.0-3/VGAM/man/exponential.Rd | 4 VGAM-1.0-3/VGAM/man/felix.Rd | 11 VGAM-1.0-3/VGAM/man/felixUC.Rd | 18 VGAM-1.0-3/VGAM/man/fff.Rd | 8 VGAM-1.0-3/VGAM/man/fill.Rd | 16 VGAM-1.0-3/VGAM/man/fisherz.Rd | 6 VGAM-1.0-3/VGAM/man/fisk.Rd | 14 VGAM-1.0-3/VGAM/man/fittedvlm.Rd | 16 VGAM-1.0-3/VGAM/man/flourbeetle.Rd | 6 VGAM-1.0-3/VGAM/man/foldnormUC.Rd | 2 VGAM-1.0-3/VGAM/man/foldnormal.Rd | 4 VGAM-1.0-3/VGAM/man/foldsqrt.Rd | 2 VGAM-1.0-3/VGAM/man/frechet.Rd | 6 VGAM-1.0-3/VGAM/man/freund61.Rd | 20 VGAM-1.0-3/VGAM/man/gamma1.Rd | 6 VGAM-1.0-3/VGAM/man/gamma2.Rd | 4 VGAM-1.0-3/VGAM/man/gammaR.Rd | 6 VGAM-1.0-3/VGAM/man/gammahyperbola.Rd | 2 VGAM-1.0-3/VGAM/man/garma.Rd | 4 VGAM-1.0-3/VGAM/man/gaussianff.Rd | 2 VGAM-1.0-3/VGAM/man/genbetaII.Rd | 6 VGAM-1.0-3/VGAM/man/gengamma.Rd | 6 VGAM-1.0-3/VGAM/man/genpoisUC.Rd | 2 VGAM-1.0-3/VGAM/man/genpoisson.Rd | 6 VGAM-1.0-3/VGAM/man/geometric.Rd | 10 VGAM-1.0-3/VGAM/man/gev.Rd | 20 VGAM-1.0-3/VGAM/man/gevUC.Rd | 2 VGAM-1.0-3/VGAM/man/gew.Rd | 2 VGAM-1.0-3/VGAM/man/golf.Rd | 8 VGAM-1.0-3/VGAM/man/gompertz.Rd | 4 VGAM-1.0-3/VGAM/man/gpd.Rd | 4 VGAM-1.0-3/VGAM/man/gpdUC.Rd | 2 VGAM-1.0-3/VGAM/man/grain.us.Rd | 2 VGAM-1.0-3/VGAM/man/grc.Rd | 26 VGAM-1.0-3/VGAM/man/gumbel.Rd | 44 VGAM-1.0-3/VGAM/man/gumbelII.Rd | 12 VGAM-1.0-3/VGAM/man/gumbelUC.Rd | 2 VGAM-1.0-3/VGAM/man/guplot.Rd | 10 VGAM-1.0-3/VGAM/man/has.intercept.Rd | 2 VGAM-1.0-3/VGAM/man/hormone.Rd | 4 VGAM-1.0-3/VGAM/man/hspider.Rd | 4 VGAM-1.0-3/VGAM/man/huber.Rd | 8 VGAM-1.0-3/VGAM/man/huberUC.Rd | 4 VGAM-1.0-3/VGAM/man/hunua.Rd | 10 VGAM-1.0-3/VGAM/man/hyperg.Rd | 10 VGAM-1.0-3/VGAM/man/hypersecant.Rd | 8 VGAM-1.0-3/VGAM/man/hzeta.Rd | 44 VGAM-1.0-3/VGAM/man/hzetaUC.Rd | 49 VGAM-1.0-3/VGAM/man/iam.Rd | 28 VGAM-1.0-3/VGAM/man/identitylink.Rd | 8 VGAM-1.0-3/VGAM/man/inv.binomial.Rd | 4 VGAM-1.0-3/VGAM/man/inv.gaussianff.Rd | 8 VGAM-1.0-3/VGAM/man/inv.lomax.Rd | 4 VGAM-1.0-3/VGAM/man/inv.paralogistic.Rd | 12 VGAM-1.0-3/VGAM/man/is.buggy.Rd | 17 VGAM-1.0-3/VGAM/man/kendall.tau.Rd | 8 VGAM-1.0-3/VGAM/man/kumar.Rd | 16 VGAM-1.0-3/VGAM/man/kumarUC.Rd | 2 VGAM-1.0-3/VGAM/man/lakeO.Rd | 2 VGAM-1.0-3/VGAM/man/laplace.Rd | 2 VGAM-1.0-3/VGAM/man/laplaceUC.Rd | 4 VGAM-1.0-3/VGAM/man/latvar.Rd | 2 VGAM-1.0-3/VGAM/man/leipnik.Rd | 33 VGAM-1.0-3/VGAM/man/lerch.Rd | 6 VGAM-1.0-3/VGAM/man/levy.Rd | 10 VGAM-1.0-3/VGAM/man/lgammaff.Rd | 10 VGAM-1.0-3/VGAM/man/lindUC.Rd | 7 VGAM-1.0-3/VGAM/man/lindley.Rd | 6 VGAM-1.0-3/VGAM/man/linkfun.Rd | 2 VGAM-1.0-3/VGAM/man/linkfun.vglm.Rd | 6 VGAM-1.0-3/VGAM/man/lino.Rd | 4 VGAM-1.0-3/VGAM/man/linoUC.Rd | 2 VGAM-1.0-3/VGAM/man/lirat.Rd | 4 VGAM-1.0-3/VGAM/man/lms.bcg.Rd | 4 VGAM-1.0-3/VGAM/man/lms.bcn.Rd | 6 VGAM-1.0-3/VGAM/man/lms.yjn.Rd | 26 VGAM-1.0-3/VGAM/man/logF.Rd | 2 VGAM-1.0-3/VGAM/man/logF.UC.Rd | 4 VGAM-1.0-3/VGAM/man/logUC.Rd | 62 VGAM-1.0-3/VGAM/man/logc.Rd | 2 VGAM-1.0-3/VGAM/man/loge.Rd | 2 VGAM-1.0-3/VGAM/man/logff.Rd | 30 VGAM-1.0-3/VGAM/man/logistic.Rd | 2 VGAM-1.0-3/VGAM/man/logit.Rd | 10 VGAM-1.0-3/VGAM/man/logitoffsetlink.Rd | 2 VGAM-1.0-3/VGAM/man/loglaplace.Rd | 12 VGAM-1.0-3/VGAM/man/loglinb2.Rd | 12 VGAM-1.0-3/VGAM/man/loglog.Rd | 2 VGAM-1.0-3/VGAM/man/lognormal.Rd | 4 VGAM-1.0-3/VGAM/man/logoff.Rd | 4 VGAM-1.0-3/VGAM/man/lomax.Rd | 4 VGAM-1.0-3/VGAM/man/lqnorm.Rd | 4 VGAM-1.0-3/VGAM/man/lrtest.Rd | 12 VGAM-1.0-3/VGAM/man/lvplot.qrrvglm.Rd | 74 VGAM-1.0-3/VGAM/man/lvplot.rrvglm.Rd | 34 VGAM-1.0-3/VGAM/man/machinists.Rd | 4 VGAM-1.0-3/VGAM/man/makeham.Rd | 18 VGAM-1.0-3/VGAM/man/makehamUC.Rd | 2 VGAM-1.0-3/VGAM/man/margeff.Rd | 2 VGAM-1.0-3/VGAM/man/maxwell.Rd | 6 VGAM-1.0-3/VGAM/man/maxwellUC.Rd | 6 VGAM-1.0-3/VGAM/man/mccullagh89.Rd | 4 VGAM-1.0-3/VGAM/man/micmen.Rd | 2 VGAM-1.0-3/VGAM/man/mix2exp.Rd | 2 VGAM-1.0-3/VGAM/man/mix2normal.Rd | 12 VGAM-1.0-3/VGAM/man/mix2poisson.Rd | 2 VGAM-1.0-3/VGAM/man/model.matrixvlm.Rd | 10 VGAM-1.0-3/VGAM/man/moffset.Rd | 10 VGAM-1.0-3/VGAM/man/multilogit.Rd | 2 VGAM-1.0-3/VGAM/man/multinomial.Rd | 20 VGAM-1.0-3/VGAM/man/nakagami.Rd | 18 VGAM-1.0-3/VGAM/man/nakagamiUC.Rd | 2 VGAM-1.0-3/VGAM/man/nbcanlink.Rd | 2 VGAM-1.0-3/VGAM/man/nbolf.Rd | 6 VGAM-1.0-3/VGAM/man/negbinomial.Rd | 68 VGAM-1.0-3/VGAM/man/negbinomial.size.Rd | 2 VGAM-1.0-3/VGAM/man/normal.vcm.Rd | 2 VGAM-1.0-3/VGAM/man/notdocumentedyet.Rd | 42 VGAM-1.0-3/VGAM/man/oalog.Rd |only VGAM-1.0-3/VGAM/man/oalogUC.Rd |only VGAM-1.0-3/VGAM/man/oapospoisUC.Rd |only VGAM-1.0-3/VGAM/man/oapospoisson.Rd |only VGAM-1.0-3/VGAM/man/oazeta.Rd |only VGAM-1.0-3/VGAM/man/oazetaUC.Rd |only VGAM-1.0-3/VGAM/man/oilog.Rd |only VGAM-1.0-3/VGAM/man/oilogUC.Rd |only VGAM-1.0-3/VGAM/man/oiposbinomUC.Rd | 16 VGAM-1.0-3/VGAM/man/oiposbinomial.Rd |only VGAM-1.0-3/VGAM/man/oipospoisUC.Rd | 10 VGAM-1.0-3/VGAM/man/oipospoisson.Rd | 8 VGAM-1.0-3/VGAM/man/oizeta.Rd |only VGAM-1.0-3/VGAM/man/oizetaUC.Rd |only VGAM-1.0-3/VGAM/man/oizipf.Rd |only VGAM-1.0-3/VGAM/man/oizipfUC.Rd |only VGAM-1.0-3/VGAM/man/ordpoisson.Rd | 6 VGAM-1.0-3/VGAM/man/otlog.Rd |only VGAM-1.0-3/VGAM/man/otlogUC.Rd |only VGAM-1.0-3/VGAM/man/otpospoisUC.Rd |only VGAM-1.0-3/VGAM/man/otpospoisson.Rd |only VGAM-1.0-3/VGAM/man/otzeta.Rd |only VGAM-1.0-3/VGAM/man/otzetaUC.Rd |only VGAM-1.0-3/VGAM/man/paralogistic.Rd | 10 VGAM-1.0-3/VGAM/man/paretoIV.Rd | 16 VGAM-1.0-3/VGAM/man/paretoIVUC.Rd | 2 VGAM-1.0-3/VGAM/man/paretoff.Rd | 8 VGAM-1.0-3/VGAM/man/perks.Rd | 17 VGAM-1.0-3/VGAM/man/perksUC.Rd | 4 VGAM-1.0-3/VGAM/man/persp.qrrvglm.Rd | 16 VGAM-1.0-3/VGAM/man/pgamma.deriv.Rd | 10 VGAM-1.0-3/VGAM/man/pgamma.deriv.unscaled.Rd | 2 VGAM-1.0-3/VGAM/man/plotdeplot.lmscreg.Rd | 12 VGAM-1.0-3/VGAM/man/plotqrrvglm.Rd | 14 VGAM-1.0-3/VGAM/man/plotqtplot.lmscreg.Rd | 16 VGAM-1.0-3/VGAM/man/plotrcim0.Rd | 28 VGAM-1.0-3/VGAM/man/plotvgam.Rd | 20 VGAM-1.0-3/VGAM/man/plotvgam.control.Rd | 18 VGAM-1.0-3/VGAM/man/plotvglm.Rd | 14 VGAM-1.0-3/VGAM/man/pneumo.Rd | 4 VGAM-1.0-3/VGAM/man/poisson.points.Rd | 2 VGAM-1.0-3/VGAM/man/poissonff.Rd | 10 VGAM-1.0-3/VGAM/man/polf.Rd | 8 VGAM-1.0-3/VGAM/man/polonoUC.Rd | 8 VGAM-1.0-3/VGAM/man/posbernUC.Rd | 16 VGAM-1.0-3/VGAM/man/posbernoulli.b.Rd | 2 VGAM-1.0-3/VGAM/man/posbernoulli.t.Rd | 6 VGAM-1.0-3/VGAM/man/posbernoulli.tb.Rd | 2 VGAM-1.0-3/VGAM/man/posbinomUC.Rd | 6 VGAM-1.0-3/VGAM/man/posbinomial.Rd | 2 VGAM-1.0-3/VGAM/man/posgeomUC.Rd | 6 VGAM-1.0-3/VGAM/man/posnegbinUC.Rd | 13 VGAM-1.0-3/VGAM/man/posnegbinomial.Rd | 54 VGAM-1.0-3/VGAM/man/posnormUC.Rd | 2 VGAM-1.0-3/VGAM/man/posnormal.Rd | 8 VGAM-1.0-3/VGAM/man/pospoisUC.Rd | 4 VGAM-1.0-3/VGAM/man/pospoisson.Rd | 4 VGAM-1.0-3/VGAM/man/powerlink.Rd | 2 VGAM-1.0-3/VGAM/man/prats.Rd | 6 VGAM-1.0-3/VGAM/man/predictqrrvglm.Rd | 4 VGAM-1.0-3/VGAM/man/predictvglm.Rd | 43 VGAM-1.0-3/VGAM/man/prentice74.Rd | 6 VGAM-1.0-3/VGAM/man/probit.Rd | 6 VGAM-1.0-3/VGAM/man/propodds.Rd | 2 VGAM-1.0-3/VGAM/man/qrrvglm.control.Rd | 54 VGAM-1.0-3/VGAM/man/qtplot.lmscreg.Rd | 14 VGAM-1.0-3/VGAM/man/quasibinomialff.Rd | 12 VGAM-1.0-3/VGAM/man/quasipoissonff.Rd | 2 VGAM-1.0-3/VGAM/man/rayleigh.Rd | 2 VGAM-1.0-3/VGAM/man/rcqo.Rd | 54 VGAM-1.0-3/VGAM/man/rdiric.Rd | 14 VGAM-1.0-3/VGAM/man/rec.exp1.Rd | 2 VGAM-1.0-3/VGAM/man/rec.normal.Rd | 4 VGAM-1.0-3/VGAM/man/reciprocal.Rd | 2 VGAM-1.0-3/VGAM/man/rhobit.Rd | 2 VGAM-1.0-3/VGAM/man/riceff.Rd | 4 VGAM-1.0-3/VGAM/man/rigff.Rd | 4 VGAM-1.0-3/VGAM/man/rlplot.gevff.Rd | 6 VGAM-1.0-3/VGAM/man/rrar.Rd | 14 VGAM-1.0-3/VGAM/man/rrvglm-class.Rd | 14 VGAM-1.0-3/VGAM/man/rrvglm.Rd | 6 VGAM-1.0-3/VGAM/man/rrvglm.control.Rd | 20 VGAM-1.0-3/VGAM/man/rrvglm.optim.control.Rd | 10 VGAM-1.0-3/VGAM/man/s.Rd | 54 VGAM-1.0-3/VGAM/man/sc.studentt2.Rd | 8 VGAM-1.0-3/VGAM/man/sc.t2UC.Rd | 2 VGAM-1.0-3/VGAM/man/seq2binomial.Rd | 10 VGAM-1.0-3/VGAM/man/simplex.Rd | 6 VGAM-1.0-3/VGAM/man/simplexUC.Rd | 2 VGAM-1.0-3/VGAM/man/simulate.vlm.Rd | 10 VGAM-1.0-3/VGAM/man/sinmad.Rd | 6 VGAM-1.0-3/VGAM/man/skellam.Rd | 6 VGAM-1.0-3/VGAM/man/skewnormUC.Rd | 8 VGAM-1.0-3/VGAM/man/skewnormal.Rd | 2 VGAM-1.0-3/VGAM/man/slash.Rd | 37 VGAM-1.0-3/VGAM/man/slashUC.Rd | 6 VGAM-1.0-3/VGAM/man/sm.os.Rd |only VGAM-1.0-3/VGAM/man/sm.ps.Rd |only VGAM-1.0-3/VGAM/man/smartpred.Rd | 2 VGAM-1.0-3/VGAM/man/sratio.Rd | 4 VGAM-1.0-3/VGAM/man/studentt.Rd | 6 VGAM-1.0-3/VGAM/man/summarypvgam.Rd |only VGAM-1.0-3/VGAM/man/summaryvgam.Rd |only VGAM-1.0-3/VGAM/man/summaryvglm.Rd | 24 VGAM-1.0-3/VGAM/man/tikuv.Rd | 2 VGAM-1.0-3/VGAM/man/tikuvUC.Rd | 2 VGAM-1.0-3/VGAM/man/tobit.Rd | 16 VGAM-1.0-3/VGAM/man/tobitUC.Rd | 8 VGAM-1.0-3/VGAM/man/topple.Rd |only VGAM-1.0-3/VGAM/man/toppleUC.Rd |only VGAM-1.0-3/VGAM/man/triangle.Rd | 10 VGAM-1.0-3/VGAM/man/triangleUC.Rd | 3 VGAM-1.0-3/VGAM/man/trplot.Rd | 2 VGAM-1.0-3/VGAM/man/trplot.qrrvglm.Rd | 34 VGAM-1.0-3/VGAM/man/truncparetoUC.Rd | 2 VGAM-1.0-3/VGAM/man/truncweibull.Rd | 10 VGAM-1.0-3/VGAM/man/ucberk.Rd | 4 VGAM-1.0-3/VGAM/man/undocumented-methods.Rd | 14 VGAM-1.0-3/VGAM/man/vcovvlm.Rd | 2 VGAM-1.0-3/VGAM/man/venice.Rd | 14 VGAM-1.0-3/VGAM/man/vgam-class.Rd | 18 VGAM-1.0-3/VGAM/man/vgam.Rd | 242 VGAM-1.0-3/VGAM/man/vgam.control.Rd | 90 VGAM-1.0-3/VGAM/man/vglm-class.Rd | 40 VGAM-1.0-3/VGAM/man/vglm.Rd | 32 VGAM-1.0-3/VGAM/man/vglm.control.Rd | 52 VGAM-1.0-3/VGAM/man/vglmff-class.Rd | 24 VGAM-1.0-3/VGAM/man/vonmises.Rd | 10 VGAM-1.0-3/VGAM/man/vsmooth.spline.Rd | 43 VGAM-1.0-3/VGAM/man/waitakere.Rd | 8 VGAM-1.0-3/VGAM/man/waldff.Rd | 25 VGAM-1.0-3/VGAM/man/weibull.mean.Rd | 4 VGAM-1.0-3/VGAM/man/weibullR.Rd | 10 VGAM-1.0-3/VGAM/man/weightsvglm.Rd | 4 VGAM-1.0-3/VGAM/man/wine.Rd | 8 VGAM-1.0-3/VGAM/man/yeo.johnson.Rd | 8 VGAM-1.0-3/VGAM/man/yip88.Rd | 20 VGAM-1.0-3/VGAM/man/yulesimon.Rd | 24 VGAM-1.0-3/VGAM/man/yulesimonUC.Rd | 45 VGAM-1.0-3/VGAM/man/zabinomUC.Rd | 6 VGAM-1.0-3/VGAM/man/zabinomial.Rd | 10 VGAM-1.0-3/VGAM/man/zageomUC.Rd | 6 VGAM-1.0-3/VGAM/man/zageometric.Rd | 10 VGAM-1.0-3/VGAM/man/zanegbinUC.Rd | 8 VGAM-1.0-3/VGAM/man/zanegbinomial.Rd | 12 VGAM-1.0-3/VGAM/man/zapoisUC.Rd | 4 VGAM-1.0-3/VGAM/man/zapoisson.Rd | 2 VGAM-1.0-3/VGAM/man/zero.Rd | 4 VGAM-1.0-3/VGAM/man/zeta.Rd | 57 VGAM-1.0-3/VGAM/man/zetaUC.Rd | 68 VGAM-1.0-3/VGAM/man/zetaff.Rd | 26 VGAM-1.0-3/VGAM/man/zibinomUC.Rd | 8 VGAM-1.0-3/VGAM/man/zibinomial.Rd | 16 VGAM-1.0-3/VGAM/man/zigeomUC.Rd | 10 VGAM-1.0-3/VGAM/man/zigeometric.Rd | 8 VGAM-1.0-3/VGAM/man/zinegbinUC.Rd | 10 VGAM-1.0-3/VGAM/man/zinegbinomial.Rd | 30 VGAM-1.0-3/VGAM/man/zipebcom.Rd | 10 VGAM-1.0-3/VGAM/man/zipf.Rd | 30 VGAM-1.0-3/VGAM/man/zipfUC.Rd | 52 VGAM-1.0-3/VGAM/man/zipoisUC.Rd | 8 VGAM-1.0-3/VGAM/man/zipoisson.Rd | 8 VGAM-1.0-3/VGAM/man/zoabetaR.Rd | 10 VGAM-1.0-3/VGAM/man/zoabetaUC.Rd | 18 VGAM-1.0-3/VGAM/src/fgam.f | 84 VGAM-1.0-3/VGAM/src/tyeepolygamma3.c | 4 VGAM-1.0-3/VGAM/src/vdigami.f | 10 VGAM-1.0-3/VGAM/src/veigen.f | 55 VGAM-1.0-3/VGAM/src/vlinpack2.f | 5 VGAM-1.0-3/VGAM/src/vlinpack3.f | 5 VGAM-1.0-3/VGAM/vignettes/categoricalVGAM.Rnw | 18 VGAM-1.0-3/VGAM/vignettes/categoricalVGAMbib.bib | 49 554 files changed, 14268 insertions(+), 11788 deletions(-)
Title: Using Keel in R Code
Description: KEEL is a popular Java software for a large number of different knowledge data discovery tasks.
This package takes the advantages of KEEL and R, allowing to use KEEL algorithms in simple R code.
The implemented R code layer between R and KEEL makes easy both using KEEL algorithms in R as implementing new algorithms for 'RKEEL' in a very simple way.
It includes more than 100 algorithms for classification, regression and preprocess, which allows a more complete experimentation process.
For more information about KEEL, see <http://www.keel.es/>.
Author: Jose M. Moyano [aut, cre], Luciano Sanchez Ramos [aut], Oliver Sanchez Marin [ctb]
Maintainer: Jose M. Moyano <i02momuj@uco.es>
Diff between RKEEL versions 1.1.6 dated 2016-02-02 and 1.1.15 dated 2017-01-11
DESCRIPTION | 21 - MD5 | 38 ++ R/Alatasetal_A.R |only R/Alcalaetal_A.R |only R/Apriori_A.R |only R/AssociationRulesAlgorithm.R |only R/ClassificationAlgorithm.R | 534 +++++++++++++++++++-------------------- R/EARMGA_A.R |only R/Eclat_A.R |only R/FPgrowth_A.R |only R/FuzzyApriori_A.R |only R/GAR_A.R |only R/GENAR_A.R |only R/GeneticFuzzyAprioriDC_A.R |only R/GeneticFuzzyApriori_A.R |only R/MODENAR_A.R |only R/MOEA_Ghosh_A.R |only R/MOPNAR_A.R |only R/NICGAR_A.R |only R/QAR_CIP_NSGAII_A.R |only man/Alatasetal_A.Rd |only man/Alcalaetal_A.Rd |only man/Apriori_A.Rd |only man/AssociationRulesAlgorithm.Rd |only man/EARMGA_A.Rd |only man/Eclat_A.Rd |only man/FPgrowth_A.Rd |only man/FuzzyApriori_A.Rd |only man/GAR_A.Rd |only man/GENAR_A.Rd |only man/GeneticFuzzyAprioriDC_A.Rd |only man/GeneticFuzzyApriori_A.Rd |only man/MODENAR_A.Rd |only man/MOEA_Ghosh_A.Rd |only man/MOPNAR_A.Rd |only man/NICGAR_A.Rd |only man/QAR_CIP_NSGAII_A.Rd |only 37 files changed, 314 insertions(+), 279 deletions(-)
Title: Differential RNA Methylation Analysis for Count-Based
Small-Sample Sequencing Data with a Quad-Negative Binomial
Model
Description: As a newly emerged research area, RNA epigenetics has drawn increasing
attention recently for the participation of RNA methylation and other
modifications in a number of crucial biological processes. Thanks to high
throughput sequencing techniques, such as m6A-Seq, transcriptome-wide RNA
methylation profile is now available in the form of count-based data, with
which it is often of interests to study the dynamics in epitranscriptomic
layer. However, the sample size of RNA methylation experiment is usually
very small due to its costs; and additionally, there usually exist a large
number of genes whose methylation level cannot be accurately estimated due
to their low expression level, making differential RNA methylation analysis
a difficult task.
We present QNB, a statistical approach for differential RNA methylation
analysis with count-based small-sample sequencing data. The method is based
on 4 independent negative binomial dis-tributions with their variances and
means linked by local regressions. QNB showed improved performance on
simulated and real m6A-Seq datasets when compared with competing algorithms.
And the QNB model is also applicable to other datasets related RNA
modifications, including but not limited to RNA bisulfite sequencing,
m1A-Seq, Par-CLIP, RIP-Seq, etc.Please don't hesitate to contact
<liulian19860905@163.com> if you have any questions.
Author: Lian Liu <liulian19860905@163.com>
Maintainer: Lian Liu <liulian19860905@163.com>
Diff between QNB versions 1.1.2 dated 2016-12-28 and 1.1.7 dated 2017-01-11
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/estimateP.R | 2 -- R/qnbtest.R | 14 ++++++-------- inst/doc/QNB-Overview.R | 24 +++++++++++++++++------- inst/doc/QNB-Overview.Rnw | 27 ++++++++++++++++++++------- inst/doc/QNB-Overview.pdf |binary man/QNB-package.Rd | 2 +- man/qnbtest.Rd | 28 ++++++++++++++++++++-------- vignettes/QNB-Overview.Rnw | 23 ++++++++++++++++------- 10 files changed, 92 insertions(+), 52 deletions(-)
Title: Stemming Algorithms for the Portuguese Language
Description: Wraps a collection of stemming algorithms for the Portuguese
Language.
Author: Daniel Falbel [aut, cre]
Maintainer: Daniel Falbel <dfalbel@gmail.com>
Diff between ptstem versions 0.0.2 dated 2016-09-17 and 0.0.3 dated 2017-01-11
DESCRIPTION | 18 +++++++++++------- MD5 | 11 ++++++++--- NEWS.md | 5 +++++ R/utils.R | 5 +++-- build |only inst/doc |only vignettes |only 7 files changed, 27 insertions(+), 12 deletions(-)
Title: A Graphical User Interface for Microarray Data Analysis and
Annotation
Description: Provides a Graphical User Interface for Analysing DNA Microarray Data. It performs functional enrichment on genes of interest, identifies gene symbols and also builds co-expression network.
Author: Dhammapal Bharne, Vaibhav Vindal
Maintainer: Dhammapal Bharne <dhammapalb@uohyd.ac.in>
Diff between maGUI versions 1.0 dated 2015-10-12 and 2.0 dated 2017-01-11
maGUI-1.0/maGUI/R/filter_specific.R |only maGUI-1.0/maGUI/R/filter_unspecific.R |only maGUI-1.0/maGUI/R/gsea.R |only maGUI-1.0/maGUI/R/gsta.R |only maGUI-1.0/maGUI/man/filter_sp.Rd |only maGUI-1.0/maGUI/man/gsea.Rd |only maGUI-1.0/maGUI/man/gsta.Rd |only maGUI-2.0/maGUI/DESCRIPTION | 24 maGUI-2.0/maGUI/MD5 | 99 maGUI-2.0/maGUI/NAMESPACE | 19 maGUI-2.0/maGUI/R/affym.R | 214 - maGUI-2.0/maGUI/R/agone.R | 213 - maGUI-2.0/maGUI/R/agtwo.R | 210 - maGUI-2.0/maGUI/R/class.R | 380 +- maGUI-2.0/maGUI/R/cluster.R | 47 maGUI-2.0/maGUI/R/dendro.R | 2494 +++++++++++----- maGUI-2.0/maGUI/R/dge.R | 299 + maGUI-2.0/maGUI/R/dmo.R | 221 - maGUI-2.0/maGUI/R/dmsm.R | 220 - maGUI-2.0/maGUI/R/filter_sp.R |only maGUI-2.0/maGUI/R/filter_sp2.R |only maGUI-2.0/maGUI/R/filter_unsp.R |only maGUI-2.0/maGUI/R/graph_gsea_goBP.R |only maGUI-2.0/maGUI/R/graph_gsea_goCC.R |only maGUI-2.0/maGUI/R/graph_gsea_goMF.R |only maGUI-2.0/maGUI/R/graph_gsea_kegg.R |only maGUI-2.0/maGUI/R/graph_gsta_goBP.R |only maGUI-2.0/maGUI/R/graph_gsta_goCC.R |only maGUI-2.0/maGUI/R/graph_gsta_goMF.R |only maGUI-2.0/maGUI/R/graph_gsta_kegg.R |only maGUI-2.0/maGUI/R/gsea_goBP.R |only maGUI-2.0/maGUI/R/gsea_goCC.R |only maGUI-2.0/maGUI/R/gsea_goMF.R |only maGUI-2.0/maGUI/R/gsea_kegg.R |only maGUI-2.0/maGUI/R/gsta_goBP.R |only maGUI-2.0/maGUI/R/gsta_goCC.R |only maGUI-2.0/maGUI/R/gsta_goMF.R |only maGUI-2.0/maGUI/R/gsta_kegg.R |only maGUI-2.0/maGUI/R/illbead.R | 212 - maGUI-2.0/maGUI/R/illlumi.R | 212 - maGUI-2.0/maGUI/R/maGUI.R | 4979 ++++++++++++++++++++++++++------- maGUI-2.0/maGUI/R/nimblg.R | 214 - maGUI-2.0/maGUI/R/ntwk.R | 43 maGUI-2.0/maGUI/R/pca.R | 23 maGUI-2.0/maGUI/R/sse.R | 41 maGUI-2.0/maGUI/R/stat_sign.R | 115 maGUI-2.0/maGUI/R/symbol.R | 26 maGUI-2.0/maGUI/man/affym.Rd | 2 maGUI-2.0/maGUI/man/agone.Rd | 2 maGUI-2.0/maGUI/man/agtwo.Rd | 2 maGUI-2.0/maGUI/man/dge.Rd | 2 maGUI-2.0/maGUI/man/dmo.Rd | 2 maGUI-2.0/maGUI/man/dmsm.Rd | 2 maGUI-2.0/maGUI/man/filter_sp2.Rd |only maGUI-2.0/maGUI/man/graph_gsea_goBP.Rd |only maGUI-2.0/maGUI/man/graph_gsea_goCC.Rd |only maGUI-2.0/maGUI/man/graph_gsea_goMF.Rd |only maGUI-2.0/maGUI/man/graph_gsea_kegg.Rd |only maGUI-2.0/maGUI/man/graph_gsta_goBP.Rd |only maGUI-2.0/maGUI/man/graph_gsta_goCC.Rd |only maGUI-2.0/maGUI/man/graph_gsta_goMF.Rd |only maGUI-2.0/maGUI/man/graph_gsta_kegg.Rd |only maGUI-2.0/maGUI/man/gsea_goBP.Rd |only maGUI-2.0/maGUI/man/gsea_goCC.Rd |only maGUI-2.0/maGUI/man/gsea_goMF.Rd |only maGUI-2.0/maGUI/man/gsea_kegg.Rd |only maGUI-2.0/maGUI/man/gsta_goBP.Rd |only maGUI-2.0/maGUI/man/gsta_goCC.Rd |only maGUI-2.0/maGUI/man/gsta_goMF.Rd |only maGUI-2.0/maGUI/man/gsta_kegg.Rd |only maGUI-2.0/maGUI/man/maGUI-package.Rd | 10 maGUI-2.0/maGUI/man/maGUI.Rd | 6 72 files changed, 6776 insertions(+), 3557 deletions(-)
Title: Spatial and Spatio-Temporal Geostatistical Modelling, Prediction
and Simulation
Description: Variogram modelling; simple, ordinary and universal point or block (co)kriging; spatio-temporal kriging; sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions.
Author: Edzer Pebesma [aut, cre],
Benedikt Graeler [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between gstat versions 1.1-3 dated 2016-03-31 and 1.1-4 dated 2017-01-11
gstat-1.1-3/gstat/R/smenu.R |only gstat-1.1-4/gstat/DESCRIPTION | 7 gstat-1.1-4/gstat/MD5 | 99 ++++---- gstat-1.1-4/gstat/R/fit.variogram.R | 9 gstat-1.1-4/gstat/R/fit.variogram.gls.R | 179 +++++++++++----- gstat-1.1-4/gstat/R/plot.variogramCloud.R | 8 gstat-1.1-4/gstat/R/variogram.default.R | 5 gstat-1.1-4/gstat/R/variogramST.R | 14 - gstat-1.1-4/gstat/R/zzz.R | 2 gstat-1.1-4/gstat/build/vignette.rds |binary gstat-1.1-4/gstat/data/DE_RB_2005.rda |binary gstat-1.1-4/gstat/data/coalash.rda |binary gstat-1.1-4/gstat/data/fulmar.rda |binary gstat-1.1-4/gstat/data/jura.rda |binary gstat-1.1-4/gstat/data/meuse.all.rda |binary gstat-1.1-4/gstat/data/meuse.alt.rda |binary gstat-1.1-4/gstat/data/ncp.grid.rda |binary gstat-1.1-4/gstat/data/oxford.rda |binary gstat-1.1-4/gstat/data/pcb.rda |binary gstat-1.1-4/gstat/data/sic2004.rda |binary gstat-1.1-4/gstat/data/sic97.rda |binary gstat-1.1-4/gstat/data/tull.rda |binary gstat-1.1-4/gstat/data/vv.rda |binary gstat-1.1-4/gstat/data/walker.rda |binary gstat-1.1-4/gstat/data/wind.rda |binary gstat-1.1-4/gstat/demo/depend.R | 4 gstat-1.1-4/gstat/demo/fulmar.R | 2 gstat-1.1-4/gstat/inst/CITATION | 14 + gstat-1.1-4/gstat/inst/NEWS.Rd | 8 gstat-1.1-4/gstat/inst/doc/gstat.R | 1 gstat-1.1-4/gstat/inst/doc/gstat.pdf |binary gstat-1.1-4/gstat/inst/doc/prs.R | 1 gstat-1.1-4/gstat/inst/doc/prs.pdf |binary gstat-1.1-4/gstat/inst/doc/spatio-temporal-kriging.Rnw | 166 +++++++------- gstat-1.1-4/gstat/inst/doc/spatio-temporal-kriging.bib | 73 ++---- gstat-1.1-4/gstat/inst/doc/spatio-temporal-kriging.pdf |binary gstat-1.1-4/gstat/inst/doc/st.R | 1 gstat-1.1-4/gstat/inst/doc/st.pdf |binary gstat-1.1-4/gstat/man/krigeST.Rd | 6 gstat-1.1-4/gstat/man/variogram.Rd | 6 gstat-1.1-4/gstat/src/data.c | 4 gstat-1.1-4/gstat/src/gcdist.c | 2 gstat-1.1-4/gstat/src/msim.c | 3 gstat-1.1-4/gstat/src/nsearch.c | 4 gstat-1.1-4/gstat/src/s.c | 12 - gstat-1.1-4/gstat/src/userio.c | 4 gstat-1.1-4/gstat/tests/merge.Rout.save | 12 - gstat-1.1-4/gstat/tests/unproj.Rout.save | 79 +++---- gstat-1.1-4/gstat/tests/windst.Rout.save | 20 - gstat-1.1-4/gstat/vignettes/spatio-temporal-kriging.Rnw | 166 +++++++------- gstat-1.1-4/gstat/vignettes/spatio-temporal-kriging.bib | 73 ++---- 51 files changed, 535 insertions(+), 449 deletions(-)
Title: Interactive Exploration of Contour Data
Description: Interactive tools to explore topographic-like data
sets. Such data sets take the form of a matrix in which the rows and
columns provide location/frequency information, and the matrix elements
contain altitude/response information. Such data is found in cartography,
2D spectroscopy and chemometrics. The functions in this package create
interactive web pages showing the contoured data, possibly with
slices from the original matrix parallel to each dimension. The interactive
behavior is created using the D3.js 'JavaScript' library by Mike Bostock.
Author: Bryan A. Hanson [aut, cre],
Kristina R. Mulry [ctb],
Mike Bostock [cph, ctb] (author of the d3.js library, http://d3js.org)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between exCon versions 0.1.14 dated 2016-01-26 and 0.2.1 dated 2017-01-11
exCon-0.1.14/exCon/inst/extdata/eC2_controls.js |only exCon-0.2.1/exCon/DESCRIPTION | 20 - exCon-0.2.1/exCon/MD5 | 31 - exCon-0.2.1/exCon/NEWS | 8 exCon-0.2.1/exCon/R/exCon.R | 49 +- exCon-0.2.1/exCon/inst/extdata/eC2_brushNguides.js | 106 ++--- exCon-0.2.1/exCon/inst/extdata/eC2_contours.js | 46 +- exCon-0.2.1/exCon/inst/extdata/eC2_globals.js | 34 - exCon-0.2.1/exCon/inst/extdata/eC_brushNguides.js | 161 +++++--- exCon-0.2.1/exCon/inst/extdata/eC_contours.js | 44 -- exCon-0.2.1/exCon/inst/extdata/eC_controls.js | 418 ++++++--------------- exCon-0.2.1/exCon/inst/extdata/eC_globals.js | 4 exCon-0.2.1/exCon/inst/extdata/eC_main.js | 2 exCon-0.2.1/exCon/inst/extdata/eC_slices.js | 38 - exCon-0.2.1/exCon/inst/extdata/exCon.html | 2 exCon-0.2.1/exCon/inst/extdata/exCon2.html | 2 exCon-0.2.1/exCon/man/exCon.Rd | 45 +- 17 files changed, 466 insertions(+), 544 deletions(-)
Title: Co-Occurrence Network
Description: Read and preprocess fasta format data, and construct the co-occurrence network for downstream analyses. This R package is to construct the co-occurrence network with the algorithm developed by Du (2008) <DOI:10.1101/gr.6969007>. It could be used to transform the data with high-dimension, such as DNA or protein sequence, into co-occurrence networks. Co-occurrence network could not only capture the co-variation pattern between variables, such as the positions in DNA or protein sequences, but also reflect the relationship between samples. Although it is originally used in DNA and protein sequences, it could be also used to other kinds of data, such as RNA, SNP, etc.
Author: Yuanqiang Zou <jerrytsou2001@gmail.com>, Yousong Peng <pys2013@hnu.edu.cn> and Taijiao Jiang <taijiao@moon.ibp.ac.cn>
Maintainer: Yuanqiang Zou <jerrytsou2001@gmail.com>
Diff between cooccurNet versions 0.1.4 dated 2016-12-15 and 0.1.5 dated 2017-01-11
DESCRIPTION | 8 - MD5 | 20 +-- NAMESPACE | 1 R/cooccurrence.R | 13 +- R/gennetwork.R | 29 ++++ R/networkpvalue.R | 170 ++++++++++++++++++++++++++++ R/pubfuncs.R | 19 +++ inst/doc/Extending-cooccurNet.Rmd | 20 ++- inst/doc/Extending-cooccurNet.html | 218 +++++++++++++++++++++++++------------ inst/extdata/changeLog/changeLog | 6 - vignettes/Extending-cooccurNet.Rmd | 20 ++- 11 files changed, 429 insertions(+), 95 deletions(-)