Title: Client for the YouTube API
Description: Get comments posted on YouTube videos, information on how many
times a video has been liked, search for videos with particular content, and
much more. You can also scrape captions from a few videos. To learn more about
the YouTube API, see <https://developers.google.com/youtube/v3/>.
Author: Gaurav Sood [aut, cre],
Kate Lyons [ctb]
Maintainer: Gaurav Sood <gsood07@gmail.com>
Diff between tuber versions 0.9.2 dated 2017-11-19 and 0.9.3 dated 2018-02-02
DESCRIPTION | 14 ++++++----- MD5 | 36 ++++++++++++++++-------------- NAMESPACE | 1 NEWS.md | 8 ++++++ R/get_all_comments.R |only R/get_related_videos.R | 20 ++++++++++------- R/tuber.R | 3 -- R/yt_oauth.R | 8 +++++- README.md | 54 +++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/tuber-ex.R | 6 +++++ inst/doc/tuber-ex.Rmd | 9 ++++++- inst/doc/tuber-ex.html | 11 +++++---- man/get_all_comments.Rd |only man/get_related_videos.Rd | 2 - man/list_langs.Rd | 4 +-- man/list_regions.Rd | 4 +-- man/tuber_GET.Rd | 2 - man/yt_oauth.Rd | 3 +- vignettes/tuber-ex.Rmd | 9 ++++++- 20 files changed, 119 insertions(+), 75 deletions(-)
Title: Fuzzy Forests
Description: Fuzzy forests, a new algorithm based on random forests,
is designed to reduce the bias seen in random forest feature selection
caused by the presence of correlated features. Fuzzy forests uses
recursive feature elimination random forests to select
features from separate blocks of correlated features where the
correlation within each block of features is high
and the correlation between blocks of features is low.
One final random forest is fit using the surviving features.
This package fits random forests using the 'randomForest' package and
allows for easy use of 'WGCNA' to split features into distinct blocks.
Author: Daniel Conn [aut, cre],
Tuck Ngun [aut],
Christina M. Ramirez [aut]
Maintainer: Daniel Conn <djconn17@gmail.com>
Diff between fuzzyforest versions 1.0.4 dated 2017-11-12 and 1.0.5 dated 2018-02-02
DESCRIPTION | 10 ++-- MD5 | 48 +++++++++---------- R/ff.R | 16 +++--- R/tuning_parameters.R | 2 R/wff.R | 97 ++++++++++++++++++--------------------- man/Liver_Expr.Rd | 1 man/WGCNA_control.Rd | 3 - man/ctg.Rd | 1 man/example_ff.Rd | 1 man/ff.Rd | 2 man/ff.formula.Rd | 1 man/fuzzy_forest.Rd | 1 man/fuzzyforest.Rd | 1 man/iterative_RF.Rd | 1 man/modplot.Rd | 1 man/multi_class_lr.Rd | 1 man/predict.fuzzy_forest.Rd | 1 man/print.fuzzy_forest.Rd | 1 man/screen_control.Rd | 1 man/select_RF.Rd | 1 man/select_control.Rd | 1 man/wff.Rd | 9 +-- man/wff.formula.Rd | 32 +++++++++++- tests/testthat/test_multiclass.R | 28 ++++++----- tests/testthat/test_regression.R | 28 ++++++----- 25 files changed, 146 insertions(+), 143 deletions(-)
Title: Integer Sequence Generator
Description: Generates well-known integer sequences. 'gmp' package is adopted for computing with arbitrarily large numbers. Every function has hyperlink to its corresponding item in OEIS (The On-Line Encyclopedia of Integer Sequences) in the function help page. For interested readers, see Sloane and Plouffe (1995, ISBN:978-0125586306).
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>
Diff between Zseq versions 0.1.2 dated 2018-01-31 and 0.2.0 dated 2018-02-02
Zseq-0.1.2/Zseq/R/Polite.R |only Zseq-0.1.2/Zseq/R/mpfr_auxiliary.R |only Zseq-0.1.2/Zseq/man/A138591.Rd |only Zseq-0.2.0/Zseq/DESCRIPTION | 10 - Zseq-0.2.0/Zseq/MD5 | 156 ++++++++++++++---------------- Zseq-0.2.0/Zseq/NAMESPACE | 3 Zseq-0.2.0/Zseq/R/Abundant.R | 35 +----- Zseq-0.2.0/Zseq/R/Achilles.R | 43 ++------ Zseq-0.2.0/Zseq/R/Bell.R | 33 +----- Zseq-0.2.0/Zseq/R/Carmichael.R | 47 +++------ Zseq-0.2.0/Zseq/R/Catalan.R | 35 +----- Zseq-0.2.0/Zseq/R/Composite.R | 31 +---- Zseq-0.2.0/Zseq/R/Deficient.R | 31 +---- Zseq-0.2.0/Zseq/R/Equidigital.R | 80 ++++++++------- Zseq-0.2.0/Zseq/R/Evil.R | 39 ++----- Zseq-0.2.0/Zseq/R/Extravagant.R | 51 +++------ Zseq-0.2.0/Zseq/R/Factorial.Alternating.R | 39 ++----- Zseq-0.2.0/Zseq/R/Factorial.Double.R | 44 ++------ Zseq-0.2.0/Zseq/R/Factorial.R | 31 +---- Zseq-0.2.0/Zseq/R/Fibonacci.R | 38 ++----- Zseq-0.2.0/Zseq/R/Frugal.R | 52 +++------- Zseq-0.2.0/Zseq/R/Happy.R | 33 +----- Zseq-0.2.0/Zseq/R/Juggler.Largest.R | 27 +---- Zseq-0.2.0/Zseq/R/Juggler.Nsteps.R | 27 +---- Zseq-0.2.0/Zseq/R/Juggler.R | 33 ++---- Zseq-0.2.0/Zseq/R/Lucas.R | 29 +---- Zseq-0.2.0/Zseq/R/Motzkin.R | 37 ++----- Zseq-0.2.0/Zseq/R/Odious.R | 31 +---- Zseq-0.2.0/Zseq/R/Padovan.R | 29 +---- Zseq-0.2.0/Zseq/R/Palindromic.R | 33 +----- Zseq-0.2.0/Zseq/R/Palindromic.Squares.R | 32 +----- Zseq-0.2.0/Zseq/R/Perfect.R | 41 ++----- Zseq-0.2.0/Zseq/R/Perrin.R | 29 +---- Zseq-0.2.0/Zseq/R/Powerful.R | 37 ++----- Zseq-0.2.0/Zseq/R/Prime.R | 35 +----- Zseq-0.2.0/Zseq/R/Regular.R | 50 +++------ Zseq-0.2.0/Zseq/R/Square.R | 28 +---- Zseq-0.2.0/Zseq/R/Squarefree.R | 41 ++----- Zseq-0.2.0/Zseq/R/Telephone.R | 33 +----- Zseq-0.2.0/Zseq/R/Thabit.R | 30 +---- Zseq-0.2.0/Zseq/R/Triangular.R | 29 +---- Zseq-0.2.0/Zseq/R/Unusual.R | 37 ++----- Zseq-0.2.0/Zseq/R/gmp_auxiliary.R |only Zseq-0.2.0/Zseq/R/package-Zseq.R | 4 Zseq-0.2.0/Zseq/man/A000032.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000040.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000045.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000069.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000085.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000108.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000110.Rd | 13 -- Zseq-0.2.0/Zseq/man/A000142.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000165.Rd | 13 -- Zseq-0.2.0/Zseq/man/A000217.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000290.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000396.Rd | 11 -- Zseq-0.2.0/Zseq/man/A000931.Rd | 11 -- Zseq-0.2.0/Zseq/man/A001006.Rd | 11 -- Zseq-0.2.0/Zseq/man/A001608.Rd | 11 -- Zseq-0.2.0/Zseq/man/A001694.Rd | 11 -- Zseq-0.2.0/Zseq/man/A001969.Rd | 11 -- Zseq-0.2.0/Zseq/man/A002113.Rd | 11 -- Zseq-0.2.0/Zseq/man/A002779.Rd | 11 -- Zseq-0.2.0/Zseq/man/A002808.Rd | 11 -- Zseq-0.2.0/Zseq/man/A002997.Rd | 11 -- Zseq-0.2.0/Zseq/man/A005100.Rd | 11 -- Zseq-0.2.0/Zseq/man/A005101.Rd | 13 -- Zseq-0.2.0/Zseq/man/A005117.Rd | 11 -- Zseq-0.2.0/Zseq/man/A005165.Rd | 11 -- Zseq-0.2.0/Zseq/man/A007320.Rd | 11 -- Zseq-0.2.0/Zseq/man/A007770.Rd | 11 -- Zseq-0.2.0/Zseq/man/A046758.Rd | 13 -- Zseq-0.2.0/Zseq/man/A046759.Rd | 11 -- Zseq-0.2.0/Zseq/man/A046760.Rd | 11 -- Zseq-0.2.0/Zseq/man/A051037.Rd | 11 -- Zseq-0.2.0/Zseq/man/A052486.Rd | 13 -- Zseq-0.2.0/Zseq/man/A055010.Rd | 11 -- Zseq-0.2.0/Zseq/man/A064052.Rd | 11 -- Zseq-0.2.0/Zseq/man/A094683.Rd | 8 - Zseq-0.2.0/Zseq/man/A094716.Rd | 11 -- Zseq-0.2.0/Zseq/man/Zseq-package.Rd | 2 81 files changed, 605 insertions(+), 1303 deletions(-)
Title: Outlier Detection Using Invariant Coordinate Selection
Description: Multivariate outlier detection is performed using invariant coordinates where the package offers different methods to choose the appropriate components.
Author: Aurore Archimbaud, Klaus Nordhausen, Anne Ruiz-Gazen
Maintainer: Klaus Nordhausen <klaus.nordhausen@tuwien.ac.at>
Diff between ICSOutlier versions 0.2-0 dated 2016-12-20 and 0.3-0 dated 2018-02-02
DESCRIPTION | 12 +++--- MD5 | 22 ++++++------ NAMESPACE | 2 - R/comp.simu.test.R | 79 +++++++++++++++++++++++++++++++++------------- R/dist.simu.test.R | 78 ++++++++++++++++++++++++++++++++------------- R/ics.outlier.R | 10 ++--- inst/ChangeLog | 6 +++ man/HTP.Rd | 3 + man/ICSOutlier-package.Rd | 6 +-- man/comp.simu.test.Rd | 38 +++++++++++++++++++--- man/dist.simu.test.Rd | 32 ++++++++++++++++-- man/ics.outlier.Rd | 41 +++++++++++++++++++---- 12 files changed, 242 insertions(+), 87 deletions(-)
Title: Soybean Nested Association Mapping Dataset
Description: Genomic and multi-environmental soybean data. Soybean Nested
Association Mapping (SoyNAM) project dataset funded by the United Soybean Board
(USB), pre-formatted for general analysis and genome-wide association analysis
using the NAM package.
Author: Alencar Xavier, William Beavis, James Specht, Brian Diers, Reka Howard,
William Muir, Katy Rainey.
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between SoyNAM versions 1.3 dated 2016-12-13 and 1.4 dated 2018-02-02
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- R/BLUP.R | 6 +++--- data/datalist | 5 +++-- data/soyin.RData |only data/soynam.RData |binary man/BLUP.Rd | 14 ++++++++++---- man/SoyNAM-package.Rd | 12 +++++++----- man/soynam.Rd | 29 +++++++++++++++++++++++++---- 9 files changed, 60 insertions(+), 29 deletions(-)
Title: SciViews - Miscellaneous Functions
Description: Miscellaneous functions for SciViews or general use: manage a
temporary environment attached to the search path for temporary variables you
do not want to save() or load(), test if Aqua, Mac, Win, ... Show progress
bar, etc.
Author: Philippe Grosjean [aut, cre],
Romain Francois [ctb],
Kamil Barton [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svMisc versions 0.9-70 dated 2014-03-02 and 1.0-1 dated 2018-02-02
svMisc-0.9-70/svMisc/R/TempEnv.R |only svMisc-0.9-70/svMisc/R/addItems.R |only svMisc-0.9-70/svMisc/R/addTemp.R |only svMisc-0.9-70/svMisc/R/argsTip.R |only svMisc-0.9-70/svMisc/R/assignTemp.R |only svMisc-0.9-70/svMisc/R/callTip.R |only svMisc-0.9-70/svMisc/R/captureAll.R |only svMisc-0.9-70/svMisc/R/changeTemp.R |only svMisc-0.9-70/svMisc/R/compareRVersion.R |only svMisc-0.9-70/svMisc/R/descFun.R |only svMisc-0.9-70/svMisc/R/existsTemp.R |only svMisc-0.9-70/svMisc/R/fileEdit.R |only svMisc-0.9-70/svMisc/R/getTemp.R |only svMisc-0.9-70/svMisc/R/guiCmd.R |only svMisc-0.9-70/svMisc/R/helpSearchWeb.R |only svMisc-0.9-70/svMisc/R/isAqua.R |only svMisc-0.9-70/svMisc/R/isHelp.R |only svMisc-0.9-70/svMisc/R/isJGR.R |only svMisc-0.9-70/svMisc/R/isMac.R |only svMisc-0.9-70/svMisc/R/isRgui.R |only svMisc-0.9-70/svMisc/R/isSDI.R |only svMisc-0.9-70/svMisc/R/isWin.R |only svMisc-0.9-70/svMisc/R/listMethods.R |only svMisc-0.9-70/svMisc/R/listTypes.R |only svMisc-0.9-70/svMisc/R/objBrowse.R |only svMisc-0.9-70/svMisc/R/objClear.R |only svMisc-0.9-70/svMisc/R/objDir.R |only svMisc-0.9-70/svMisc/R/objInfo.R |only svMisc-0.9-70/svMisc/R/objList.R |only svMisc-0.9-70/svMisc/R/objMenu.R |only svMisc-0.9-70/svMisc/R/objSearch.R |only svMisc-0.9-70/svMisc/R/parseText.R |only svMisc-0.9-70/svMisc/R/pkgMan.R |only svMisc-0.9-70/svMisc/R/rmTemp.R |only svMisc-0.9-70/svMisc/R/sourceClipboard.R |only svMisc-0.9-70/svMisc/R/systemFile.R |only svMisc-0.9-70/svMisc/R/tempvar.R |only svMisc-0.9-70/svMisc/inst/unitTests |only svMisc-0.9-70/svMisc/man/TempEnv.Rd |only svMisc-0.9-70/svMisc/man/addItems.Rd |only svMisc-0.9-70/svMisc/man/addTemp.Rd |only svMisc-0.9-70/svMisc/man/argsTip.Rd |only svMisc-0.9-70/svMisc/man/assignTemp.Rd |only svMisc-0.9-70/svMisc/man/captureAll.Rd |only svMisc-0.9-70/svMisc/man/changeTemp.Rd |only svMisc-0.9-70/svMisc/man/compareRVersion.Rd |only svMisc-0.9-70/svMisc/man/descFun.Rd |only svMisc-0.9-70/svMisc/man/existsTemp.Rd |only svMisc-0.9-70/svMisc/man/fileEdit.Rd |only svMisc-0.9-70/svMisc/man/getTemp.Rd |only svMisc-0.9-70/svMisc/man/guiCmd.Rd |only svMisc-0.9-70/svMisc/man/helpSearchWeb.Rd |only svMisc-0.9-70/svMisc/man/isAqua.Rd |only svMisc-0.9-70/svMisc/man/isHelp.Rd |only svMisc-0.9-70/svMisc/man/isJGR.Rd |only svMisc-0.9-70/svMisc/man/isMac.Rd |only svMisc-0.9-70/svMisc/man/isRgui.Rd |only svMisc-0.9-70/svMisc/man/isSDI.Rd |only svMisc-0.9-70/svMisc/man/isWin.Rd |only svMisc-0.9-70/svMisc/man/listMethods.Rd |only svMisc-0.9-70/svMisc/man/listTypes.Rd |only svMisc-0.9-70/svMisc/man/objBrowse.Rd |only svMisc-0.9-70/svMisc/man/parseText.Rd |only svMisc-0.9-70/svMisc/man/pkgMan.Rd |only svMisc-0.9-70/svMisc/man/rjson.Rd |only svMisc-0.9-70/svMisc/man/rmTemp.Rd |only svMisc-0.9-70/svMisc/man/sourceClipboard.Rd |only svMisc-0.9-70/svMisc/man/systemFile.Rd |only svMisc-0.9-70/svMisc/man/tempvar.Rd |only svMisc-0.9-70/svMisc/man/unitTests.svMisc.Rd |only svMisc-1.0-1/svMisc/DESCRIPTION | 32 svMisc-1.0-1/svMisc/MD5 | 151 +--- svMisc-1.0-1/svMisc/NAMESPACE | 234 ++++-- svMisc-1.0-1/svMisc/NEWS | 66 + svMisc-1.0-1/svMisc/R/Install.R |only svMisc-1.0-1/svMisc/R/add_actions.R |only svMisc-1.0-1/svMisc/R/batch.R | 116 ++- svMisc-1.0-1/svMisc/R/capture_all.R |only svMisc-1.0-1/svMisc/R/compare_r_version.R |only svMisc-1.0-1/svMisc/R/completion.R | 977 +++++++++++++++------------ svMisc-1.0-1/svMisc/R/def.R | 92 +- svMisc-1.0-1/svMisc/R/describe_function.R |only svMisc-1.0-1/svMisc/R/file_edit.R |only svMisc-1.0-1/svMisc/R/gui_cmd.R |only svMisc-1.0-1/svMisc/R/is_xxx.R |only svMisc-1.0-1/svMisc/R/list_methods.R |only svMisc-1.0-1/svMisc/R/obj_browse.R |only svMisc-1.0-1/svMisc/R/package.R | 134 +++ svMisc-1.0-1/svMisc/R/parse_text.R |only svMisc-1.0-1/svMisc/R/pkgman.R |only svMisc-1.0-1/svMisc/R/progress.R | 347 ++++++--- svMisc-1.0-1/svMisc/R/rjson.R | 437 +++++++----- svMisc-1.0-1/svMisc/R/search_web.R |only svMisc-1.0-1/svMisc/R/source_clipboard.R |only svMisc-1.0-1/svMisc/R/svMisc-internal.R | 382 +--------- svMisc-1.0-1/svMisc/R/svMisc-package.R |only svMisc-1.0-1/svMisc/R/system_file.R |only svMisc-1.0-1/svMisc/R/temp_env.R |only svMisc-1.0-1/svMisc/R/temp_var.R |only svMisc-1.0-1/svMisc/TODO | 10 svMisc-1.0-1/svMisc/build |only svMisc-1.0-1/svMisc/inst/CITATION | 4 svMisc-1.0-1/svMisc/inst/doc |only svMisc-1.0-1/svMisc/man/Install.Rd |only svMisc-1.0-1/svMisc/man/add_actions.Rd |only svMisc-1.0-1/svMisc/man/batch.Rd | 109 +-- svMisc-1.0-1/svMisc/man/capture_all.Rd |only svMisc-1.0-1/svMisc/man/compare_r_version.Rd |only svMisc-1.0-1/svMisc/man/completion.Rd | 255 +++---- svMisc-1.0-1/svMisc/man/def.Rd | 106 +- svMisc-1.0-1/svMisc/man/describe_function.Rd |only svMisc-1.0-1/svMisc/man/file_edit.Rd |only svMisc-1.0-1/svMisc/man/gui_cmd.Rd |only svMisc-1.0-1/svMisc/man/is_help.Rd |only svMisc-1.0-1/svMisc/man/list_methods.Rd |only svMisc-1.0-1/svMisc/man/obj_browse.Rd |only svMisc-1.0-1/svMisc/man/package.Rd | 122 ++- svMisc-1.0-1/svMisc/man/parse_text.Rd |only svMisc-1.0-1/svMisc/man/pkgman_describe.Rd |only svMisc-1.0-1/svMisc/man/progress.Rd | 322 ++++---- svMisc-1.0-1/svMisc/man/search_web.Rd |only svMisc-1.0-1/svMisc/man/source_clipboard.Rd |only svMisc-1.0-1/svMisc/man/svMisc-package.Rd | 38 - svMisc-1.0-1/svMisc/man/system_file.Rd |only svMisc-1.0-1/svMisc/man/temp_env.Rd |only svMisc-1.0-1/svMisc/man/temp_var.Rd |only svMisc-1.0-1/svMisc/man/to_rjson.Rd |only svMisc-1.0-1/svMisc/tests |only svMisc-1.0-1/svMisc/vignettes |only 129 files changed, 2191 insertions(+), 1743 deletions(-)
Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also included.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] (Contributions to Censored QR code),
Pin Tian Ng [ctb] (Contributions to Sparse QR code),
Achim Zeileis [ctb] (Contributions to dynrq code essentially identical
to his dynlm code),
Philip Grosjean [ctb] (Contributions to nlrq code),
Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my
everlasting shame -- how could I have been so slow to adopt R!) and
for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.34 dated 2017-10-25 and 5.35 dated 2018-02-02
DESCRIPTION | 14 +++++++------- MD5 | 16 ++++++++-------- R/quantreg.R | 1 + demo/KMvCRQ.R | 31 +++++++++++++++---------------- demo/crquis.R | 29 ++++++++++++++++------------- inst/doc/crq.pdf |binary inst/doc/rq.pdf |binary man/summary.rq.Rd | 5 +++-- tests/run-demos.R | 1 - 9 files changed, 50 insertions(+), 47 deletions(-)
Title: Depth-Based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely non-parametric, in particular the DDalpha-procedure (Lange, Mosler and Mozharovskyi, 2014). The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre],
Pavlo Mozharovskyi [aut],
Rainer Dyckerhoff [aut],
Stanislav Nagy [aut]
Maintainer: Oleksii Pokotylo <alexey.pokotylo@gmail.com>
Diff between ddalpha versions 1.3.1 dated 2017-09-27 and 1.3.1.1 dated 2018-02-02
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/ddalpha-internal.r | 6 +++--- R/depth.spatial.r | 10 +++++++--- man/ddalpha-package.Rd | 4 ++-- 5 files changed, 20 insertions(+), 16 deletions(-)
Title: Crunch.io Data Tools
Description: The Crunch.io service <http://crunch.io/> provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Neal Richardson [aut, cre],
Jonathan Keane [ctb],
Gordon Shotwell [ctb]
Maintainer: Neal Richardson <neal@crunch.io>
Diff between crunch versions 1.19.0 dated 2017-11-14 and 1.20.0 dated 2018-02-02
crunch-1.19.0/crunch/man/catalog-to-data-frame.Rd |only crunch-1.20.0/crunch/DESCRIPTION | 52 - crunch-1.20.0/crunch/MD5 | 246 ++++--- crunch-1.20.0/crunch/NAMESPACE | 49 + crunch-1.20.0/crunch/R/AllClasses.R | 151 +++- crunch-1.20.0/crunch/R/AllGenerics.R | 17 crunch-1.20.0/crunch/R/abstract-categories.R |only crunch-1.20.0/crunch/R/abstract-category.R |only crunch-1.20.0/crunch/R/api.R | 9 crunch-1.20.0/crunch/R/as-data-frame.R | 174 +++-- crunch-1.20.0/crunch/R/categories.R | 223 +----- crunch-1.20.0/crunch/R/category.R | 64 - crunch-1.20.0/crunch/R/change-category-id.R |only crunch-1.20.0/crunch/R/conditional-transform.R | 49 - crunch-1.20.0/crunch/R/cube-dims.R | 47 + crunch-1.20.0/crunch/R/cube-residuals.R |only crunch-1.20.0/crunch/R/cube-result.R | 19 crunch-1.20.0/crunch/R/cube-transforms.R |only crunch-1.20.0/crunch/R/dataset.R | 19 crunch-1.20.0/crunch/R/formula.R | 11 crunch-1.20.0/crunch/R/get-datasets.R | 27 crunch-1.20.0/crunch/R/insertions.R |only crunch-1.20.0/crunch/R/json.R | 2 crunch-1.20.0/crunch/R/multitables.R | 23 crunch-1.20.0/crunch/R/pretty-print.R |only crunch-1.20.0/crunch/R/show.R | 57 + crunch-1.20.0/crunch/R/subtotals-and-headings.R |only crunch-1.20.0/crunch/R/subvariables.R | 15 crunch-1.20.0/crunch/R/tab-book.R | 39 - 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Title: Bayesian Neural Network for High-Dimensional Nonlinear Variable
Selection
Description: Perform Bayesian variable selection for high-dimensional nonlinear systems and also can be used to test nonlinearity for a general regression problem. The computation can be accelerated using multiple CPUs. You can refer to <doi:10.1080/01621459.2017.1409122> for more detail.
Author: Bochao Jia [ctb, aut, cre, cph],
Faming Liang [ctb],
Robert Gentleman [cph],
Ross Ihaka [cph],
The R Core Team [cph]
Maintainer: Bochao Jia <jbc409@ufl.edu>
Diff between BNN versions 1.0.1 dated 2018-01-25 and 1.0.2 dated 2018-02-02
DESCRIPTION | 15 MD5 | 14 NAMESPACE | 1 R/BNN.R | 4 man/BNN-package.Rd | 8 man/BNNprior.Rd | 7 man/BNNsel.Rd | 26 - src/BNN.c | 1149 ++++++++++++++++++++++++++--------------------------- 8 files changed, 623 insertions(+), 601 deletions(-)
Title: An Arsenal of 'R' Functions for Large-Scale Statistical
Summaries
Description: An Arsenal of 'R' functions for large-scale statistical summaries,
which are streamlined to work within the latest reporting tools in 'R' and
'RStudio' and which use formulas and versatile summary statistics for summary
tables and models. The primary functions include tableby(), a Table-1-like
summary of multiple variable types 'by' the levels of a categorical
variable; modelsum(), which performs simple model fits on the same endpoint
for many variables (univariate or adjusted for standard covariates);
freqlist(), a powerful frequency table across many categorical variables;
compare.data.frame(), the S3 method for comparing data.frames; and
write2(), a function to output tables to a document.
Author: Ethan Heinzen [aut, cre],
Jason Sinnwell [aut],
Elizabeth Atkinson [aut],
Tina Gunderson [aut],
Gregory Dougherty [aut],
Patrick Votruba [ctb],
Ryan Lennon [ctb],
Andrew Hanson [ctb],
Krista Goergen [ctb],
Emily Lundt [ctb],
Brendan Broderick [ctb]
Maintainer: Ethan Heinzen <heinzen.ethan@mayo.edu>
Diff between arsenal versions 0.6.1 dated 2017-12-08 and 1.0.0 dated 2018-02-02
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Title: Tools for Antitrust Practitioners
Description: A collection of tools for antitrust practitioners, including the ability to calibrate different consumer demand systems and simulate the effects mergers under different competitive regimes.
Author: Charles Taragin and Michael Sandfort
Maintainer: Charles Taragin <charles.taragin@usdoj.gov>
Diff between antitrust versions 0.95.1 dated 2015-11-23 and 0.98 dated 2018-02-02
antitrust-0.95.1/antitrust/man/auction2nd.Rd |only antitrust-0.95.1/antitrust/vignettes/manual.ilg |only antitrust-0.95.1/antitrust/vignettes/manual.ind |only antitrust-0.98/antitrust/DESCRIPTION | 9 antitrust-0.98/antitrust/MD5 | 90 - antitrust-0.98/antitrust/R/Antitrust.R | 37 antitrust-0.98/antitrust/R/Bertrand.R | 57 antitrust-0.98/antitrust/R/Cournot.R |only antitrust-0.98/antitrust/R/Stackelberg.R |only antitrust-0.98/antitrust/R/aids.R | 122 - antitrust-0.98/antitrust/R/auction2ndcap.R | 13 antitrust-0.98/antitrust/R/auction2ndlogit.R |only antitrust-0.98/antitrust/R/auction2ndlogitALM.R |only antitrust-0.98/antitrust/R/ces.R | 12 antitrust-0.98/antitrust/R/cesNests.R | 13 antitrust-0.98/antitrust/R/cmcr.R | 4 antitrust-0.98/antitrust/R/linear.R | 39 antitrust-0.98/antitrust/R/logit.R | 81 antitrust-0.98/antitrust/R/logitALM.R | 50 antitrust-0.98/antitrust/R/logitCap.R | 16 antitrust-0.98/antitrust/R/logitNests.R | 20 antitrust-0.98/antitrust/R/logitNestsALM.R | 14 antitrust-0.98/antitrust/R/loglin.R | 7 antitrust-0.98/antitrust/R/pcaids.R | 31 antitrust-0.98/antitrust/R/pcaidsNests.R | 15 antitrust-0.98/antitrust/R/sim.R | 19 antitrust-0.98/antitrust/R/upp.R | 4 antitrust-0.98/antitrust/build/vignette.rds |binary antitrust-0.98/antitrust/inst/doc/manual.Rnw | 331 +++ antitrust-0.98/antitrust/inst/doc/manual.pdf |binary antitrust-0.98/antitrust/man/AIDS-class.Rd | 2 antitrust-0.98/antitrust/man/Antitrust-class.Rd | 8 antitrust-0.98/antitrust/man/Auction2ndLogit-class.Rd |only antitrust-0.98/antitrust/man/Auction2ndLogitALM-class.Rd |only antitrust-0.98/antitrust/man/CV-methods.Rd | 2 antitrust-0.98/antitrust/man/Cournot-class.Rd |only antitrust-0.98/antitrust/man/Cournot.Rd |only antitrust-0.98/antitrust/man/Stackelberg-class.Rd |only antitrust-0.98/antitrust/man/aids.Rd | 11 antitrust-0.98/antitrust/man/auction2ndcap.Rd |only antitrust-0.98/antitrust/man/auction2ndlogit.Rd |only antitrust-0.98/antitrust/man/ces.Rd | 6 antitrust-0.98/antitrust/man/cmcr-methods.Rd | 4 antitrust-0.98/antitrust/man/defineMarketTools-methods.Rd | 3 antitrust-0.98/antitrust/man/elast-methods.Rd | 1 antitrust-0.98/antitrust/man/linear.Rd | 4 antitrust-0.98/antitrust/man/logit.Rd | 15 antitrust-0.98/antitrust/man/other-methods.Rd | 73 antitrust-0.98/antitrust/vignettes/ClassDiagram.pdf |binary antitrust-0.98/antitrust/vignettes/FunctionSummary.tex | 10 antitrust-0.98/antitrust/vignettes/Thumbs.db |binary antitrust-0.98/antitrust/vignettes/antitrustbib.bib | 1223 +++++++------- antitrust-0.98/antitrust/vignettes/manual.Rnw | 331 +++ 53 files changed, 1796 insertions(+), 881 deletions(-)
Title: Weighted Random Sampling without Replacement
Description: A collection of implementations of classical and novel
algorithms for weighted sampling without replacement.
Author: Kirill Müller [aut, cre]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between wrswoR versions 1.0-1 dated 2016-03-03 and 1.1 dated 2018-02-02
wrswoR-1.0-1/wrswoR/build |only wrswoR-1.0-1/wrswoR/inst |only wrswoR-1.0-1/wrswoR/vignettes |only wrswoR-1.1/wrswoR/DESCRIPTION | 31 ++++---- wrswoR-1.1/wrswoR/MD5 | 37 +++------- wrswoR-1.1/wrswoR/NAMESPACE | 2 wrswoR-1.1/wrswoR/NEWS.md | 11 +++ wrswoR-1.1/wrswoR/R/RcppExports.R | 10 +- wrswoR-1.1/wrswoR/R/sample_int_R.R | 22 +++--- wrswoR-1.1/wrswoR/R/sample_int_expj.R | 12 +-- wrswoR-1.1/wrswoR/R/sample_int_rank.R | 14 +-- wrswoR-1.1/wrswoR/R/sample_int_rej.R | 3 wrswoR-1.1/wrswoR/R/wrswoR-package.R | 38 +++++----- wrswoR-1.1/wrswoR/README.md | 5 - wrswoR-1.1/wrswoR/man/sample_int.Rd | 87 +++++++++++------------- wrswoR-1.1/wrswoR/man/wrswoR-package.Rd | 19 ++--- wrswoR-1.1/wrswoR/src/RcppExports.cpp | 55 +++++++++------ wrswoR-1.1/wrswoR/tests/testthat/helper-algos.R | 6 + 18 files changed, 178 insertions(+), 174 deletions(-)
Title: Default Color Maps from 'matplotlib'
Description: Implementation of the 'viridis' - the default -, 'magma', 'plasma',
'inferno', and 'cividis' color maps for 'R'. 'viridis', 'magma', 'plasma',
and 'inferno' are ported from 'matplotlib' <http://matplotlib.org/>, a
popular plotting library for 'python'. 'cividis', was developed by Jamie R.
Nuñez and Sean M. Colby. These color maps are designed in such a way that
they will analytically be perfectly perceptually-uniform, both in regular
form and also when converted to black-and-white. They are also designed to
be perceived by readers with the most common form of color blindness (all
color maps in this package) and color vision deficiency ('cividis' only).
Author: Simon Garnier [aut, cre],
Noam Ross [ctb, cph],
Bob Rudis [ctb, cph],
Marco Sciaini [ctb, cph],
Cédric Scherer [ctb, cph]
Maintainer: Simon Garnier <garnier@njit.edu>
Diff between viridis versions 0.4.1 dated 2018-01-08 and 0.5.0 dated 2018-02-02
viridis-0.4.1/viridis/README.md |only viridis-0.5.0/viridis/DESCRIPTION | 30 +++++++++++-------- viridis-0.5.0/viridis/MD5 | 29 ++++++++---------- viridis-0.5.0/viridis/NAMESPACE | 2 + viridis-0.5.0/viridis/R/compatibility.R | 14 +++++--- viridis-0.5.0/viridis/R/scales.R | 10 ++++-- viridis-0.5.0/viridis/inst/doc/intro-to-viridis.R | 5 +-- viridis-0.5.0/viridis/inst/doc/intro-to-viridis.Rmd | 5 +-- viridis-0.5.0/viridis/inst/doc/intro-to-viridis.html | 8 ++--- viridis-0.5.0/viridis/man/figures/viridis-scales.png |binary viridis-0.5.0/viridis/man/reexports.Rd | 4 +- viridis-0.5.0/viridis/man/scale_viridis.Rd | 5 +-- viridis-0.5.0/viridis/man/viridis.map.Rd | 14 +++++--- viridis-0.5.0/viridis/man/viridis_pal.Rd | 2 - viridis-0.5.0/viridis/tests/testthat/test-viridis.R | 2 + viridis-0.5.0/viridis/vignettes/intro-to-viridis.Rmd | 5 +-- 16 files changed, 81 insertions(+), 54 deletions(-)
Title: Development Tools for 'SpaDES' and 'SpaDES' Modules
Description: Provides 'RStudio' addins for 'SpaDES' packages and 'SpaDES' module
development. See '?SpaDES.addins' for an overview of the tools provided.
Author: Alex M Chubaty [aut, cre],
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.addins versions 0.1.0 dated 2017-09-02 and 0.1.1 dated 2018-02-02
DESCRIPTION | 12 +- MD5 | 11 +- NEWS.md |only README.md | 43 +++++++ build/vignette.rds |binary inst/doc/i-rstudio-addins.html | 225 ++++++++++++++++++++++++++++++++++++----- man/spades-addins-package.Rd | 2 7 files changed, 252 insertions(+), 41 deletions(-)
Title: R Bayesian Evidence Synthesis Tools
Description: Tool-set to support Bayesian evidence synthesis.
This includes meta-analysis, (robust) prior derivation
from historical data, operating characteristics
and analysis (1 and 2 sample cases).
Author: Novartis Pharma AG [cph],
Sebastian Weber [aut, cre],
Beat Neuenschwander [ctb],
Heinz Schmidli [ctb],
Baldur Magnusson [ctb],
Yue Li [ctb],
Satrajit Roychoudhury [ctb],
Trustees of Columbia University [cph] (src/init.cpp, tools/make_cpp.R,
R/stanmodels.R)
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>
Diff between RBesT versions 1.3-2 dated 2018-01-25 and 1.3-3 dated 2018-02-02
DESCRIPTION | 10 ++++----- MD5 | 20 +++++++++---------- R/mixdiff.R | 2 - inst/NEWS | 7 ++++++ inst/doc/RBesT.pdf |binary inst/doc/customizing_plots.html | 6 ++--- inst/doc/introduction.html | 6 ++--- inst/doc/introduction_normal.html | 6 ++--- inst/doc/robustMAP.html | 6 ++--- tests/testthat/test-oc1S.R | 16 +++++++-------- tests/testthat/test-oc2S.R | 40 +++++++++++++++++++++----------------- 11 files changed, 66 insertions(+), 53 deletions(-)
Title: Permutation p-Value Estimation for Gene Set Tests
Description: Code for various permutation p-values estimation methods for gene set test. The description of corresponding methods can be found in the dissertation of Yu He(2016) "Efficient permutation P-value estimation for gene set tests" <https://searchworks.stanford.edu/view/11849351>. One of the methods also corresponds to the paper "Permutation p-value approximation via generalized Stolarsky invariance" <arXiv:1603.02757>.
Author: Hera He <njheyu@gmail.com>
Maintainer: Hera He <njheyu@gmail.com>
Diff between pipeGS versions 0.3 dated 2017-11-25 and 0.4 dated 2018-02-02
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/main.R | 4 ++-- R/saddlepoint.R | 4 ++-- man/get.phat.linear.Rd | 3 +-- man/get.phat.quadratic.Rd | 1 - man/pipegs.Rd | 1 - 7 files changed, 16 insertions(+), 19 deletions(-)
Title: Toolkit for Encryption, Signatures and Certificates Based on
OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH pubkey parsers.
Supports RSA, DSA and EC curves P-256, P-384 and P-521. Cryptographic signatures
can either be created and verified manually or via x509 certificates. AES can be
used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public
key) encryption or EC for Diffie Hellman. High-level envelope functions combine
RSA and AES for encrypting arbitrary sized data. Other utilities include key
generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure
random number generator, and 'bignum' math methods for manually performing
crypto calculations on large multibyte integers.
Author: Jeroen Ooms [cre, aut],
Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between openssl versions 0.9.9 dated 2017-11-10 and 1.0 dated 2018-02-02
DESCRIPTION | 6 +- MD5 | 44 +++++++++--------- NAMESPACE | 3 + NEWS | 5 ++ R/cert.R | 1 R/pkcs12.R | 2 R/write.R | 20 ++++++++ build/vignette.rds |binary configure | 2 inst/doc/bignum.html | 74 ++++++++++++++----------------- inst/doc/crypto_hashing.html | 50 ++++++++------------- inst/doc/keys.html | 96 ++++++++++++++++++----------------------- inst/doc/secure_rng.html | 60 +++++++++++-------------- man/certificates.Rd | 1 man/openssl.Rd | 1 man/rand_bytes.Rd | 1 man/read_key.Rd | 3 - man/write_pem.Rd | 9 +++ src/pkcs12.c | 37 +++++++++++++++ src/write.c | 35 ++++++++++++++ tests/testthat/test_google.R | 46 +++++++++---------- tests/testthat/test_keys_rsa.R | 8 +++ tests/testthat/test_pkcs.R | 2 23 files changed, 293 insertions(+), 213 deletions(-)
Title: Multi-State Markov and Hidden Markov Models in Continuous Time
Description: Functions for fitting continuous-time Markov and hidden
Markov multi-state models to longitudinal data. Designed for
processes observed at arbitrary times in continuous time (panel data)
but some other observation schemes are supported. Both Markov
transition rates and the hidden Markov output process can be modelled
in terms of covariates, which may be constant or piecewise-constant
in time.
Author: Christopher Jackson <chris.jackson@mrc-bsu.cam.ac.uk>
Maintainer: Christopher Jackson <chris.jackson@mrc-bsu.cam.ac.uk>
Diff between msm versions 1.6.5 dated 2017-12-05 and 1.6.6 dated 2018-02-02
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++---------- NAMESPACE | 1 + R/boot.R | 24 +++++++++++++++--------- R/optim.R | 2 +- R/pearson.R | 2 +- R/simul.R | 2 +- inst/NEWS | 9 +++++++++ inst/doc/msm-manual.pdf |binary man/updatepars.msm.Rd |only src/lik.c | 10 ++++++---- tests/testthat/test_deriv.r | 9 +++++++-- 12 files changed, 56 insertions(+), 32 deletions(-)
Title: Hierarchical Ensemble Methods for Directed Acyclic Graphs
Description: An implementation of Hierarchical Ensemble Methods for Directed Acyclic Graphs (DAGs). The 'HEMDAG' package can be used to enhance the predictions of virtually any flat learning methods, by taking into account the hierarchical nature of the classes of a bio-ontology. 'HEMDAG' is specifically designed for exploiting the hierarchical relationships of DAG-structured taxonomies, such as the Human Phenotype Ontology (HPO) or the Gene Ontology (GO), but it can be also safely applied to tree-structured taxonomies (as FunCat), since trees are DAGs. 'HEMDAG' scale nicely both in terms of the complexity of the taxonomy and in the cardinality of the examples. (Marco Notaro, Max Schubach, Peter N. Robinson and Giorgio Valentini (2017) <doi:10.1186/s12859-017-1854-y>).
Author: Marco Notaro [aut, cre] and Giorgio Valentini [aut]
(AnacletoLab, Dipartimento di Informatica, Universita' degli Studi di Milano)
Maintainer: Marco Notaro <marco.notaro@unimi.it>
Diff between HEMDAG versions 2.0.0 dated 2018-01-23 and 2.0.1 dated 2018-02-02
CHANGELOG | 5 ++++ DESCRIPTION | 6 ++--- MD5 | 12 +++++------ R/graph.utility.R | 37 ++++++++++++++++++++---------------- R/norm.fun.R | 2 - inst/doc/HEMDAG.pdf |binary man/Do.FLAT.scores.normalization.Rd | 2 - 7 files changed, 37 insertions(+), 27 deletions(-)
Title: Nonlocal Prior Based Iterative SNP Selection Tool for
Genome-Wide Association Studies
Description: Performs variable selection with data from Genome-wide association studies (GWAS) combining, in an iterative variable selection framework, the computational efficiency of the screen-and-select approach based on some association learning and the parsimonious uncertainty quantification provided by the use of nonlocal priors, as described in Sanyal et al. (2018) [submitted].
Author: Nilotpal Sanyal [aut, cre]
Maintainer: Nilotpal Sanyal <nisanyal@ucsd.edu>
Diff between GWASinlps versions 1.0 dated 2017-11-10 and 1.1 dated 2018-02-02
ChangeLog |only DESCRIPTION | 15 ++++++++------- MD5 | 15 ++++++++------- NAMESPACE | 1 + R/GWASinlps.R | 30 ++++++++++++++++++++++-------- R/nlpsLM.R | 27 ++++++++++++++++++++++----- man/GWASinlps-package.Rd | 8 ++++---- man/GWASinlps.Rd | 39 +++++++++++++++++++++++---------------- man/nlpsLM.rd | 24 ++++++++++++++---------- 9 files changed, 102 insertions(+), 57 deletions(-)
Title: Google Citation Parser
Description: Scrapes Google Citation pages and creates data frames of
citations over time.
Author: John Muschelli
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between gcite versions 0.8.1 dated 2017-10-10 and 0.9.2 dated 2018-02-02
DESCRIPTION | 10 +++--- MD5 | 52 +++++++++++++++++++---------------- NAMESPACE | 4 ++ NEWS.md | 4 ++ R/gcite.R | 45 ++++++++++++++++++++++++++---- R/gcite_author_info.R | 47 +++++++++++++++++++++++-------- R/gcite_citation_index.R | 9 +++--- R/gcite_citation_page.R | 43 +++++++++++++++++++---------- R/gcite_cite_over_time.R | 35 ++++++++++++++++++++--- R/gcite_graph.R | 10 +++--- R/gcite_main_graph.R | 6 ++-- R/gcite_paper_df.R |only R/gcite_papers.R | 11 ++++--- R/gcite_user_info.R | 65 +++++++++++++++++++++++++++++--------------- R/gcite_username.R | 10 ++++-- R/set_cookies_txt.R |only man/gcite.Rd | 18 ++++++++++-- man/gcite_author_info.Rd | 25 ++++++++++++++-- man/gcite_citation_index.Rd | 3 +- man/gcite_citation_page.Rd | 20 ++++++++----- man/gcite_cite_over_time.Rd | 2 - man/gcite_graph.Rd | 2 - man/gcite_main_graph.Rd | 2 - man/gcite_paper_df.Rd |only man/gcite_papers.Rd | 3 +- man/gcite_user_info.Rd | 17 +++++++++-- man/gcite_username.Rd | 4 ++ man/set_cookies_txt.Rd |only tests |only 29 files changed, 317 insertions(+), 130 deletions(-)
Title: Markov Model for the Online Multi-Channel Attribution Problem
Description: Advertisers use a variety of online marketing channels to reach consumers and they want to know the degree each channel contributes to their marketing success. It's called the online multi-channel attribution problem. This package contains a probabilistic algorithm for the attribution problem. The model uses a k-order Markov representation to identifying structural correlations in the customer journey data. The package also contains three heuristic algorithms (first-touch, last-touch and linear-touch approach) for the same problem. The algorithms are implemented in C++.
Author: Davide Altomare, David Loris
Maintainer: Davide Altomare <davide.altomare@gmail.com>
Diff between ChannelAttribution versions 1.10 dated 2016-12-07 and 1.11 dated 2018-02-02
DESCRIPTION | 8 +- MD5 | 17 ++-- NAMESPACE | 2 R/ChannelAttribution.R | 13 ++- man/ChannelAttribution-package.Rd | 4 - man/heuristic_models.Rd | 3 man/markov_model.Rd | 4 - src/ChannelAttribution-init.c |only src/ChannelAttribution.cpp | 138 ++++++++++++++++++++------------------ src/ChannelAttribution.h | 4 - 10 files changed, 106 insertions(+), 87 deletions(-)
More information about ChannelAttribution at CRAN
Permanent link
Title: Analyzing Data with Cellwise Outliers
Description: Tools for detecting cellwise outliers and robust methods to analyze data which may contain them.
Author: Jakob Raymaekers [aut, cre],
Peter Rousseeuw [aut],
Wannes Van den Bossche [aut]
Maintainer: Jakob Raymaekers <jakob.raymaekers@kuleuven.be>
Diff between cellWise versions 2.0.7 dated 2018-02-01 and 2.0.8 dated 2018-02-02
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- R/DDC.R | 2 +- inst/doc/DDC_examples.html | 5 ----- src/ANN.cpp | 6 +++--- src/DDC.h | 4 ++-- src/Main.cpp | 1 - src/kd_fix_rad_search.cpp | 10 +++++----- src/kd_pr_search.cpp | 12 ++++++------ src/kd_search.cpp | 12 ++++++------ src/kd_split.cpp | 6 +++--- src/kd_util.cpp | 10 +++++----- src/kd_util.h | 4 ++-- src/pr_queue.h | 10 +++++----- src/pr_queue_k.h | 2 +- 15 files changed, 56 insertions(+), 62 deletions(-)
Title: Exploratory Analysis of Genetic and Genomic Data
Description: Toolset for the exploration of genetic and genomic data. Adegenet
provides formal (S4) classes for storing and handling various genetic data,
including genetic markers with varying ploidy and hierarchical population
structure ('genind' class), alleles counts by populations ('genpop'), and
genome-wide SNP data ('genlight'). It also implements original multivariate
methods (DAPC, sPCA), graphics, statistical tests, simulation tools, distance
and similarity measures, and several spatial methods. A range of both empirical
and simulated datasets is also provided to illustrate various methods.
Author: Thibaut Jombart, Zhian N. Kamvar, Caitlin Collins, Roman Lustrik, Marie-
Pauline Beugin, Brian J. Knaus, Peter Solymos, Vladimir Mikryukov, Klaus Schliep, Tiago Maié, Libor Morkovsky, Ismail Ahmed, Anne Cori, Federico Calboli, RJ Ewing
Maintainer: Thibaut Jombart <thibautjombart@gmail.com>
Diff between adegenet versions 2.1.0 dated 2017-10-12 and 2.1.1 dated 2018-02-02
ChangeLog | 33 ++ DESCRIPTION | 6 MD5 | 74 ++--- R/AIC.snapclust.R | 22 + R/AICc.snapclust.R | 22 + R/BIC.snapclust.R | 22 + R/KIC.snapclust.R | 23 + R/auxil.R | 11 R/export_to_mvmapper.R | 53 ++-- R/import.R | 35 +- R/showmekittens.R | 4 R/snapclust.R | 521 +++++++++++++++++++++++++--------------- R/snapclust.choose.k.R | 80 +++++- README.md | 2 data/H3N2.rda |binary data/dapcIllus.rda |binary data/datalist | 1 data/eHGDP.rda |binary data/hybridtoy.RData |binary data/microbov.rda |binary data/nancycats.rda |binary data/rupica.RData |binary data/sim2pop.rda |binary data/spcaIllus.rda |binary data/swallowtails.rda |only inst/files/swallowtails_loc.csv |only man/AIC.snapclust.Rd | 22 + man/AICc.Rd | 22 + man/BIC.snapclust.Rd | 22 + man/KIC.Rd | 23 + man/export_to_mvmapper.Rd | 39 +- man/snapclust.Rd | 53 +++- man/snapclust.choose.k.Rd | 49 +++ man/web.Rd | 4 tests/testthat/test_accessors.R | 94 +++---- tests/testthat/test_hierarchy.R | 24 + tests/testthat/test_import.R | 142 +++++++--- tests/testthat/test_repool.R | 12 tests/testthat/test_snapclust.R | 28 ++ 39 files changed, 1004 insertions(+), 439 deletions(-)
Title: Simultaneous Truth and Performance Level Estimation
Description: An implementation of Simultaneous Truth and
Performance Level Estimation (STAPLE) <doi:10.1109/TMI.2004.828354>. This
method is used when there are multiple raters for an object, typically an
image, and this method fuses these ratings into one rating. It uses an
expectation-maximization method to estimate this rating and the individual
specificity/sensitivity for each rater.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between stapler versions 0.6.3 dated 2017-11-27 and 0.6.5 dated 2018-02-02
DESCRIPTION | 6 - MD5 | 12 +-- R/aaa_utils.R | 9 ++ R/staple_binmat.R | 11 ++ R/staple_multi_mat.R | 10 ++ build/vignette.rds |binary inst/doc/staple_example.html | 158 +++++++++++++++++++++++-------------------- 7 files changed, 120 insertions(+), 86 deletions(-)
Title: A Wrapper for the Pinnacle API
Description: An interface to the API by Pinnacle that allows Pinnacle customers to interact with the sports market data in R.See <https://www.pinnacle.com/en/api> for more information. The Pinnacle API can be used to place wagers, retrieve line information, retrieve account information.Please be aware that the TOC of Pinnacle apply <https://www.pinnacle.com/en/termsandconditions>. An account with Pinnacle is necessary to use the Pinnacle API.
Author: Nicholas Jhirad, Marco Blume, Aaron Jacobs, Amine Gassem
Maintainer: Marco Blume <marco.blume@pinnaclesports.com>
Diff between pinnacle.API versions 2.0.9 dated 2017-06-12 and 2.3.3 dated 2018-02-02
pinnacle.API-2.0.9/pinnacle.API/README.md |only pinnacle.API-2.3.3/pinnacle.API/DESCRIPTION | 16 pinnacle.API-2.3.3/pinnacle.API/MD5 | 57 +-- pinnacle.API-2.3.3/pinnacle.API/NAMESPACE | 5 pinnacle.API-2.3.3/pinnacle.API/NEWS | 38 ++ pinnacle.API-2.3.3/pinnacle.API/R/EnvironmentSetting.R | 43 +- pinnacle.API-2.3.3/pinnacle.API/R/GetBets.R | 32 + pinnacle.API-2.3.3/pinnacle.API/R/GetBettingStatus.R |only pinnacle.API-2.3.3/pinnacle.API/R/GetClientBalance.R | 11 pinnacle.API-2.3.3/pinnacle.API/R/GetCurrencies.R | 8 pinnacle.API-2.3.3/pinnacle.API/R/GetFixtures.R | 143 +++++--- pinnacle.API-2.3.3/pinnacle.API/R/GetInrunning.R | 22 - pinnacle.API-2.3.3/pinnacle.API/R/GetLeaguesByID.R | 23 - pinnacle.API-2.3.3/pinnacle.API/R/GetLine.R | 54 +-- pinnacle.API-2.3.3/pinnacle.API/R/GetOdds.R | 46 +- pinnacle.API-2.3.3/pinnacle.API/R/GetSettledFixtures.R | 10 pinnacle.API-2.3.3/pinnacle.API/R/GetSettledSpecialFixtures.R | 34 +- pinnacle.API-2.3.3/pinnacle.API/R/GetSpecialFixtures.R | 15 pinnacle.API-2.3.3/pinnacle.API/R/GetSpecialLine.R |only pinnacle.API-2.3.3/pinnacle.API/R/GetSpecialOdds.R | 11 pinnacle.API-2.3.3/pinnacle.API/R/GetSports.R | 24 - pinnacle.API-2.3.3/pinnacle.API/R/PlaceBet.R | 109 +++--- pinnacle.API-2.3.3/pinnacle.API/R/PlaceBetIf.R |only pinnacle.API-2.3.3/pinnacle.API/R/PlaceParlayBet.R | 11 pinnacle.API-2.3.3/pinnacle.API/R/PlaceSpecialBet.R |only pinnacle.API-2.3.3/pinnacle.API/R/showOddsDF.R | 168 +++++----- pinnacle.API-2.3.3/pinnacle.API/R/utils.R | 26 + pinnacle.API-2.3.3/pinnacle.API/man/GetBettingStatus.Rd |only pinnacle.API-2.3.3/pinnacle.API/man/GetFixtures.Rd | 51 +-- pinnacle.API-2.3.3/pinnacle.API/man/GetSpecialLine.Rd |only pinnacle.API-2.3.3/pinnacle.API/man/PlaceSpecialBet.Rd |only pinnacle.API-2.3.3/pinnacle.API/man/showOddsDF.Rd | 7 pinnacle.API-2.3.3/pinnacle.API/tests |only 33 files changed, 603 insertions(+), 361 deletions(-)
Title: Wrapper Functions for FSL ('FMRIB' Software Library) from
Functional MRI of the Brain ('FMRIB')
Description: Wrapper functions that interface with 'FSL'
<http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging'
software, using system commands. The goal is to be able to interface with 'FSL'
completely in R, where you pass R objects of class 'nifti', implemented by
package 'oro.nifti', and the function executes an 'FSL' command and returns an R
object of class 'nifti' if desired.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between fslr versions 2.12 dated 2017-03-06 and 2.17.3 dated 2018-02-02
DESCRIPTION | 19 + MD5 | 94 +++++---- NAMESPACE | 16 + NEWS.md |only R/dtifit.R | 17 + R/eddy.R |only R/epi_reg.R |only R/fast.R | 42 ++++ R/fsl_mul.R | 1 R/fsl_version.R | 4 R/fsland.R |only R/fslhd.R | 104 +++------- R/fslmul.R | 3 R/fslor.R |only R/fslroi.R | 34 ++- R/fslview.R |only R/fslxor.R |only R/mcflirt.R | 1 R/mni_fname.R | 2 R/pixdim.R | 3 R/probtrackx.R | 1 R/rpi_orient.R | 14 - R/run_first_all.R | 70 ++++++- R/susan.R | 1 R/topup.R | 19 + R/xfibres.R | 24 ++ build/vignette.rds |binary inst/CITATION | 2 inst/doc/dti_data.html | 444 +++++++++++++++++++++++++++++++++------------- inst/doc/fslr.R | 1 inst/doc/fslr.Rmd | 1 inst/doc/fslr.html | 314 +++++++++++++++++++++++++++----- man/check_file.Rd | 1 man/dtifit.Rd | 5 man/eddy.Rd |only man/fast.Rd | 20 +- man/fsl_biascorrect.Rd | 2 man/fsland.Rd |only man/fslepi_reg.Rd |only man/fslor.Rd |only man/fslroi.Rd | 10 - man/fslsmooth.Rd | 10 - man/fslview.Rd | 2 man/fslview.help.Rd | 3 man/fslxor.Rd |only man/getForms.Rd | 4 man/mcflirt.help.Rd | 1 man/mni_fname.Rd | 2 man/reverse_rpi_orient.Rd | 2 man/run_first_all.Rd | 7 man/run_first_all.help.Rd | 2 man/susan.help.Rd | 1 man/topup.Rd | 11 - vignettes/fslr.Rmd | 1 54 files changed, 966 insertions(+), 349 deletions(-)
Title: Fingertips Data for Public Health
Description: Fingertips (<http://fingertips.phe.org.uk/>) contains data for many indicators of public health in England. The underlying data is now more easily accessible by making use of the API.
Author: Sebastian Fox [aut, cre],
Julian Flowers [aut, ctb],
Crown Copyright 2018 [cph]
Maintainer: Sebastian Fox <sebastian.fox@phe.gov.uk>
Diff between fingertipsR versions 0.1.3 dated 2017-10-05 and 0.1.4 dated 2018-02-02
fingertipsR-0.1.3/fingertipsR/R/data.R |only fingertipsR-0.1.3/fingertipsR/data |only fingertipsR-0.1.3/fingertipsR/man/areatypes_by_indicators.Rd |only fingertipsR-0.1.4/fingertipsR/DESCRIPTION | 20 fingertipsR-0.1.4/fingertipsR/MD5 | 82 +-- fingertipsR-0.1.4/fingertipsR/NAMESPACE | 5 fingertipsR-0.1.4/fingertipsR/NEWS.md | 22 fingertipsR-0.1.4/fingertipsR/R/area_types.R | 115 +++- fingertipsR-0.1.4/fingertipsR/R/deprivation_decile.R | 68 +- fingertipsR-0.1.4/fingertipsR/R/enhancements.R | 45 + fingertipsR-0.1.4/fingertipsR/R/fingertipsR.R | 3 fingertipsR-0.1.4/fingertipsR/R/fingertips_data.R | 71 +-- fingertipsR-0.1.4/fingertipsR/R/indicator_metadata.R | 56 +- fingertipsR-0.1.4/fingertipsR/R/indicators.R | 105 +++- fingertipsR-0.1.4/fingertipsR/R/profiles.R | 43 + fingertipsR-0.1.4/fingertipsR/R/retrieve_data.R | 34 - fingertipsR-0.1.4/fingertipsR/R/select_indicators.R | 11 fingertipsR-0.1.4/fingertipsR/README.md | 118 ++++- fingertipsR-0.1.4/fingertipsR/build/vignette.rds |binary fingertipsR-0.1.4/fingertipsR/inst/doc/lifeExpectancy.R | 24 - fingertipsR-0.1.4/fingertipsR/inst/doc/lifeExpectancy.Rmd | 54 +- fingertipsR-0.1.4/fingertipsR/inst/doc/lifeExpectancy.html | 232 +++++----- fingertipsR-0.1.4/fingertipsR/inst/doc/selectIndicatorsRedRed.R | 3 fingertipsR-0.1.4/fingertipsR/inst/doc/selectIndicatorsRedRed.Rmd | 18 fingertipsR-0.1.4/fingertipsR/inst/doc/selectIndicatorsRedRed.html | 11 fingertipsR-0.1.4/fingertipsR/man/area_types.Rd | 20 fingertipsR-0.1.4/fingertipsR/man/category_types.Rd | 15 fingertipsR-0.1.4/fingertipsR/man/deprivation_decile.Rd | 28 - fingertipsR-0.1.4/fingertipsR/man/fingertips_data.Rd | 29 - fingertipsR-0.1.4/fingertipsR/man/fingertips_redred.Rd | 18 fingertipsR-0.1.4/fingertipsR/man/fingertips_stats.Rd |only fingertipsR-0.1.4/fingertipsR/man/indicator_areatypes.Rd | 21 fingertipsR-0.1.4/fingertipsR/man/indicator_metadata.Rd | 14 fingertipsR-0.1.4/fingertipsR/man/indicators.Rd | 13 fingertipsR-0.1.4/fingertipsR/man/indicators_unique.Rd |only fingertipsR-0.1.4/fingertipsR/man/profiles.Rd | 12 fingertipsR-0.1.4/fingertipsR/man/select_indicators.Rd | 4 fingertipsR-0.1.4/fingertipsR/tests/testthat/test-area_types.R | 18 fingertipsR-0.1.4/fingertipsR/tests/testthat/test-deprivation.R | 22 fingertipsR-0.1.4/fingertipsR/tests/testthat/test-enhancements.R |only fingertipsR-0.1.4/fingertipsR/tests/testthat/test-extract.R | 35 + fingertipsR-0.1.4/fingertipsR/tests/testthat/test-indicators.R | 12 fingertipsR-0.1.4/fingertipsR/tests/testthat/test-metadata.R | 11 fingertipsR-0.1.4/fingertipsR/vignettes/lifeExpectancy.Rmd | 54 +- fingertipsR-0.1.4/fingertipsR/vignettes/selectIndicatorsRedRed.Rmd | 18 45 files changed, 946 insertions(+), 538 deletions(-)
Title: Bayesian Methods for Image Segmentation using a Potts Model
Description: Various algorithms for segmentation of 2D and 3D images, such
as computed tomography and satellite remote sensing. This package implements
Bayesian image analysis using the hidden Potts model with external field
prior of <doi:10.1016/j.csda.2014.12.001>.
Latent labels are sampled using chequerboard updating or Swendsen-Wang.
Algorithms for the smoothing parameter include pseudolikelihood, path sampling,
the exchange algorithm, approximate Bayesian computation (ABC-MCMC and ABC-SMC),
and Bayesian indirect likelihood (BIL). Refer to <doi:10.1007/s11222-014-9525-6>
and <arXiv:1503.08066> for further details.
Author: Matt Moores [aut, cre] (<https://orcid.org/0000-0003-4531-3572>),
Kerrie Mengersen [aut, ths] (<https://orcid.org/0000-0001-8625-9168>),
Dai Feng [ctb]
Maintainer: Matt Moores <M.T.Moores@warwick.ac.uk>
Diff between bayesImageS versions 0.5-0 dated 2018-01-26 and 0.5-1 dated 2018-02-02
DESCRIPTION | 10 +++++----- MD5 | 37 ++++++++++++++++++++----------------- NEWS.md | 4 ++++ R/getBlocks.R | 1 - R/getEdges.R | 1 - R/getNeighbors.R | 1 - R/mcmcPotts.R | 3 --- R/smcPotts.R | 1 - README.md | 18 +++++++++--------- inst/CITATION | 2 +- inst/doc/introduction.pdf |binary man/getBlocks.Rd | 3 --- man/getEdges.Rd | 3 --- man/getNeighbors.Rd | 3 --- man/mcmcPotts.Rd | 3 --- man/mcmcPottsNoData.Rd | 3 --- man/swNoData.Rd | 3 --- man/testResample.Rd | 3 --- vignettes/PFAB.html |only vignettes/PFAB_files |only 20 files changed, 39 insertions(+), 60 deletions(-)
Title: Tests on Properties of Space-Time Covariance Functions
Description: Tests on properties of space-time covariance functions.
Tests on symmetry, separability and for assessing
different forms of non-separability are available. Moreover tests on
some classes of covariance functions, such that the classes of
product-sum models, Gneiting models and integrated product models have
been provided.
Author: Sandra De Iaco [aut, cre],
Claudia Cappello [aut],
Donato Posa [aut],
Sabrina Maggio [ctb]
Maintainer: Sandra De Iaco <sandra.deiaco@unisalento.it>
Diff between covatest versions 0.3.0 dated 2017-11-17 and 1.0.0 dated 2018-02-02
covatest-0.3.0/covatest/man/covaprop.Rd |only covatest-1.0.0/covatest/DESCRIPTION | 8 covatest-1.0.0/covatest/MD5 | 37 covatest-1.0.0/covatest/NAMESPACE | 8 covatest-1.0.0/covatest/R/blocks.R | 881 ++-- covatest-1.0.0/covatest/R/couples.R | 1607 +++----- covatest-1.0.0/covatest/R/covablocks.R | 1354 +++---- covatest-1.0.0/covatest/R/covaprop.R | 743 ++- covatest-1.0.0/covatest/R/covastat.R | 4637 ++++++++++++------------ covatest-1.0.0/covatest/R/dataprep.R | 6 covatest-1.0.0/covatest/R/rr_13.R | 2 covatest-1.0.0/covatest/R/sepindex.R | 448 +- covatest-1.0.0/covatest/man/blocks-class.Rd | 129 covatest-1.0.0/covatest/man/couples-class.Rd | 179 covatest-1.0.0/covatest/man/covablocks-class.Rd | 38 covatest-1.0.0/covatest/man/covaprop-class.Rd |only covatest-1.0.0/covatest/man/covastat-class.Rd | 94 covatest-1.0.0/covatest/man/dataprep.Rd | 6 covatest-1.0.0/covatest/man/rr_13.Rd | 2 covatest-1.0.0/covatest/man/sepindex-class.Rd | 68 covatest-1.0.0/covatest/man/setzero-methods.Rd |only 21 files changed, 5487 insertions(+), 4760 deletions(-)
Title: Learning Causal or Non-Causal Graphical Models Using Information
Theory
Description: We report an information-theoretic method which learns a large class of causal or non-causal graphical models from purely observational data, while including the effects of unobserved latent variables, commonly found in many datasets. Starting from a complete graph, the method iteratively removes dispensable edges, by uncovering significant information contributions from indirect paths, and assesses edge-specific confidences from randomization of available data. The remaining edges are then oriented based on the signature of causality in observational data. This approach can be applied on a wide range of datasets and provide new biological insights on regulatory networks from single cell expression data, genomic alterations during tumor development and co-evolving residues in protein structures. For more information you can refer to: Verny et al. Plos Comput Biol. (2017) <doi:10.1371/journal.pcbi.1005662>.
Author: Nadir Sella [aut, cre],
Louis Verny [aut],
Severine Affeldt [aut],
Hervé Isambert [aut]
Maintainer: Nadir Sella <nadir.sella@curie.fr>
Diff between miic versions 1.0.1 dated 2017-12-05 and 1.0.3 dated 2018-02-02
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/write.style.R | 4 ++-- src/computeInfo_interface.cpp | 2 +- 4 files changed, 10 insertions(+), 10 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-01 0.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-02 2.0.0
2017-12-17 1.2.0
2017-10-20 1.1.0
2017-10-07 1.0.0
2017-09-12 0.3.1
2017-05-18 0.3.0
2017-04-27 0.2.2
2017-04-24 0.2.1
2017-04-21 0.2.0
2017-03-14 0.1.1
2017-03-12 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-31 0.2.4
2017-11-30 0.2.3
2017-09-02 0.2.1
2017-09-02 0.2.2
Title: Compare Detrital Zircon Suites
Description: Compare detrital zircon suites by uploading univariate,
U-Pb age, or bivariate, U-Pb age and Lu-Hf data, in a 'shiny'-based
user-interface. Outputs publication quality figures using 'ggplot2', and
tables of statistics currently in use in the detrital zircon geochronology
community.
Author: Magnus Kristoffersen [aut, cre]
Maintainer: Magnus Kristoffersen <magnus.kristoffersen@geo.uio.no>
Diff between detzrcr versions 0.2.0 dated 2017-06-13 and 0.2.1 dated 2018-02-02
DESCRIPTION | 6 MD5 | 16 - NAMESPACE | 1 NEWS.md | 5 R/calculations.R | 2 R/plotting.R | 4 build/vignette.rds |binary inst/CITATION | 8 inst/doc/detzrcr-vignette.html | 370 ++++++++++++++++++++++++++++++----------- 9 files changed, 302 insertions(+), 110 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-01 1.5.0
2017-11-02 1.0