Title: Time Series with Matrix Profile
Description: A toolkit implementing the Matrix Profile concept that was created by CS-UCR <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.
Author: Francisco Bischoff [aut, cre] (<https://orcid.org/0000-0002-5301-8672>),
Michael Yeh [res, ccp, ctb] (<https://orcid.org/0000-0002-9807-2963>),
Diego Silva [res, ccp, ctb] (<https://orcid.org/0000-0002-5184-9413>),
Yan Zhu [res, ccp, ctb] (<https://orcid.org/0000-0002-5952-2108>),
Hoang Dau [res, ccp, ctb] (<https://orcid.org/0000-0003-2439-5185>)
Maintainer: Francisco Bischoff <fbischoff@med.up.pt>
Diff between tsmp versions 0.3.1 dated 2018-09-10 and 0.3.2 dated 2018-10-23
tsmp-0.3.1/tsmp/LICENSE |only tsmp-0.3.1/tsmp/R/aaa.R |only tsmp-0.3.1/tsmp/tests/testthat/test-z-update-version.R |only tsmp-0.3.2/tsmp/DESCRIPTION | 15 tsmp-0.3.2/tsmp/MD5 | 134 +++- tsmp-0.3.2/tsmp/NAMESPACE | 11 tsmp-0.3.2/tsmp/NEWS | 25 tsmp-0.3.2/tsmp/NEWS.md | 26 tsmp-0.3.2/tsmp/R/find-motifs.R | 10 tsmp-0.3.2/tsmp/R/mass-pre.R | 10 tsmp-0.3.2/tsmp/R/misc.R | 102 +++ tsmp-0.3.2/tsmp/R/mp-meat-data.R |only tsmp-0.3.2/tsmp/R/mstomp-par.R | 40 - tsmp-0.3.2/tsmp/R/mstomp.R | 18 tsmp-0.3.2/tsmp/R/plot.R | 163 +++++- tsmp-0.3.2/tsmp/R/print.R | 51 + tsmp-0.3.2/tsmp/R/salient.R | 460 +++++++++-------- tsmp-0.3.2/tsmp/R/scrimp.R | 279 ++++++---- tsmp-0.3.2/tsmp/R/sdts-predict.R | 14 tsmp-0.3.2/tsmp/R/sdts-train.R | 103 ++- tsmp-0.3.2/tsmp/R/simple.R | 27 tsmp-0.3.2/tsmp/R/stamp-par.R | 52 + tsmp-0.3.2/tsmp/R/stamp.R | 35 - tsmp-0.3.2/tsmp/R/stomp-par.R | 51 + tsmp-0.3.2/tsmp/R/stomp.R | 31 - tsmp-0.3.2/tsmp/R/tsmp.R | 8 tsmp-0.3.2/tsmp/R/utils-pipe.R |only tsmp-0.3.2/tsmp/README.md | 49 - tsmp-0.3.2/tsmp/build |only tsmp-0.3.2/tsmp/data/datalist | 1 tsmp-0.3.2/tsmp/data/mp_meat_data.rda |only tsmp-0.3.2/tsmp/inst/WORDLIST | 16 tsmp-0.3.2/tsmp/inst/doc |only tsmp-0.3.2/tsmp/man/fast_movavg.Rd | 4 tsmp-0.3.2/tsmp/man/find_motif.Rd | 9 tsmp-0.3.2/tsmp/man/get_data.Rd |only tsmp-0.3.2/tsmp/man/mp_meat_data.Rd |only tsmp-0.3.2/tsmp/man/mstomp.Rd | 2 tsmp-0.3.2/tsmp/man/pipe.Rd |only tsmp-0.3.2/tsmp/man/plot.Rd | 18 tsmp-0.3.2/tsmp/man/salient_mds.Rd |only tsmp-0.3.2/tsmp/man/salient_score.Rd |only tsmp-0.3.2/tsmp/man/salient_subsequences.Rd | 15 tsmp-0.3.2/tsmp/man/scrimp.Rd | 10 tsmp-0.3.2/tsmp/man/sdts_predict.Rd | 6 tsmp-0.3.2/tsmp/man/sdts_score.Rd | 10 tsmp-0.3.2/tsmp/man/sdts_train.Rd | 10 tsmp-0.3.2/tsmp/man/set_data.Rd |only tsmp-0.3.2/tsmp/man/simple_fast.Rd | 4 tsmp-0.3.2/tsmp/man/stamp.Rd | 4 tsmp-0.3.2/tsmp/man/stomp.Rd | 4 tsmp-0.3.2/tsmp/man/tsmp.Rd | 5 tsmp-0.3.2/tsmp/tests/figs |only tsmp-0.3.2/tsmp/tests/fontconfig-helper.R |only tsmp-0.3.2/tsmp/tests/prints |only tsmp-0.3.2/tsmp/tests/spelling.R | 8 tsmp-0.3.2/tsmp/tests/testthat/test-annotation.R | 10 tsmp-0.3.2/tsmp/tests/testthat/test-basics.R | 17 tsmp-0.3.2/tsmp/tests/testthat/test-misc.R |only tsmp-0.3.2/tsmp/tests/testthat/test-mstomp-search.R | 26 tsmp-0.3.2/tsmp/tests/testthat/test-plot-print.R |only tsmp-0.3.2/tsmp/tests/testthat/test-salient.R | 58 -- tsmp-0.3.2/tsmp/tests/testthat/test-sdts.R | 14 tsmp-0.3.2/tsmp/tests/testthat/test-simple.R | 95 +-- tsmp-0.3.2/tsmp/tests/testthat/test-stamps.R | 96 ++- tsmp-0.3.2/tsmp/tests/testthat/test-stomp-search.R |only tsmp-0.3.2/tsmp/tests/testthat/test-stress-stamps.R |only tsmp-0.3.2/tsmp/tests/update-version.R |only tsmp-0.3.2/tsmp/vignettes |only 69 files changed, 1401 insertions(+), 755 deletions(-)
Title: Projection Predictive Feature Selection
Description: Performs projection predictive feature selection for generalized linear models
(see, Piironen, Paasiniemi and Vehtari, 2018, <arXiv:1810.02406>).
The package is compatible with the 'rstanarm' and 'brms' packages, but other
reference models can also be used. See the package vignette for more
information and examples.
Author: Juho Piironen [cre, aut],
Markus Paasiniemi [aut],
Aki Vehtari [aut],
Jonah Gabry [ctb],
Paul-Christian Bürkner [ctb]
Maintainer: Juho Piironen <juho.piironen@aalto.fi>
Diff between projpred versions 1.0.0 dated 2018-09-18 and 1.1.0 dated 2018-10-23
DESCRIPTION | 23 MD5 | 49 NAMESPACE | 1 NEWS.md | 11 R/data.R | 21 R/misc.R | 5 R/refmodel.R | 137 +- data/mesquite.rda |only inst/doc/quickstart.Rmd | 8 inst/doc/quickstart.html | 672 +++------- man/get-refmodel.Rd | 6 man/mesquite.Rd |only tests/testthat/test_datafit.R | 9 tests/testthat/test_syntax.R |only vignettes/quickstart.Rmd | 8 vignettes/quickstart_files/figure-html/unnamed-chunk-10-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-11-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-13-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-14-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-18-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-21-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-22-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-26-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-27-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-28-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-6-1.png |binary vignettes/quickstart_files/figure-html/unnamed-chunk-9-1.png |binary 27 files changed, 446 insertions(+), 504 deletions(-)
Title: Utility Functions for Statistical Analysis Report Generation and
Monte Carlo Studies
Description: Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.
Author: Youyi Fong [cre],
Krisztian Sebestyen [aut],
Jason Becker [ctb],
Bendix Carstensen [ctb],
Daryl Morris [ctb],
Josh Pasek [ctb],
Dennis Chao [ctb],
Andri Signorell [ctb]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between kyotil versions 2018.7-16 dated 2018-08-07 and 2018.10-17 dated 2018-10-23
ChangeLog | 10 ++++++++-- DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/misc.R | 10 ++++++---- R/plotting.R | 7 ++++--- R/print.R | 34 ++++++++++++++++++++++------------ R/regression.model.functions.R | 28 +++++++++++----------------- man/plotting.Rd | 21 +++++++++++++++------ 8 files changed, 76 insertions(+), 54 deletions(-)
Title: Stratified Heterogeneity Measure, Dominant Driving Force
Detection, Interaction Relationship Investigation
Description: Spatial stratified heterogeneity (SSH), referring to the within strata are more similar than the between strata, a model with global parameters would be confounded if input data is SSH. Note that the "spatial" here can be either geospatial or the space in mathematical meaning. Geographical detector is a novel tool to investigate SSH: (1) measure and find SSH of a variable Y; (2) test the power of determinant X of a dependent variable Y according to the consistency between their spatial distributions; and (3) investigate the interaction between two explanatory variables X1 and X2 to a dependent variable Y (Wang et al 2014 <doi:10.1080/13658810802443457>, Wang, Zhang, and Fu 2016 <doi:10.1016/j.ecolind.2016.02.052>).
Author: Chengdong Xu [aut, cre],
Jinfeng Wang [aut],
Yue Hou [ctb],
Qian Yin [ctb]
Maintainer: Chengdong Xu <xucd@Lreis.ac.cn>
Diff between geodetector versions 1.0-2 dated 2018-08-18 and 1.0-3 dated 2018-10-23
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ data/CollectData.rda |binary inst/doc/geodetector.R | 5 ++--- inst/doc/geodetector.Rmd | 6 ++---- inst/doc/geodetector.html | 46 ++++++++++++++++++++++------------------------ vignettes/geodetector.Rmd | 6 ++---- 8 files changed, 42 insertions(+), 45 deletions(-)
Title: Presentation Ninja
Description: Create HTML5 slides with R Markdown and the JavaScript library
'remark.js' (<https://remarkjs.com>).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Claus Thorn Ekstrøm [ctb],
Daniel Anderson [ctb],
Dawei Lang [ctb],
Garrick Aden-Buie [ctb],
John Little [ctb],
Joseph Casillas [ctb],
Michael Wayne Kearney [ctb],
Nan-Hung Hsieh [ctb],
Ole Petter Bang [ctb] (CSS in
rmarkdown/templates/xaringan/resources/default.css),
Patrick Schratz [ctb],
Sean Lopp [ctb],
Lucy D'Agostino McGowan [ctb] (<https://orcid.org/0000-0001-7297-9359>),
Emi Tanaka [ctb],
Yongfu Liao [ctb],
Malcolm Barrett [ctb] (<https://orcid.org/0000-0003-0299-5825>)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xaringan versions 0.7 dated 2018-07-10 and 0.8 dated 2018-10-23
DESCRIPTION | 20 ++++- MD5 | 18 +++-- R/render.R | 34 ++++++---- R/utils.R | 7 ++ README.md | 8 +- inst/examples/lucy-demo.Rmd |only inst/rmarkdown/templates/xaringan/resources/chocolate-fonts.css |only inst/rmarkdown/templates/xaringan/resources/chocolate.css |only inst/rmarkdown/templates/xaringan/resources/kunoichi.css |only inst/rmarkdown/templates/xaringan/resources/lucy-fonts.css |only inst/rmarkdown/templates/xaringan/resources/lucy.css |only inst/rmarkdown/templates/xaringan/resources/ninjutsu.css |only inst/rmarkdown/templates/xaringan/resources/shinobi.css |only inst/rmarkdown/templates/xaringan/skeleton/skeleton.Rmd | 20 +++++ 14 files changed, 78 insertions(+), 29 deletions(-)
Title: Parse 'NOAA' Integrated Surface Data Files
Description: Tools for parsing 'NOAA' Integrated Surface Data ('ISD') files,
described at <https://www.ncdc.noaa.gov/isd>. Data includes for example,
wind speed and direction, temperature, cloud data, sea level pressure,
and more. Includes data from approximately 35,000 stations worldwide,
though best coverage is in North America/Europe/Australia. Data is stored
as variable length ASCII character strings, with most fields optional.
Included are tools for parsing entire files, or individual lines of data.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between isdparser versions 0.2.0 dated 2017-01-18 and 0.3.0 dated 2018-10-23
isdparser-0.2.0/isdparser/inst/isddocs |only isdparser-0.3.0/isdparser/DESCRIPTION | 22 isdparser-0.3.0/isdparser/LICENSE | 2 isdparser-0.3.0/isdparser/MD5 | 32 isdparser-0.3.0/isdparser/NEWS.md | 12 isdparser-0.3.0/isdparser/R/additional_data_fxns.R | 14 isdparser-0.3.0/isdparser/R/isdparser-package.R | 51 isdparser-0.3.0/isdparser/README.md | 62 isdparser-0.3.0/isdparser/build/vignette.rds |binary isdparser-0.3.0/isdparser/data |only isdparser-0.3.0/isdparser/inst/doc/isdparser_vignette.html | 1380 +++++++++- isdparser-0.3.0/isdparser/inst/extdata/isd_metadata.csv |only isdparser-0.3.0/isdparser/man/isd_metadata.Rd |only isdparser-0.3.0/isdparser/man/isd_parse.Rd | 5 isdparser-0.3.0/isdparser/man/isd_parse_line.Rd | 1 isdparser-0.3.0/isdparser/man/isd_transform.Rd | 2 isdparser-0.3.0/isdparser/man/isdparser-package.Rd | 4 isdparser-0.3.0/isdparser/tests/testthat/test-isd_parse.R | 2 isdparser-0.3.0/isdparser/tests/testthat/test-isd_parse_line.R | 4 19 files changed, 1469 insertions(+), 124 deletions(-)
Title: Flexibly Reshape Data
Description: Flexibly restructure and aggregate data using
just two functions: melt and cast.
Author: Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between reshape versions 0.8.7 dated 2017-08-06 and 0.8.8 dated 2018-10-23
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NAMESPACE | 1 - NEWS | 4 ++++ man/all-vars-character-rs.rd | 2 +- 5 files changed, 12 insertions(+), 9 deletions(-)
Title: Miscellaneous Functions by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] (<https://orcid.org/0000-0003-0645-5666>),
Daijiang Li [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.3 dated 2018-07-06 and 0.4 dated 2018-10-23
DESCRIPTION | 10 +++---- MD5 | 36 +++++++++++++++------------- NAMESPACE | 3 ++ NEWS.md | 14 ++++++++++ R/encoding.R | 6 +++- R/io.R | 22 +++++++++-------- R/json.R | 11 +++++++- R/markdown.R | 68 +++++++++++++++++++++++++++++++++++++++++++++++++++++ R/packages.R | 9 ++++++- R/revcheck.R | 2 + R/utils.R | 6 +--- README.md | 3 +- build/vignette.rds |binary inst/doc/xfun.html | 24 +++++++++--------- man/embed_file.Rd |only man/gsub_file.Rd | 15 ++++++----- man/pkg_attach.Rd | 5 +++ man/tojson.Rd | 12 +++++++-- tests |only 19 files changed, 184 insertions(+), 62 deletions(-)
Title: Helper Functions to Install and Maintain 'TeX Live', and Compile
'LaTeX' Documents
Description: Helper functions to install and maintain the 'LaTeX' distribution
named 'TinyTeX' (<https://yihui.name/tinytex/>), a lightweight, cross-platform,
portable, and easy-to-maintain version of 'TeX Live'. This package also
contains helper functions to compile 'LaTeX' documents, and install missing
'LaTeX' packages automatically.
Author: Yihui Xie [aut, cre, cph] (<https://orcid.org/0000-0003-0645-5666>),
RStudio, Inc. [cph],
Fernando Cagua [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between tinytex versions 0.8 dated 2018-08-30 and 0.9 dated 2018-10-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/install.R | 21 ++++++++++++++------- 3 files changed, 19 insertions(+), 12 deletions(-)
Title: A Simple HTTP Server to Serve Static Files or Dynamic Documents
Description: Start an HTTP server in R to serve static files, or dynamic
documents that can be converted to HTML files (e.g., R Markdown) under a
given directory.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Carson Sievert [ctb],
Jesse Anderson [ctb],
Ramnath Vaidyanathan [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between servr versions 0.10 dated 2018-05-30 and 0.11 dated 2018-10-23
DESCRIPTION | 8 +++---- MD5 | 24 ++++++++++----------- NEWS | 9 ++++++++ R/dynamic.R | 2 - R/static.R | 56 ++++++++++++++++++++++++++++++--------------------- R/utils.R | 9 -------- README.md | 14 ++++++------ man/dynamic_site.Rd | 2 - man/httd.Rd | 2 - man/make.Rd | 2 - man/notebook.Rd | 2 - man/server_config.Rd | 41 ++++++++++++++++++++----------------- man/vign.Rd | 2 - 13 files changed, 94 insertions(+), 79 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 0.7-0 dated 2018-10-19 and 0.7-1 dated 2018-10-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/mixpanelGetData.R | 2 +- build/partial.rdb |binary 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Deconvolute Mixed Genomes with Unknown Proportions
Description: Traditional phasing programs are limited to diploid organisms.
Our method modifies Li and Stephens algorithm with Markov chain Monte Carlo
(MCMC) approaches, and builds a generic framework that allows haplotype searches
in a multiple infection setting. This package is primarily developed as part of
the Pf3k project, which is a global collaboration using the latest
sequencing technologies to provide a high-resolution view of natural variation
in the malaria parasite Plasmodium falciparum. Parasite DNA are extracted from
patient blood sample, which often contains more than one parasite strain, with
unknown proportions. This package is used for deconvoluting mixed haplotypes,
and reporting the mixture proportions from each sample.
Author: Joe Zhu [aut, cre, cph],
Jacob Almagro-Garcia [aut, cph],
Gil McVean [aut, cph],
University of Oxford [cph],
Yinghan Liu [ctb],
CodeCogs Zyba Ltd [com, cph],
Deepak Bandyopadhyay [com, cph],
Lutz Kettner [com, cph]
Maintainer: Joe Zhu <joe.zhu@bdi.ox.ac.uk>
Diff between DEploid versions 0.5.1 dated 2018-10-21 and 0.5.2 dated 2018-10-23
DEploid-0.5.1/DEploid/src/DEploid/export/io_unit_tests-dEploidIOExport.gcno |only DEploid-0.5.1/DEploid/src/DEploid/export/io_unit_tests-dEploidIOExportPosteriorProb.gcno |only DEploid-0.5.1/DEploid/src/DEploid/export/io_unit_tests-writeMcmcRelated.gcno |only DEploid-0.5.1/DEploid/src/DEploid/export/unit_tests-dEploidIOExport.gcno |only DEploid-0.5.1/DEploid/src/DEploid/export/unit_tests-dEploidIOExportPosteriorProb.gcno |only DEploid-0.5.1/DEploid/src/DEploid/export/unit_tests-writeMcmcRelated.gcno |only DEploid-0.5.1/DEploid/src/DEploid/gzstream/io_unit_tests-gzstream.gcno |only DEploid-0.5.1/DEploid/src/DEploid/gzstream/unit_tests-gzstream.gcno |only DEploid-0.5.1/DEploid/src/DEploid/gzstream/version |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-dEploidIO.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-ibd.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-mcmc.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-panel.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-txtReader.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-updateHap.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-utility.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-variantIndex.gcno |only DEploid-0.5.1/DEploid/src/DEploid/io_unit_tests-vcfReader.gcno |only DEploid-0.5.1/DEploid/src/DEploid/lasso/io_unit_tests-dEploidLasso.gcno |only DEploid-0.5.1/DEploid/src/DEploid/lasso/io_unit_tests-lasso.gcno |only DEploid-0.5.1/DEploid/src/DEploid/lasso/unit_tests-dEploidLasso.gcno |only DEploid-0.5.1/DEploid/src/DEploid/lasso/unit_tests-lasso.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/io_unit_tests-fastfunc.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/io_unit_tests-mersenne_twister.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/io_unit_tests-random_generator.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/unit_tests-fastfunc.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/unit_tests-mersenne_twister.gcno |only DEploid-0.5.1/DEploid/src/DEploid/random/unit_tests-random_generator.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-dEploidIO.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-ibd.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-mcmc.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-panel.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-txtReader.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-updateHap.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-utility.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-variantIndex.gcno |only DEploid-0.5.1/DEploid/src/DEploid/unit_tests-vcfReader.gcno |only DEploid-0.5.2/DEploid/DESCRIPTION | 8 - DEploid-0.5.2/DEploid/MD5 | 41 ---------- DEploid-0.5.2/DEploid/inst/doc/dEploid-Arguments.html | 4 40 files changed, 8 insertions(+), 45 deletions(-)
Title: Create Blogs and Websites with R Markdown
Description: Write blog posts and web pages in R Markdown. This package supports
the static site generator 'Hugo' (<https://gohugo.io>) best, and it also
supports 'Jekyll' (<http://jekyllrb.com>) and 'Hexo' (<https://hexo.io>).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Beilei Bian [ctb],
Forest Fang [ctb],
Garrick Aden-Buie [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
JJ Allaire [ctb],
Kevin Ushey [ctb],
Leonardo Collado-Torres [ctb],
Xianying Tan [ctb],
RStudio Inc [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between blogdown versions 0.8 dated 2018-07-15 and 0.9 dated 2018-10-23
DESCRIPTION | 13 +++++++------ MD5 | 22 +++++++++++----------- NEWS.md | 6 ++++++ R/format.R | 8 ++++++-- R/hugo.R | 26 ++++++++++++++++++++------ R/install.R | 4 +++- R/serve.R | 5 +++-- R/utils.R | 17 +++++++++++------ README.md | 1 + inst/scripts/update_meta.R | 13 ++++++++++++- man/html_page.Rd | 5 +++-- man/hugo_cmd.Rd | 2 +- 12 files changed, 84 insertions(+), 38 deletions(-)
Title: Analysis of Physiologically Structured Population Models
Description: Performs demographic, bifurcation and evolutionary analysis of physiologically structured population models, which is a class of models that consistently translates continuous-time models of individual life history to the population level.
A model of individual life history has to be implemented specifying the individual-level functions that determine the life history, such as development and mortality rates and fecundity.
M.A. Kirkilionis, O. Diekmann, B. Lisser, M. Nool, B. Sommeijer & A.M. de Roos (2001) <doi:10.1142/S0218202501001264>.
O.Diekmann, M.Gyllenberg & J.A.J.Metz (2003) <doi:10.1016/S0040-5809(02)00058-8>.
A.M. de Roos (2008) <doi:10.1111/j.1461-0248.2007.01121.x>.
Author: Andre M. de Roos [aut, cre],
Ernst Hairer [ctb],
Gerhard Wanner [ctb]
Maintainer: Andre M. de Roos <A.M.deRoos@uva.nl>
Diff between PSPManalysis versions 0.2.0 dated 2018-06-17 and 0.2.1 dated 2018-10-23
DESCRIPTION | 8 ++-- MD5 | 28 +++++++-------- R/PSPMecodyn.R | 35 +++++++----------- R/buildSO.R | 35 +++++++----------- R/setup.R | 38 ++++---------------- inst/C/PSPMequi.c | 35 ++++++++++++------ inst/C/biftest.c | 76 ++++++++++++++++++++++++----------------- inst/C/curve.c | 4 +- inst/C/globals.h | 4 +- inst/doc/PSPManalysis-pdf.Rmd | 14 +++---- inst/doc/PSPManalysis-pdf.pdf |binary inst/doc/PSPManalysis.Rmd | 14 +++---- inst/doc/PSPManalysis.html | 10 ++--- vignettes/PSPManalysis-pdf.Rmd | 14 +++---- vignettes/PSPManalysis.Rmd | 14 +++---- 15 files changed, 161 insertions(+), 168 deletions(-)
Title: Sequential Rank Agreement
Description: Tools for analysing the agreement of two or more rankings of the same items. Examples are importance rankings of predictor variables and risk predictions of subjects. Benchmarks for agreement are computed based on random permutation and bootstrap.
Author: Claus Thorn Ekstrøm and Thomas Alexander Gerds
Maintainer: Claus Thorn Ekstrøm <ekstrom@sund.ku.dk>
Diff between SuperRanker versions 1.1.0 dated 2018-01-13 and 1.1.1 dated 2018-10-23
DESCRIPTION | 9 ++-- MD5 | 10 ++-- R/sra.R | 104 ++++++++++++++++++++++++++++--------------------- man/random_list_sra.Rd | 8 ++- man/sra.Rd | 3 - man/sracpp.Rd | 3 - 6 files changed, 80 insertions(+), 57 deletions(-)
Title: Additional Univariate and Multivariate Distributions
Description: Density, distribution function, quantile function
and random generation for a number of univariate
and multivariate distributions. This package implements the
following distributions: Bernoulli, beta-binomial, beta-negative
binomial, beta prime, Bhattacharjee, Birnbaum-Saunders,
bivariate normal, bivariate Poisson, categorical, Dirichlet,
Dirichlet-multinomial, discrete gamma, discrete Laplace,
discrete normal, discrete uniform, discrete Weibull, Frechet,
gamma-Poisson, generalized extreme value, Gompertz,
generalized Pareto, Gumbel, half-Cauchy, half-normal, half-t,
Huber density, inverse chi-squared, inverse-gamma, Kumaraswamy,
Laplace, location-scale t, logarithmic, Lomax, multivariate
hypergeometric, multinomial, negative hypergeometric,
non-standard beta, normal mixture, Poisson mixture, Pareto,
power, reparametrized beta, Rayleigh, shifted Gompertz, Skellam,
slash, triangular, truncated binomial, truncated normal,
truncated Poisson, Tukey lambda, Wald, zero-inflated binomial,
zero-inflated negative binomial, zero-inflated Poisson.
Author: Tymoteusz Wolodzko
Maintainer: Tymoteusz Wolodzko <twolodzko+extraDistr@gmail.com>
Diff between extraDistr versions 1.8.9 dated 2018-06-05 and 1.8.10 dated 2018-10-23
DESCRIPTION | 10 - MD5 | 135 +++++++++---------- NEWS.md | 10 + R/RcppExports.R | 8 - R/beta-negative-binomial-distribution.R | 2 R/negative-hypergeometric-distribution.R | 2 R/zero-inflated-poisson-distribution.R | 2 man/Bernoulli.Rd | 7 man/BetaBinom.Rd | 10 - man/BetaNegBinom.Rd | 12 - man/BetaPrime.Rd | 13 - man/Bhattacharjee.Rd | 7 man/BirnbaumSaunders.Rd | 13 - man/BivNormal.Rd | 11 - man/BivPoiss.Rd | 7 man/Categorical.Rd | 7 man/DirMnom.Rd | 7 man/Dirichlet.Rd | 7 man/DiscreteGamma.Rd | 7 man/DiscreteLaplace.Rd | 7 man/DiscreteNormal.Rd | 7 man/DiscreteUniform.Rd | 7 man/DiscreteWeibull.Rd | 7 man/Frechet.Rd | 7 man/GEV.Rd | 13 - man/GPD.Rd | 13 - man/GammaPoiss.Rd | 10 - man/Gompertz.Rd | 7 man/Gumbel.Rd | 7 man/HalfCauchy.Rd | 7 man/HalfNormal.Rd | 7 man/HalfT.Rd | 7 man/Huber.Rd | 7 man/InvChiSq.Rd | 7 man/InvGamma.Rd | 7 man/Kumaraswamy.Rd | 7 man/Laplace.Rd | 7 man/LocationScaleT.Rd | 7 man/LogSeries.Rd | 7 man/Lomax.Rd | 7 man/MultiHypergeometric.Rd | 7 man/Multinomial.Rd | 7 man/NSBeta.Rd | 7 man/NegHyper.Rd | 9 - man/NormalMix.Rd | 7 man/Pareto.Rd | 7 man/PoissonMix.Rd | 7 man/PowerDist.Rd | 7 man/PropBeta.Rd | 7 man/Rayleigh.Rd | 7 man/ShiftGomp.Rd | 7 man/Skellam.Rd | 7 man/Slash.Rd | 7 man/Triangular.Rd | 7 man/TruncBinom.Rd | 7 man/TruncNormal.Rd | 7 man/TruncPoisson.Rd | 13 - man/TukeyLambda.Rd | 7 man/Wald.Rd | 7 man/ZIB.Rd | 7 man/ZINB.Rd | 7 man/ZIP.Rd | 9 - src/RcppExports.cpp | 26 +-- src/beta-binomial-distribution.cpp | 16 +- src/beta-negative-binomial-distribution.cpp | 22 ++- src/shared.h | 1 src/wald-distribution.cpp | 2 src/zero-inflated-negative-binomial-distribution.cpp | 21 -- tests/testthat/test_vectorization.R |only 69 files changed, 279 insertions(+), 412 deletions(-)
Title: Access Domains and Search Popular Websites
Description: Functions that allow for accessing domains and a number of search engines.
Author: Florian S. Schaffner [aut, cre]
(<https://orcid.org/0000-0003-3352-6191>),
Charles Crabtree [ctb]
Maintainer: Florian S. Schaffner <florian.schaffner@outlook.com>
Diff between websearchr versions 0.0.2 dated 2017-10-29 and 0.0.3 dated 2018-10-23
DESCRIPTION | 19 +++++++++----- LICENSE | 4 +-- MD5 | 66 ++++++++++++++++++++++++++++---------------------- NAMESPACE | 6 +++- NEWS.md | 17 ++++++++++-- R/bing.R | 8 +++--- R/crossref.R | 8 +++--- R/duckduckgo.R | 10 +++---- R/github.R | 8 +++--- R/google.R | 8 +++--- R/google_scholar.R | 8 +++--- R/qwant.R |only R/r_bloggers.R |only R/rdocumentation.R | 8 +++--- R/rdrr_io.R | 8 +++--- R/reddit.r |only R/stackoverflow.R | 8 +++--- R/twitter.R | 44 +++++++++++++++++++++++++++++---- R/web.R | 12 ++------- R/wikipedia.R | 43 +++++++++++++++++++++++++++++--- R/wolframalpha.r |only README.md | 34 +++++++++++++++---------- man/bing.Rd | 4 +-- man/crossref.Rd | 4 +-- man/duckduckgo.Rd | 6 ++-- man/github.Rd | 4 +-- man/google.Rd | 4 +-- man/google_scholar.Rd | 4 +-- man/qwant.Rd |only man/r_bloggers.Rd |only man/rdocumentation.Rd | 6 ++-- man/rdrr_io.Rd | 6 ++-- man/reddit.Rd |only man/stackoverflow.Rd | 6 ++-- man/twitter.Rd | 8 +++--- man/web.Rd | 8 +----- man/wikipedia.Rd | 8 +++--- man/wolframalpha.Rd |only 38 files changed, 243 insertions(+), 144 deletions(-)
Title: Bayesian Regression with Time-Varying Coefficients
Description: Bayesian dynamic regression models where the regression
coefficients can vary over time as random walks.
Gaussian, Poisson, and binomial observations are supported.
The Markov chain Monte Carlo computations are done using
Hamiltonian Monte Carlo provided by Stan, using a state space representation
of the model in order to marginalise over the coefficients for efficient sampling.
For non-Gaussian models, walker uses the importance sampling type estimators based on
approximate marginal MCMC as in Vihola, Helske, Franks (2017, <arXiv:1609.02541>).
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between walker versions 0.2.2 dated 2018-10-16 and 0.2.3 dated 2018-10-23
DESCRIPTION | 8 MD5 | 76 NAMESPACE | 100 R/RcppExports.R | 22 R/plot_coefs.R | 122 R/plot_fit.R | 36 R/plot_predict.R | 152 R/pp_check.R | 42 R/predict.R | 152 R/print_fit.R | 22 R/rw.R | 178 R/stanmodels.R | 80 R/walker.R | 1072 +- R/walker_rw1.R | 494 - README.md | 56 build/vignette.rds |binary cleanup | 1 cleanup.win | 19 exec/rw1_model.stan | 286 exec/rw_glm_model.stan | 406 - exec/walker_glm.stan | 426 - exec/walker_lm.stan | 284 inst/chunks/common_functions.stan | 498 - inst/chunks/license.stan | 28 inst/doc/walker.R | 134 inst/doc/walker.html | 673 - man/plot_coefs.Rd | 52 man/plot_fit.Rd | 40 man/plot_predict.Rd | 100 man/pp_check.walker_fit.Rd | 34 man/predict.walker_fit.Rd | 56 man/print.walker_fit.Rd | 32 man/rw1.Rd | 50 man/rw2.Rd | 56 man/walker.Rd | 228 man/walker_glm.Rd | 228 man/walker_rw1.Rd | 224 src/Makevars | 9 src/include/models.hpp |14857 ++++++++++++++++++++------------------ 39 files changed, 11130 insertions(+), 10203 deletions(-)
Title: 'Rcpp' Bindings to Parser for Tom's Obvious Markup Language
Description: The configuration format defined by 'TOML' (which expands to
"Tom's Obvious Markup Language") specifies an excellent format (described at
<https://github.com/toml-lang/toml>) suitable for both human editing as well
as the common uses of a machine-readable format. This package uses 'Rcpp' to
connect the 'cpptoml' parser written by Chase Geigle (in modern C++11) to R.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppTOML versions 0.1.3 dated 2017-04-25 and 0.1.4 dated 2018-10-23
RcppTOML-0.1.3/RcppTOML/src/init.c |only RcppTOML-0.1.4/RcppTOML/ChangeLog | 60 + RcppTOML-0.1.4/RcppTOML/DESCRIPTION | 8 RcppTOML-0.1.4/RcppTOML/MD5 | 33 RcppTOML-0.1.4/RcppTOML/R/RcppExports.R | 4 RcppTOML-0.1.4/RcppTOML/R/parseToml.R | 6 RcppTOML-0.1.4/RcppTOML/README.md | 7 RcppTOML-0.1.4/RcppTOML/inst/NEWS.Rd | 16 RcppTOML-0.1.4/RcppTOML/inst/include/cpptoml.h | 885 ++++++++++++++----- RcppTOML-0.1.4/RcppTOML/inst/include/includize.hpp |only RcppTOML-0.1.4/RcppTOML/inst/include/toml.hpp |only RcppTOML-0.1.4/RcppTOML/man/RcppTOML-package.Rd | 2 RcppTOML-0.1.4/RcppTOML/man/parseTOML.Rd | 5 RcppTOML-0.1.4/RcppTOML/src/RcppExports.cpp | 17 RcppTOML-0.1.4/RcppTOML/src/parse.cpp | 22 RcppTOML-0.1.4/RcppTOML/tests/arrays.Rout.save | 10 RcppTOML-0.1.4/RcppTOML/tests/dates_and_times.R |only RcppTOML-0.1.4/RcppTOML/tests/dates_and_times.toml |only RcppTOML-0.1.4/RcppTOML/tests/misc.R |only RcppTOML-0.1.4/RcppTOML/tests/misc.Rout.save |only RcppTOML-0.1.4/RcppTOML/tests/tomlExamples.Rout.save | 12 21 files changed, 847 insertions(+), 240 deletions(-)
Title: SPatially aUTomatic deNoising for Ims toolKit
Description: A set of tools for the peak filtering of mass spectrometry
imaging data (MSI or IMS) based on spatial distribution of signal. Given a
region-of-interest (ROI), representing the spatial region where the informative
signal is expected to be localized, a series of filters determine which peak
signals are characterized by an implausible spatial distribution. The filters
reduce the dataset dimensionality and increase its information vs noise ratio,
improving the quality of the unsupervised analysis results, reducing data
dimensionality and simplifying the chemical interpretation.
Author: Paolo Inglese [aut, cre],
Goncalo Correia [aut, ctb]
Maintainer: Paolo Inglese <p.inglese14@imperial.ac.uk>
Diff between SPUTNIK versions 1.0.4.1 dated 2018-10-08 and 1.1 dated 2018-10-23
DESCRIPTION | 22 +- MD5 | 76 ++++--- NAMESPACE | 7 NEWS |only R/add_rem_border.R |only R/construct_funcs.R | 48 +++-- R/data_funcs.R | 184 ++++++++++--------- R/examples/msImage_removeSmallObjects.R |only R/examples/msiDataset_transform.R | 2 R/filter_count.R | 42 ++-- R/filter_csr.R | 129 ++++++++----- R/filter_global.R | 64 +++--- R/filter_split.R | 8 R/generic_funcs.R | 35 ++- R/graph_funcs.R | 130 ++++++++----- R/is_funcs.R | 4 R/ms.image_class.R | 115 ++++++------ R/ms.image_methods.R | 183 +++++++++++++++---- R/msi.dataset_class.R | 125 ++++++------- R/msi.dataset_funcs.R | 56 ++++- R/msi.dataset_methods.R | 287 ++++++++++++++++++++++++++++-- R/mz_funcs.R | 88 ++++++--- man/CSRPeaksFilter.Rd | 15 - man/NMI.Rd | 5 man/binKmeans2-msi.dataset-method.Rd |only man/binSupervised-msi.dataset-method.Rd |only man/countPixelsFilter.Rd | 21 +- man/createPeaksFilter.Rd | 6 man/gini.index.Rd | 2 man/globalPeaksFilter.Rd | 19 - man/invertImage-ms.image-method.Rd | 4 man/msImage.Rd | 3 man/msiDataset.Rd | 13 - man/normIntensity-msi.dataset-method.Rd | 2 man/plot.Rd | 8 man/refAndROIimages.Rd | 27 ++ man/removeSmallObjects-ms.image-method.Rd |only man/scatter.ratio.Rd | 2 man/smoothImage-ms.image-method.Rd | 9 man/spatial.chaos.Rd | 2 man/splitPeaksFilter.Rd | 2 man/varTransform-msi.dataset-method.Rd | 2 42 files changed, 1177 insertions(+), 570 deletions(-)
Title: Pretty Descriptive Stats
Description: Functions for conventionally formatting descriptive stats,
reshaping data frames and formatting R output as HTML.
Author: Jim Lemon <drjimlemon@gmail.com>,
Philippe Grosjean <phgrosjean@sciviews.org>
Maintainer: Jim Lemon <drjimlemon@gmail.com>
Diff between prettyR versions 2.2 dated 2015-10-20 and 2.2-2 dated 2018-10-23
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 4 ++++ R/addxtabs.R | 3 ++- R/brkdn.R | 1 + R/delim.xtab.R | 10 ++++++---- R/describe.R | 16 ++++++++-------- R/print.xtab.R | 6 +++--- R/xtab.R | 2 +- 9 files changed, 37 insertions(+), 29 deletions(-)
Title: Bayesian Regression Models using 'Stan'
Description: Fit Bayesian generalized (non-)linear multivariate multilevel models
using 'Stan' for full Bayesian inference. A wide range of distributions
and link functions are supported, allowing users to fit -- among others --
linear, robust linear, count data, survival, response times, ordinal,
zero-inflated, hurdle, and even self-defined mixture models all in a
multilevel context. Further modeling options include non-linear and
smooth terms, auto-correlation structures, censored data, meta-analytic
standard errors, and quite a few more. In addition, all parameters of the
response distribution can be predicted in order to perform distributional
regression. Prior specifications are flexible and explicitly encourage
users to apply prior distributions that actually reflect their beliefs.
Model fit can easily be assessed and compared with posterior predictive
checks and leave-one-out cross-validation. References: Bürkner (2017)
<doi:10.18637/jss.v080.i01>; Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>.
Author: Paul-Christian Bürkner [aut, cre]
Maintainer: Paul-Christian Bürkner <paul.buerkner@gmail.com>
Diff between brms versions 2.5.0 dated 2018-09-16 and 2.6.0 dated 2018-10-23
DESCRIPTION | 8 MD5 | 161 +++++----- NAMESPACE | 33 +- NEWS.md | 28 + R/brm.R | 498 ++++++++++++++++----------------- R/brmsfit-helpers.R | 4 R/brmsfit-methods.R | 214 +++++--------- R/brmsformula.R | 56 +++ R/data-helpers.R | 74 +++- R/data-predictor.R | 182 +++++++----- R/extract_draws.R | 142 +++++++-- R/families.R | 10 R/fitted.R | 11 R/formula-helpers.R | 7 R/generics.R | 10 R/hypothesis.R | 80 ++++- R/loo-helpers.R | 49 ++- R/make_stancode.R | 39 +- R/make_standata.R | 2 R/marginal_effects-helpers.R | 6 R/marginal_smooths-helpers.R | 156 +++++----- R/misc.R | 24 + R/predictor.R | 25 - R/priors.R | 89 +++-- R/rename_pars.R | 12 R/restructure.R | 2 R/sp-syntax-helpers.R | 69 +++- R/stan-helpers.R | 16 - R/stan-predictor.R | 88 +++-- R/stan-prior.R | 14 R/sysdata.rda |binary R/validate.R | 7 inst/CITATION | 9 inst/doc/brms_customfamilies.html | 36 +- inst/doc/brms_distreg.html | 88 ++--- inst/doc/brms_families.html | 4 inst/doc/brms_missings.html | 46 +-- inst/doc/brms_monotonic.html | 114 +++---- inst/doc/brms_multilevel.pdf |binary inst/doc/brms_multivariate.html | 205 ++++++++----- inst/doc/brms_nonlinear.html | 74 ++-- inst/doc/brms_overview.pdf |binary inst/doc/brms_phylogenetics.html | 78 ++--- man/add_ic.Rd | 15 man/bayes_R2.brmsfit.Rd | 6 man/brm.Rd | 464 ++++++++++++++---------------- man/brm_multiple.Rd | 142 ++++----- man/brmsfit-class.Rd | 3 man/coef.brmsfit.Rd | 2 man/data_predictor.Rd |only man/data_response.Rd |only man/density_ratio.Rd |only man/extract_draws.Rd |only man/fitted.brmsfit.Rd | 80 +---- man/fixef.brmsfit.Rd | 2 man/get_prior.Rd | 47 +-- man/kfold.Rd | 9 man/log_lik.brmsfit.Rd | 66 ---- man/loo.brmsfit.Rd | 9 man/loo_R2.brmsfit.Rd | 6 man/loo_predict.brmsfit.Rd | 4 man/make_stancode.Rd | 129 +++----- man/make_standata.Rd | 108 +++---- man/parse_bf.Rd | 42 +- man/pp_check.brmsfit.Rd | 11 man/pp_mixture.Rd | 72 +--- man/predict.brmsfit.Rd | 83 +---- man/predictive_interval.brmsfit.Rd |only man/ranef.brmsfit.Rd | 2 man/reloo.Rd | 4 man/residuals.brmsfit.Rd | 74 +--- man/rows2labels.Rd | 2 man/standata.Rd | 26 - man/update_adterms.Rd |only man/validate_newdata.Rd |only man/vcov.brmsfit.Rd | 2 man/waic.brmsfit.Rd | 4 tests/testthat/tests.brmsfit-methods.R | 166 +++++------ tests/testthat/tests.brmsformula.R | 21 + tests/testthat/tests.fitted.R | 3 tests/testthat/tests.make_stancode.R | 44 +- tests/testthat/tests.make_standata.R | 9 tests/testthat/tests.plots.R | 2 tests/testthat/tests.predict.R | 1 tests/testthat/tests.priors.R | 2 85 files changed, 2346 insertions(+), 2086 deletions(-)
Title: The Integration Between 'IBM COGNOS TM1' and R
Description: Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken.
Author: Muhammed Ali Onder
Maintainer: Muhammed Ali Onder <muhammedalionder@gmail.com>
Diff between tm1r versions 1.0.3 dated 2018-10-16 and 1.1.0 dated 2018-10-23
tm1r-1.0.3/tm1r/R/tm1_get_dimension_element_next.R |only tm1r-1.0.3/tm1r/R/tm1_insert_dimension_element.R |only tm1r-1.0.3/tm1r/R/tm1_mdx_generate.R |only tm1r-1.0.3/tm1r/man/tm1_get_dimension_element_next.Rd |only tm1r-1.0.3/tm1r/man/tm1_insert_dimension_element.Rd |only tm1r-1.0.3/tm1r/man/tm1_mdx_generate.Rd |only tm1r-1.1.0/tm1r/DESCRIPTION | 8 + tm1r-1.1.0/tm1r/MD5 | 46 ++++++---- tm1r-1.1.0/tm1r/R/tm1_api_request.R |only tm1r-1.1.0/tm1r/R/tm1_create_dimension_element.R |only tm1r-1.1.0/tm1r/R/tm1_create_mdx.R |only tm1r-1.1.0/tm1r/R/tm1_create_view.R |only tm1r-1.1.0/tm1r/R/tm1_delete_dimension_element.R |only tm1r-1.1.0/tm1r/R/tm1_delete_view.R |only tm1r-1.1.0/tm1r/R/tm1_get_cubes.R |only tm1r-1.1.0/tm1r/R/tm1_get_data.R | 82 +++--------------- tm1r-1.1.0/tm1r/R/tm1_get_dimension_subsets.R |only tm1r-1.1.0/tm1r/R/tm1_get_dimensions.R |only tm1r-1.1.0/tm1r/R/tm1_get_element.R | 38 +++++++- tm1r-1.1.0/tm1r/R/tm1_get_instances.R |only tm1r-1.1.0/tm1r/R/tm1_get_mdx_view.R | 48 ++++------ tm1r-1.1.0/tm1r/R/tm1_get_native_view.R | 52 ++++------- tm1r-1.1.0/tm1r/R/tm1_send_dataset.R | 2 tm1r-1.1.0/tm1r/man/tm1_api_request.Rd |only tm1r-1.1.0/tm1r/man/tm1_connection.Rd | 4 tm1r-1.1.0/tm1r/man/tm1_create_dimension_element.Rd |only tm1r-1.1.0/tm1r/man/tm1_create_mdx.Rd |only tm1r-1.1.0/tm1r/man/tm1_create_view.Rd |only tm1r-1.1.0/tm1r/man/tm1_delete_dimension_element.Rd |only tm1r-1.1.0/tm1r/man/tm1_delete_view.Rd |only tm1r-1.1.0/tm1r/man/tm1_get_cubes.Rd |only tm1r-1.1.0/tm1r/man/tm1_get_dimension_subsets.Rd |only tm1r-1.1.0/tm1r/man/tm1_get_dimensions.Rd |only tm1r-1.1.0/tm1r/man/tm1_get_element.Rd | 8 + tm1r-1.1.0/tm1r/man/tm1_get_instances.Rd |only tm1r-1.1.0/tm1r/man/tm1_get_mdx_view.Rd | 2 tm1r-1.1.0/tm1r/man/tm1_get_native_view.Rd | 2 37 files changed, 133 insertions(+), 159 deletions(-)
Title: Analysis of Stable Matchings
Description: Implements structural estimators to correct for
the sample selection bias from observed outcomes in matching
markets. This includes one-sided matching of agents into
groups as well as two-sided matching of students to schools.
The package also contains algorithms to find stable matchings
in the three most common matching problems: the stable roommates
problem, the college admissions problem, and the house
allocation problem.
Author: Thilo Klein [aut, cre],
Sven Giegerich [ctb],
Alexander Sauer [ctb]
Maintainer: Thilo Klein <thilo@klein.uk>
Diff between matchingMarkets versions 0.3-5 dated 2018-02-23 and 0.3-6 dated 2018-10-23
matchingMarkets-0.3-5/matchingMarkets/inst/staticdocs |only matchingMarkets-0.3-6/matchingMarkets/DESCRIPTION | 16 matchingMarkets-0.3-6/matchingMarkets/MD5 | 60 - matchingMarkets-0.3-6/matchingMarkets/NAMESPACE | 4 matchingMarkets-0.3-6/matchingMarkets/NEWS.md | 22 matchingMarkets-0.3-6/matchingMarkets/R/hri.R | 399 ++++++++-- matchingMarkets-0.3-6/matchingMarkets/R/hri2.R | 214 ++++- matchingMarkets-0.3-6/matchingMarkets/R/iaa.R | 225 +++-- matchingMarkets-0.3-6/matchingMarkets/R/rsd.R |only matchingMarkets-0.3-6/matchingMarkets/R/stabchk.R |only matchingMarkets-0.3-6/matchingMarkets/R/stabit2.R | 67 - matchingMarkets-0.3-6/matchingMarkets/R/ttc.R | 196 ++-- matchingMarkets-0.3-6/matchingMarkets/R/ttc2.R |only matchingMarkets-0.3-6/matchingMarkets/R/ttcc.R |only matchingMarkets-0.3-6/matchingMarkets/README.md | 57 - matchingMarkets-0.3-6/matchingMarkets/build/vignette.rds |binary matchingMarkets-0.3-6/matchingMarkets/inst/CITATION | 2 matchingMarkets-0.3-6/matchingMarkets/inst/doc/matching.pdf |binary matchingMarkets-0.3-6/matchingMarkets/inst/include/damatcher.h | 2 matchingMarkets-0.3-6/matchingMarkets/inst/include/params.h | 97 +- matchingMarkets-0.3-6/matchingMarkets/man/hri.Rd | 38 matchingMarkets-0.3-6/matchingMarkets/man/hri2.Rd | 61 + matchingMarkets-0.3-6/matchingMarkets/man/iaa.Rd | 64 - matchingMarkets-0.3-6/matchingMarkets/man/matchingMarkets-package.Rd | 7 matchingMarkets-0.3-6/matchingMarkets/man/rsd.Rd |only matchingMarkets-0.3-6/matchingMarkets/man/stabchk.Rd |only matchingMarkets-0.3-6/matchingMarkets/man/stabsim2.Rd | 5 matchingMarkets-0.3-6/matchingMarkets/man/ttc.Rd | 74 + matchingMarkets-0.3-6/matchingMarkets/man/ttc2.Rd |only matchingMarkets-0.3-6/matchingMarkets/man/ttcc.Rd |only matchingMarkets-0.3-6/matchingMarkets/src/params.cc | 22 matchingMarkets-0.3-6/matchingMarkets/src/runMatch.cpp | 5 matchingMarkets-0.3-6/matchingMarkets/src/stabitSel2.cpp | 4 matchingMarkets-0.3-6/matchingMarkets/vignettes/matching.bib | 75 + 34 files changed, 1228 insertions(+), 488 deletions(-)
More information about matchingMarkets at CRAN
Permanent link
Title: Chi-Square and Exact Tests for Model-Free Functional Dependency
Description: Statistical hypothesis testing methods for
model-free functional dependency using asymptotic
chi-square or exact distributions. Functional chi-squares are
asymmetric and functionally optimal, unique from other related
statistics. Tests in this package reveal evidence for causality
based on the causality-by-functionality principle. They include
asymptotic functional chi-square tests, an exact functional
test, a comparative functional chi-square test, and also a
comparative chi-square test. The normalized non-constant
functional chi-square test was used by Best Performer
NMSUSongLab in HPN-DREAM (DREAM8) Breast Cancer Network
Inference Challenges. For continuous data, these tests offer an
advantage over regression analysis when a parametric functional
form cannot be assumed; for categorical data, they provide a
novel means to assess directional dependency not possible with
symmetrical Pearson's chi-square or Fisher's exact tests.
Author: Yang Zhang [aut],
Hua Zhong [aut],
Ruby Sharma [aut],
Sajal Kumar [aut],
Joe Song [aut, cre]
Maintainer: Joe Song <joemsong@cs.nmsu.edu>
Diff between FunChisq versions 2.4.5-1 dated 2018-06-16 and 2.4.5-2 dated 2018-10-23
DESCRIPTION | 9 +++--- MD5 | 25 ++++++++++------- NAMESPACE | 4 ++ NEWS | 12 ++++++++ R/CondFunChisq.R |only R/plot_table.R |only build/vignette.rds |binary inst/doc/exact.fun.test.html | 4 +- inst/doc/fun.chisq.test.html | 4 +- man/FunChisq-package.Rd | 2 - man/cond.fun.chisq.test.Rd |only man/plot_table.Rd |only tests/testthat/test_FunChisq.R | 50 +---------------------------------- tests/testthat/test_NoiseModel.R | 2 + tests/testthat/test_conditional_FC.R |only tests/testthat/test_simulate.R | 1 16 files changed, 46 insertions(+), 67 deletions(-)
Title: Making Optimal Matching Size-Scalable Using Optimal Calipers
Description: Implements optimal matching with near-fine balance in large observational studies with the use of optimal calipers to get a sparse network. The caliper is optimal in the sense that it is as small as possible such that a matching exists. The main functions in the 'bigmatch' package are optcal() to find the optimal caliper, optconstant() to find the optimal number of nearest neighbors and nfmatch() to find a near-fine balance match with a caliper and a restriction on number of nearest neighbors.
Glover, F. (1967). <DOI:10.1002/nav.3800140304>.
Lipski, W., Jr, and Preparata, F. P. (1981). <DOI:10.1007/BF00264533>.
Rosenbaum, P.R. (1989). <DOI:10.1080/01621459.1989.10478868>.
Yang, D., Small, D. S., Silber, J. H., and Rosenbaum, P. R. (2012). <DOI:10.1111/j.1541-0420.2011.01691.x>.
Author: Ruoqi Yu
Maintainer: Ruoqi Yu <ruoqiyu@wharton.upenn.edu>
Diff between bigmatch versions 0.3.1 dated 2018-07-11 and 0.4.1 dated 2018-10-23
DESCRIPTION | 6 ++-- MD5 | 34 ++++++++++++++-------------- R/check.R | 7 +++++ R/glover.R | 4 --- R/nearfine.R | 17 ++++++++++---- R/netfine.R | 42 ++++++++++++++++++++++++---------- R/nfmatch.R | 45 ++++++++++++++++++++++++++++--------- R/optcal.R | 47 ++++++++++++++++++++++++++------------ R/optconstant.R | 44 +++++++++++++++++++++++------------- R/smahal.R | 33 ++++++++++++++++----------- man/glover.Rd | 14 +++++------ man/nearfine.Rd | 21 ++++++----------- man/netfine.Rd | 13 ++++------ man/nfmatch.Rd | 38 ++++++++++++++----------------- man/nh0506.Rd | 64 ++++++++++++++++++++++++++--------------------------- man/optcal.Rd | 15 ++++++------ man/optconstant.Rd | 21 +++++++++-------- man/smahal.Rd | 19 +++++++++------ 18 files changed, 286 insertions(+), 198 deletions(-)
Title: DBI Connector to Presto
Description: Implements a 'DBI' compliant interface to Presto. Presto is
an open source distributed SQL query engine for running interactive
analytic queries against data sources of all sizes ranging from
gigabytes to petabytes: <https://prestodb.io/>.
Author: Onur Ismail Filiz [aut, cre],
Sergey Goder [aut],
John Myles White [ctb]
Maintainer: Onur Ismail Filiz <onur@fb.com>
Diff between RPresto versions 1.3.1 dated 2018-09-10 and 1.3.2 dated 2018-10-23
RPresto-1.3.1/RPresto/R/src.desc.src.presto.R |only RPresto-1.3.1/RPresto/R/src.translate.env.src.presto.R |only RPresto-1.3.1/RPresto/tests/testthat/test-src_translate_env.R |only RPresto-1.3.2/RPresto/DESCRIPTION | 17 +- RPresto-1.3.2/RPresto/MD5 | 30 ++-- RPresto-1.3.2/RPresto/NAMESPACE | 58 +++++++-- RPresto-1.3.2/RPresto/NEWS.md | 5 RPresto-1.3.2/RPresto/R/copy.to.src.presto.R | 11 + RPresto-1.3.2/RPresto/R/db.data.type.PrestoConnection.R | 11 + RPresto-1.3.2/RPresto/R/db.explain.PrestoConnection.R | 10 + RPresto-1.3.2/RPresto/R/db.query.rows.PrestoConnection.R | 11 + RPresto-1.3.2/RPresto/R/db_desc.PrestoConnection.R | 10 + RPresto-1.3.2/RPresto/R/db_query_fields.R | 10 + RPresto-1.3.2/RPresto/R/sql_translate_env.R | 64 +++++++++- RPresto-1.3.2/RPresto/R/tbl.src.presto.R | 11 + RPresto-1.3.2/RPresto/man/dplyr_function_implementations.Rd | 15 -- RPresto-1.3.2/RPresto/tests/testthat/test-session.timezone.R | 4 RPresto-1.3.2/RPresto/tests/testthat/test-translate_sql.R |only 18 files changed, 202 insertions(+), 65 deletions(-)
Title: Analogue and Weighted Averaging Methods for Palaeoecology
Description: Fits Modern Analogue Technique and Weighted Averaging transfer
function models for prediction of environmental data from species
data, and related methods used in palaeoecology.
Author: Gavin L. Simpson [aut, cre] (<https://orcid.org/0000-0002-9084-8413>),
Jari Oksanen [aut]
Maintainer: Gavin L. Simpson <ucfagls@gmail.com>
Diff between analogue versions 0.17-0 dated 2016-02-28 and 0.17-1 dated 2018-10-23
DESCRIPTION | 16 - MD5 | 57 +-- NAMESPACE | 5 R/Stratiplot.R | 12 R/compare.R | 2 R/join.R | 30 - R/prcurve.R | 6 R/predict.prcurve.R | 4 R/residLen.R | 12 R/smoothGAM.R | 2 R/sppResponse.prcurve.R | 29 + R/timetrack.R | 10 README.md | 10 build/vignette.rds |binary data/Biome.rda |binary data/Climate.rda |binary data/Location.rda |binary data/Pollen.rda |binary inst/CITATION | 10 inst/NEWS | 10 inst/doc/analogue_methods.pdf |binary man/Pollen.Rd | 16 - man/Stratiplot.Rd | 17 + man/prcurve.Rd | 6 man/residuals.prcurve.Rd | 9 man/smoothFuns.Rd | 2 man/timetrack.Rd | 27 + man/wa.Rd | 4 src/init.c |only tests/Examples/analogue-Ex.Rout.save | 537 +++++------------------------------ 30 files changed, 283 insertions(+), 550 deletions(-)