Title: R Interface to Google Fit API
Description: Provides interface to Google Fit REST API v1 (see <https://developers.google.com/fit/rest/v1/reference/>).
Author: Marcin Szymanski
Maintainer: Marcin Szymanski <ms32035@gmail.com>
Diff between RGoogleFit versions 0.2.0 dated 2016-09-20 and 0.3.0 dated 2017-05-24
DESCRIPTION | 8 ++++---- MD5 | 23 ++++++++++++----------- NAMESPACE | 1 + NEWS | 5 +++++ R/GetFitOAuth2Token.R | 29 +++++++++++++++++++++++------ R/RGoogleFit-package.R | 2 ++ man/GetFitDataset.Rd | 1 - man/GetFitDatasource.Rd | 1 - man/GetFitDatasources.Rd | 1 - man/GetFitOauth2Object.Rd |only man/GetFitOauth2Token.Rd | 7 ++++--- man/NanosToPOSIXct.Rd | 1 - man/RGoogleFit-package.Rd | 1 - 13 files changed, 51 insertions(+), 29 deletions(-)
Title: Regularized Generalized Linear Models with Interaction Effects
Description: Provides an efficient procedure for fitting the entire solution
path for high-dimensional regularized quadratic generalized linear models with
interactions effects under the strong or weak heredity constraint.
Author: Yang Feng, Ning Hao and Hao Helen Zhang
Maintainer: Yang Feng <yang.feng@columbia.edu>
Diff between RAMP versions 1.9 dated 2016-12-18 and 2.0.1 dated 2017-05-24
DESCRIPTION | 10 +++++----- MD5 | 13 +++++++------ NAMESPACE | 2 +- R/RAMP.R | 35 ++++++++++++++--------------------- man/RAMP.Rd | 5 ++--- man/predict.RAMP.Rd | 1 - man/print.RAMP.Rd | 1 - src/registerDynamicSymbol.c |only 8 files changed, 29 insertions(+), 38 deletions(-)
Title: Regression Models with Break-Points / Change-Points Estimation
Description: Given a regression model, segmented `updates' the model by adding one or more segmented (i.e., piece-wise linear) relationships. Several variables with multiple breakpoints are allowed.
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 0.5-1.4 dated 2015-11-04 and 0.5-2.0 dated 2017-05-24
DESCRIPTION | 12 ++++----- MD5 | 58 ++++++++++++++++++++++--------------------- NAMESPACE | 3 +- NEWS | 20 ++++++++++++--- R/davies.test.r | 3 +- R/intercept.r | 8 +++--- R/plot.segmented.R | 33 +++++++++++++++---------- R/pscore.test.r |only R/seg.Ar.fit.r | 3 ++ R/seg.control.R | 4 +-- R/seg.def.fit.r | 62 +++++++++++++++++++++++++++++++++++++++++------ R/seg.glm.fit.r | 2 + R/seg.lm.fit.r | 2 + R/segmented.Arima.r | 3 +- R/segmented.default.r | 41 +++++++++++++++++++++++++------ R/segmented.glm.R | 4 ++- R/segmented.lm.R | 37 +++++++++++++++------------- R/slope.R | 2 - data/down.rda |binary data/plant.rda |binary data/stagnant.rda |binary inst/CITATION | 4 +-- man/davies.test.Rd | 5 ++- man/intercept.Rd | 8 +++--- man/plot.segmented.Rd | 11 +++++--- man/points.segmented.Rd | 3 -- man/pscore.test.rd |only man/seg.control.Rd | 3 +- man/segmented-package.Rd | 12 +++++---- man/segmented.Rd | 5 ++- man/slope.Rd | 2 - 31 files changed, 237 insertions(+), 113 deletions(-)
Title: Toolkit for Corpus Analysis
Description: Library for corpus analysis using the Corpus Workbench as an
efficient back end for indexing and querying large corpora. The package offers
functionality to flexibly create partitions and to carry out basic statistical
operations (count, co-occurrences etc.). The original full text of documents
can be reconstructed and inspected at any time. Beyond that, the package is
intended to serve as an interface to packages implementing advanced statistical
procedures. Respective data structures (document term matrices, term co-
occurrence matrices etc.) can be created based on the indexed corpora.
Author: Andreas Blaette
Maintainer: Andreas Blaette <andreas.blaette@uni-due.de>
Diff between polmineR versions 0.7.2 dated 2017-03-24 and 0.7.3 dated 2017-05-24
polmineR-0.7.2/polmineR/R/meta_method.R |only polmineR-0.7.2/polmineR/R/partition_methods.R |only polmineR-0.7.2/polmineR/inst/cgi |only polmineR-0.7.2/polmineR/inst/perl |only polmineR-0.7.2/polmineR/man/cooccurrencesBundle-class.Rd |only polmineR-0.7.2/polmineR/man/meta-method.Rd |only polmineR-0.7.2/polmineR/man/partition-class.Rd |only polmineR-0.7.3/polmineR/DESCRIPTION | 34 - polmineR-0.7.3/polmineR/MD5 | 278 +++++----- polmineR-0.7.3/polmineR/NAMESPACE | 15 polmineR-0.7.3/polmineR/NEWS | 19 polmineR-0.7.3/polmineR/R/adjustEncoding_method.R | 68 +- polmineR-0.7.3/polmineR/R/aggregate_method.R | 2 polmineR-0.7.3/polmineR/R/as.DocumentTermMatrix_method.R | 43 - polmineR-0.7.3/polmineR/R/as.markdown_method.R | 125 ++-- polmineR-0.7.3/polmineR/R/as.speeches_method.R | 35 - polmineR-0.7.3/polmineR/R/blapply_method.R | 247 +++++--- polmineR-0.7.3/polmineR/R/browse_method.R | 2 polmineR-0.7.3/polmineR/R/bundle_class.R | 74 ++ polmineR-0.7.3/polmineR/R/context_method.R | 6 polmineR-0.7.3/polmineR/R/cooccurrences_class.R | 100 +-- polmineR-0.7.3/polmineR/R/cooccurrences_method.R | 54 + polmineR-0.7.3/polmineR/R/corpus_method.R | 13 polmineR-0.7.3/polmineR/R/count_method.R | 146 +++-- polmineR-0.7.3/polmineR/R/cpos_method.R | 7 polmineR-0.7.3/polmineR/R/dispersion_method.R | 2 polmineR-0.7.3/polmineR/R/encoding_method.R | 8 polmineR-0.7.3/polmineR/R/enrich_method.R | 11 polmineR-0.7.3/polmineR/R/freq_method.R | 2 polmineR-0.7.3/polmineR/R/generics.R | 3 polmineR-0.7.3/polmineR/R/getTerms_method.R | 2 polmineR-0.7.3/polmineR/R/getTokenStream_method.R | 2 polmineR-0.7.3/polmineR/R/highlight_method.R | 117 +--- polmineR-0.7.3/polmineR/R/hits_class.R | 5 polmineR-0.7.3/polmineR/R/html_method.R | 25 polmineR-0.7.3/polmineR/R/install.corpus_function.R | 29 + polmineR-0.7.3/polmineR/R/kwic_method.R | 2 polmineR-0.7.3/polmineR/R/label_method.R |only polmineR-0.7.3/polmineR/R/ll_method.R | 26 polmineR-0.7.3/polmineR/R/mail_method.R | 4 polmineR-0.7.3/polmineR/R/ngrams_method.R | 2 polmineR-0.7.3/polmineR/R/pAttributes_method.R | 4 polmineR-0.7.3/polmineR/R/partitionBundle_method.R | 41 - polmineR-0.7.3/polmineR/R/partition_class.R | 161 +++++ polmineR-0.7.3/polmineR/R/partition_method.R | 14 polmineR-0.7.3/polmineR/R/polmineR_package.R | 11 polmineR-0.7.3/polmineR/R/read_method.R | 17 polmineR-0.7.3/polmineR/R/reindex_method.R |only polmineR-0.7.3/polmineR/R/sAttributes_method.R | 83 ++ polmineR-0.7.3/polmineR/R/size_method.R | 60 +- polmineR-0.7.3/polmineR/R/textstat_class.R | 57 +- polmineR-0.7.3/polmineR/R/utils.R | 58 +- polmineR-0.7.3/polmineR/R/view_method.R | 42 - polmineR-0.7.3/polmineR/R/zzz.R | 1 polmineR-0.7.3/polmineR/build/vignette.rds |binary polmineR-0.7.3/polmineR/demo |only polmineR-0.7.3/polmineR/inst/doc/vignette.R | 6 polmineR-0.7.3/polmineR/inst/doc/vignette.Rmd | 11 polmineR-0.7.3/polmineR/inst/doc/vignette.html | 42 - polmineR-0.7.3/polmineR/inst/docker |only polmineR-0.7.3/polmineR/inst/graffle/classAndMethodAnalysis.R |only polmineR-0.7.3/polmineR/inst/graffle/polmineRclassDiagram.graffle |binary polmineR-0.7.3/polmineR/inst/shiny |only polmineR-0.7.3/polmineR/man/CQI.Rd | 6 polmineR-0.7.3/polmineR/man/Corpus-class.Rd | 3 polmineR-0.7.3/polmineR/man/RegistryFile-class.Rd | 3 polmineR-0.7.3/polmineR/man/TermDocumentMatrix.Rd | 1 polmineR-0.7.3/polmineR/man/as.DocumentTermMatrix.Rd | 17 polmineR-0.7.3/polmineR/man/as.markdown.Rd | 1 polmineR-0.7.3/polmineR/man/as.sparseMatrix.Rd | 3 polmineR-0.7.3/polmineR/man/as.speeches-method.Rd | 19 polmineR-0.7.3/polmineR/man/blapply.Rd | 3 polmineR-0.7.3/polmineR/man/browse.Rd | 9 polmineR-0.7.3/polmineR/man/bundle-class.Rd | 50 + polmineR-0.7.3/polmineR/man/chisquare-method.Rd | 3 polmineR-0.7.3/polmineR/man/context-class.Rd | 15 polmineR-0.7.3/polmineR/man/context-method.Rd | 9 polmineR-0.7.3/polmineR/man/contextBundle-class.Rd | 9 polmineR-0.7.3/polmineR/man/cooccurrences-class.Rd | 24 polmineR-0.7.3/polmineR/man/cooccurrences.Rd | 13 polmineR-0.7.3/polmineR/man/cooccurrencesReshaped.Rd | 1 polmineR-0.7.3/polmineR/man/corpus-method.Rd | 13 polmineR-0.7.3/polmineR/man/count-method.Rd | 20 polmineR-0.7.3/polmineR/man/cpos-method.Rd | 3 polmineR-0.7.3/polmineR/man/cqp.Rd | 43 + polmineR-0.7.3/polmineR/man/cqpserver.Rd | 1 polmineR-0.7.3/polmineR/man/decode.Rd | 1 polmineR-0.7.3/polmineR/man/dispersion-class.Rd | 9 polmineR-0.7.3/polmineR/man/dispersion-method.Rd | 10 polmineR-0.7.3/polmineR/man/divide.Rd | 1 polmineR-0.7.3/polmineR/man/dotplot-method.Rd | 3 polmineR-0.7.3/polmineR/man/encode-method.Rd | 1 polmineR-0.7.3/polmineR/man/encoding.Rd | 13 polmineR-0.7.3/polmineR/man/encodings.Rd | 43 - 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polmineR-0.7.3/polmineR/man/partitionBundle-method.Rd | 17 polmineR-0.7.3/polmineR/man/partition_class.Rd |only polmineR-0.7.3/polmineR/man/polmineR-generics.Rd | 6 polmineR-0.7.3/polmineR/man/polmineR-package.Rd | 13 polmineR-0.7.3/polmineR/man/read-method.Rd | 15 polmineR-0.7.3/polmineR/man/registry.Rd | 1 polmineR-0.7.3/polmineR/man/sAttributes-method.Rd | 7 polmineR-0.7.3/polmineR/man/scatterplot-method.Rd | 3 polmineR-0.7.3/polmineR/man/size-method.Rd | 31 + polmineR-0.7.3/polmineR/man/split-partition-method.Rd | 5 polmineR-0.7.3/polmineR/man/tTest.Rd | 1 polmineR-0.7.3/polmineR/man/tempcorpus.Rd | 2 polmineR-0.7.3/polmineR/man/templates.Rd | 3 polmineR-0.7.3/polmineR/man/terms-partition-method.Rd | 3 polmineR-0.7.3/polmineR/man/textstat-class.Rd | 56 +- polmineR-0.7.3/polmineR/man/textstatistics.Rd | 1 polmineR-0.7.3/polmineR/man/trim-method.Rd | 8 polmineR-0.7.3/polmineR/man/use.Rd | 1 polmineR-0.7.3/polmineR/man/view.Rd | 1 polmineR-0.7.3/polmineR/man/weigh-method.Rd | 3 polmineR-0.7.3/polmineR/tests |only polmineR-0.7.3/polmineR/vignettes/vignette.Rmd | 11 141 files changed, 1643 insertions(+), 1143 deletions(-)
Title: Exploring Election and Census Highly Informative Data Nationally
for Australia
Description: Data from the 2013 and 2016 Australian Federal Election (House of
Representatives) and the 2011 Australian Census. Includes tools for
visualizing and analysing the data. This package incorporates
data that is copyright Commonwealth of Australia (Australian
Electoral Commission) 2016.
Author: Di Cook [aut],
Anthony Ebert [aut],
Heike Hofmann [aut],
Rob Hyndman [aut],
Thomas Lumley [aut],
Ben Marwick [aut, cre],
Carson Sievert [aut],
Mingzhu Sun [aut],
Dilini Talagala [aut],
Nicholas Tierney [aut],
Nathaniel Tomasetti [aut],
Earo Wang [aut],
Fang Zhou [aut],
Commonwealth of Australia AEC [cph]
Maintainer: Ben Marwick <benmarwick@gmail.com>
Diff between eechidna versions 0.1 dated 2016-05-23 and 1.1 dated 2017-05-24
eechidna-0.1/eechidna/vignettes/GeneralPollingPlaces2013.csv |only eechidna-0.1/eechidna/vignettes/SenateSenatorsElected2013.csv |only eechidna-1.1/eechidna/DESCRIPTION | 36 - eechidna-1.1/eechidna/MD5 | 125 ++-- eechidna-1.1/eechidna/NAMESPACE | 4 eechidna-1.1/eechidna/R/app.R | 135 +++-- eechidna-1.1/eechidna/R/cartogram.R | 23 eechidna-1.1/eechidna/R/data.R | 267 +++++++++- eechidna-1.1/eechidna/R/global.R | 4 eechidna-1.1/eechidna/R/imports.R | 2 eechidna-1.1/eechidna/R/shapefiles.R | 187 ++++++- eechidna-1.1/eechidna/build/vignette.rds |binary eechidna-1.1/eechidna/data/abs2011.rda |binary eechidna-1.1/eechidna/data/aec2013_2cp.rda |binary eechidna-1.1/eechidna/data/aec2013_2cp_electorate.rda |binary eechidna-1.1/eechidna/data/aec2013_2pp.rda |binary eechidna-1.1/eechidna/data/aec2013_2pp_electorate.rda |binary eechidna-1.1/eechidna/data/aec2013_fp.rda |binary eechidna-1.1/eechidna/data/aec2013_fp_electorate.rda |binary eechidna-1.1/eechidna/data/aec2016_2cp.rda |only eechidna-1.1/eechidna/data/aec2016_2cp_electorate.rda |only eechidna-1.1/eechidna/data/aec2016_2pp.rda |only eechidna-1.1/eechidna/data/aec2016_2pp_electorate.rda |only eechidna-1.1/eechidna/data/aec2016_fp.rda |only eechidna-1.1/eechidna/data/aec2016_fp_electorate.rda |only eechidna-1.1/eechidna/data/datalist | 9 eechidna-1.1/eechidna/data/nat_data_2016.rda |only eechidna-1.1/eechidna/data/nat_data_2016_cart.rda |only eechidna-1.1/eechidna/data/nat_map_2016.rda |only eechidna-1.1/eechidna/inst/doc/exploring-census-data.html | 115 ++-- eechidna-1.1/eechidna/inst/doc/exploring-election-data.R | 4 eechidna-1.1/eechidna/inst/doc/exploring-election-data.Rmd | 12 eechidna-1.1/eechidna/inst/doc/exploring-election-data.html | 135 ++--- eechidna-1.1/eechidna/inst/doc/exploring-election-data2016.R |only eechidna-1.1/eechidna/inst/doc/exploring-election-data2016.Rmd |only eechidna-1.1/eechidna/inst/doc/exploring-election-data2016.html |only eechidna-1.1/eechidna/inst/doc/getting-ozShapefiles.R | 22 eechidna-1.1/eechidna/inst/doc/getting-ozShapefiles.Rmd | 41 + eechidna-1.1/eechidna/inst/doc/getting-ozShapefiles.html | 37 - eechidna-1.1/eechidna/inst/doc/plotting-electorates.html | 12 eechidna-1.1/eechidna/inst/doc/plotting-polling-stns.R | 52 + eechidna-1.1/eechidna/inst/doc/plotting-polling-stns.Rmd | 65 +- eechidna-1.1/eechidna/inst/doc/plotting-polling-stns.html | 42 - eechidna-1.1/eechidna/man/abs2011.Rd | 1 eechidna-1.1/eechidna/man/aec2013_2cp.Rd | 1 eechidna-1.1/eechidna/man/aec2013_2cp_electorate.Rd | 1 eechidna-1.1/eechidna/man/aec2013_2pp.Rd | 1 eechidna-1.1/eechidna/man/aec2013_2pp_electorate.Rd | 1 eechidna-1.1/eechidna/man/aec2013_fp.Rd | 1 eechidna-1.1/eechidna/man/aec2013_fp_electorate.Rd | 1 eechidna-1.1/eechidna/man/aec2016_2cp.Rd |only eechidna-1.1/eechidna/man/aec2016_2cp_electorate.Rd |only eechidna-1.1/eechidna/man/aec2016_2pp.Rd |only eechidna-1.1/eechidna/man/aec2016_2pp_electorate.Rd |only eechidna-1.1/eechidna/man/aec2016_fp.Rd |only eechidna-1.1/eechidna/man/aec2016_fp_electorate.Rd |only eechidna-1.1/eechidna/man/aec_carto_f.Rd | 1 eechidna-1.1/eechidna/man/aec_carto_join_f.Rd | 24 eechidna-1.1/eechidna/man/aec_extract_f.Rd | 1 eechidna-1.1/eechidna/man/circle.Rd | 1 eechidna-1.1/eechidna/man/complete_color.Rd | 1 eechidna-1.1/eechidna/man/dorling.Rd | 1 eechidna-1.1/eechidna/man/download_ShapeFile.Rd |only eechidna-1.1/eechidna/man/getElectorateShapes.Rd | 13 eechidna-1.1/eechidna/man/hexDat.Rd | 1 eechidna-1.1/eechidna/man/launchApp.Rd | 23 eechidna-1.1/eechidna/man/nat_data.Rd | 10 eechidna-1.1/eechidna/man/nat_data_2016.Rd |only eechidna-1.1/eechidna/man/nat_data_2016_cart.Rd |only eechidna-1.1/eechidna/man/nat_data_cart.Rd | 11 eechidna-1.1/eechidna/man/nat_map.Rd | 1 eechidna-1.1/eechidna/man/nat_map_2016.Rd |only eechidna-1.1/eechidna/vignettes/exploring-election-data.Rmd | 12 eechidna-1.1/eechidna/vignettes/exploring-election-data2016.Rmd |only eechidna-1.1/eechidna/vignettes/getting-ozShapefiles.Rmd | 41 + eechidna-1.1/eechidna/vignettes/plotting-polling-stns.Rmd | 65 +- 76 files changed, 1045 insertions(+), 497 deletions(-)
Title: Bayesian Structure Learning in Graphical Models using
Birth-Death MCMC
Description: Provides statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889> and Mohammadi et al. (2017) <doi:10.1111/rssc.12171>. To speed up the computations, the BDMCMC sampling algorithms are implemented in parallel using OpenMP in C++.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi <a.mohammadi@rug.nl>
Diff between BDgraph versions 2.36 dated 2017-04-28 and 2.37 dated 2017-05-24
DESCRIPTION | 10 MD5 | 54 +- NEWS | 21 R/bdgraph.R | 64 +- R/bdgraph.mpl.R | 83 ++- man/BDgraph-package.Rd | 4 man/bdgraph.Rd | 9 man/bdgraph.mpl.Rd | 23 - man/bdgraph.sim.Rd | 7 man/compare.Rd | 2 man/plotroc.Rd | 8 src/Makevars | 8 src/Makevars.win | 4 src/bd_for_ts.cpp | 2 src/copula.cpp | 111 ++-- src/copula.h | 4 src/gcgm_DMH.cpp | 702 ++++++++++-------------------- src/gcgm_bd.cpp | 372 ++++++---------- src/ggm_DMH.cpp | 674 +++++++++-------------------- src/ggm_bd.cpp | 181 ++----- src/ggm_mpl_bd.cpp | 234 +++++----- src/gm_mpl_bd_dis.cpp | 1112 +++++++++++++++++++++++++++++++++++++++++-------- src/gm_rj.cpp | 68 +- src/init.c | 172 +++---- src/matrix.cpp | 161 +++++-- src/matrix.h | 21 src/rgwish.cpp | 34 - src/rgwish.h | 4 28 files changed, 2287 insertions(+), 1862 deletions(-)
Title: Additive and Multiplicative Effects Models for Networks and
Relational Data
Description: Analysis of dyadic network and relational data using additive and
multiplicative effects (AME) models. The basic model includes
regression terms, the covariance structure of the social relations model
(Warner, Kenny and Stoto (1979) <DOI:10.1037/0022-3514.37.10.1742>,
Wong (1982) <DOI:10.2307/2287296>), and multiplicative factor
models (Hoff(2009) <DOI:10.1007/s10588-008-9040-4>).
Four different link functions accommodate different
relational data structures, including binary/network data (bin), normal
relational data (nrm), ordinal relational data (ord) and data from
fixed-rank nomination schemes (frn). Several of these link functions are
discussed in Hoff, Fosdick, Volfovsky and Stovel (2013)
<DOI:10.1017/nws.2013.17>. Development of this
software was supported in part by NIH grant R01HD067509.
Author: Peter Hoff, Bailey Fosdick, Alex Volfovsky, Yanjun He
Maintainer: Peter Hoff <peter.hoff@duke.edu>
Diff between amen versions 1.1 dated 2015-06-26 and 1.3 dated 2017-05-24
DESCRIPTION | 36 +++++++----- MD5 | 138 ++++++++++++++++++++++++------------------------- NAMESPACE | 4 + R/ame.R | 2 R/ame_rep.R | 19 ++++-- R/amen-package.R | 21 +++---- R/rUV_rep_fc.R | 18 ++++-- R/rbeta_ab_rep_fc.R | 23 +++++--- build/vignette.rds |binary inst/doc/amen.Rnw | 8 +- inst/doc/amen.pdf |binary man/IR90s.Rd | 20 +++---- man/Xbeta.Rd | 2 man/YX_bin.Rd | 6 +- man/YX_bin_long.Rd | 6 +- man/YX_cbin.Rd | 6 +- man/YX_frn.Rd | 6 +- man/YX_nrm.Rd | 5 + man/YX_ord.Rd | 4 + man/YX_rrl.Rd | 4 + man/addhealthc3.Rd | 11 +-- man/addhealthc9.Rd | 11 +-- man/addlines.Rd | 12 ++-- man/ame.Rd | 13 ++-- man/ame_rep.Rd | 12 ++-- man/amen-package.Rd | 11 ++- man/circplot.Rd | 13 ++-- man/coldwar.Rd | 12 ++-- man/comtrade.Rd | 22 +++---- man/design_array.Rd | 2 man/dutchcollege.Rd | 18 +++--- man/el2sm.Rd | 8 +- man/gofstats.Rd | 9 ++- man/lazegalaw.Rd | 18 +++--- man/mhalf.Rd | 2 man/netplot.Rd | 7 +- man/plot.ame.Rd | 2 man/rUV_fc.Rd | 2 man/rUV_rep_fc.Rd | 6 +- man/rUV_sym_fc.Rd | 12 ++-- man/rZ_bin_fc.Rd | 2 man/rZ_cbin_fc.Rd | 2 man/rZ_frn_fc.Rd | 2 man/rZ_nrm_fc.Rd | 2 man/rZ_ord_fc.Rd | 2 man/rZ_rrl_fc.Rd | 2 man/raSab_bin_fc.Rd | 2 man/raSab_cbin_fc.Rd | 2 man/raSab_frn_fc.Rd | 2 man/rbeta_ab_fc.Rd | 2 man/rbeta_ab_rep_fc.Rd | 2 man/rmvnorm.Rd | 2 man/rrho_mh.Rd | 2 man/rrho_mh_rep.Rd | 2 man/rs2_fc.Rd | 2 man/rs2_rep_fc.Rd | 2 man/rwish.Rd | 11 ++- man/sampsonmonks.Rd | 12 ++-- man/sheep.Rd | 14 ++-- man/simY_bin.Rd | 2 man/simY_frn.Rd | 2 man/simY_nrm.Rd | 2 man/simY_ord.Rd | 2 man/simY_rrl.Rd | 2 man/simZ.Rd | 2 man/sm2el.Rd | 8 +- man/summary.ame.Rd | 2 man/xnet.Rd | 15 ++--- man/zscores.Rd | 2 vignettes/amen.Rnw | 8 +- 70 files changed, 356 insertions(+), 291 deletions(-)
Title: eXtraction of ENTity
Description: Provides a tool for extracting information (entities and relations between them) in text datasets. It also emphasizes the results exploration with graphical displays. It is a rule-based system and works with hand-made dictionaries and local grammars defined by users. 'x.ent' uses parsing with Perl functions and JavaScript to define user preferences through a browser and R to display and support analysis of the results extracted. Local grammars are defined and compiled with the tool Unitex, a tool developed by University Paris Est that supports multiple languages. See ?xconfig for an introduction.
Author: Nicolas Turenne [aut],
Tien T. Phan [aut, cre]
Maintainer: Tien T. Phan <phantien84@gmail.com>
Diff between x.ent versions 1.1.6 dated 2016-11-30 and 1.1.7 dated 2017-05-24
x.ent-1.1.6/x.ent/R/config.R |only x.ent-1.1.6/x.ent/R/xvenn.R |only x.ent-1.1.6/x.ent/inst/www/js |only x.ent-1.1.6/x.ent/man/save_config.Rd |only x.ent-1.1.6/x.ent/man/xconfig.Rd |only x.ent-1.1.6/x.ent/man/xvenn.Rd |only x.ent-1.1.7/x.ent/DESCRIPTION | 23 +++++++++-------------- x.ent-1.1.7/x.ent/MD5 | 30 +++++++++++------------------- x.ent-1.1.7/x.ent/NAMESPACE | 3 --- x.ent-1.1.7/x.ent/NEWS | 3 +++ x.ent-1.1.7/x.ent/inst/Perl/Main.pl | 5 +++-- x.ent-1.1.7/x.ent/inst/www/config.html | 14 +------------- x.ent-1.1.7/x.ent/man/xdata.Rd | 1 - x.ent-1.1.7/x.ent/man/xhist.Rd | 2 +- x.ent-1.1.7/x.ent/man/xparse.Rd | 2 +- x.ent-1.1.7/x.ent/man/xplot.Rd | 1 - x.ent-1.1.7/x.ent/man/xprop.Rd | 1 - x.ent-1.1.7/x.ent/man/xshow.Rd | 2 +- 18 files changed, 30 insertions(+), 57 deletions(-)
Title: The Wally Calibration Plot for Risk Prediction Models
Description: A prediction model is calibrated if, roughly, for any percentage x we can expect that x subjects out of 100 experience the event among all subjects that have a predicted risk of x%. A calibration plot provides a simple, yet useful, way of assessing the calibration assumption. The Wally plot consists of a sequence of usual calibration plots. Among the plots contained within the sequence, one is the actual calibration plot which has been obtained from the data and the others are obtained from similar simulated data under the calibration assumption. It provides the investigator with a direct visual understanding of the shape and sampling variability that are common under the calibration assumption. The original calibration plot from the data is included randomly among the simulated calibration plots, similarly to a police lineup. If the original calibration plot is not easily identified then the calibration assumption is not contradicted by the data. The method handles the common situations in which the data contain censored observations and occurrences of competing events.
Author: Paul F Blanche <paulfblanche@gmail.com>, Thomas A. Gerds
<tag@biostat.ku.dk>
Maintainer: Paul F. Blanche <paulfblanche@gmail.com>
Diff between wally versions 1.0.8 dated 2017-05-17 and 1.0.9 dated 2017-05-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/AJ-constrained-bootstrap.R | 4 ++-- R/KM-constrained-bootstrap.R | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Simulating Triad Genomewide Genotypes
Description: Simulate genotypes for case-parent triads, case-control, and quantitative trait samples with realistic linkage diequilibrium structure and allele frequency distribution. For studies of epistasis one can simulate models that involve specific SNPs at specific sets of loci, which we will refer to as "pathways". TriadSim generates genotype data by resampling triad genotypes from existing data. The details of the method is described in the manuscript under preparation "Simulating Autosomal Genotypes with Realistic Linkage Disequilibrium and a Spiked in Genetic Effect" Shi, M., Umbach, D.M., Wise A.S., Weinberg, C.R.
Author: Min Shi [aut, cre]
Maintainer: Min Shi <shi2@niehs.nih.gov>
Diff between TriadSim versions 0.0.1 dated 2017-05-12 and 0.1.1 dated 2017-05-24
DESCRIPTION | 6 MD5 | 24 - R/TriadSim_functions.R | 175 ++++---- build/vignette.rds |binary inst/doc/TriadSim.R | 81 +++- inst/doc/TriadSim.Rmd | 92 +++- inst/doc/TriadSim.pdf |binary inst/extdata/pop2_4chr_dad.frq | 824 ++++++++++++++++++++--------------------- inst/extdata/pop2_4chr_mom.frq | 824 ++++++++++++++++++++--------------------- man/TriadSim.Rd | 13 man/get.brks.Rd | 7 man/pick_target.snp.Rd | 12 vignettes/TriadSim.Rmd | 92 +++- 13 files changed, 1168 insertions(+), 982 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data.
Author: Martin Wilson [cre, aut]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 0.1.0 dated 2017-04-26 and 0.2.0 dated 2017-05-24
spant-0.1.0/spant/man/get_def_acq_paras.Rd |only spant-0.1.0/spant/man/set_lcm_path.Rd |only spant-0.1.0/spant/man/set_tqn_path.Rd |only spant-0.2.0/spant/DESCRIPTION | 10 spant-0.2.0/spant/MD5 | 119 +++- spant-0.2.0/spant/NAMESPACE | 38 + spant-0.2.0/spant/NEWS.md | 9 spant-0.2.0/spant/R/analysis.R | 525 ++++++++++++++-------- spant-0.2.0/spant/R/analysis_display.R | 6 spant-0.2.0/spant/R/basis_set.R | 17 spant-0.2.0/spant/R/mol_parameters.R | 9 spant-0.2.0/spant/R/mrs_data_display.R | 175 ++++++- spant-0.2.0/spant/R/mrs_data_io.R | 301 +++++++++++- spant-0.2.0/spant/R/mrs_data_proc.R | 419 +++++++++++++++-- spant-0.2.0/spant/R/pipelines.R |only spant-0.2.0/spant/R/qm_simulation.R | 85 ++- spant-0.2.0/spant/R/spant.R | 87 +++ spant-0.2.0/spant/R/utils.R | 48 +- spant-0.2.0/spant/build/vignette.rds |binary spant-0.2.0/spant/inst/doc/spant-intro.R | 5 spant-0.2.0/spant/inst/doc/spant-intro.Rmd | 5 spant-0.2.0/spant/inst/doc/spant-intro.html | 23 spant-0.2.0/spant/inst/reports |only spant-0.2.0/spant/man/N.Rd |only spant-0.2.0/spant/man/align.Rd | 2 spant-0.2.0/spant/man/apply_water_scaling.Rd |only spant-0.2.0/spant/man/basis2mrs_data.Rd |only spant-0.2.0/spant/man/calc_sd_poly.Rd |only spant-0.2.0/spant/man/check_lcm.Rd |only spant-0.2.0/spant/man/check_tqn.Rd |only spant-0.2.0/spant/man/comb_coils.Rd |only spant-0.2.0/spant/man/combine_metab_ref.Rd |only spant-0.2.0/spant/man/conj.Rd | 4 spant-0.2.0/spant/man/def_N.Rd |only spant-0.2.0/spant/man/def_acq_paras.Rd |only spant-0.2.0/spant/man/def_fs.Rd |only spant-0.2.0/spant/man/def_ft.Rd |only spant-0.2.0/spant/man/def_ref.Rd |only spant-0.2.0/spant/man/dyns.Rd |only spant-0.2.0/spant/man/ecc.Rd | 8 spant-0.2.0/spant/man/est_noise_sd.Rd |only spant-0.2.0/spant/man/fd2td.Rd |only spant-0.2.0/spant/man/fit_mrs.Rd | 15 spant-0.2.0/spant/man/fp_phase.Rd |only spant-0.2.0/spant/man/get_acq_paras.Rd | 4 spant-0.2.0/spant/man/get_fp.Rd |only spant-0.2.0/spant/man/get_metab.Rd |only spant-0.2.0/spant/man/get_ref.Rd |only spant-0.2.0/spant/man/get_td_amp.Rd |only spant-0.2.0/spant/man/get_uncoupled_mol.Rd |only spant-0.2.0/spant/man/hsvd_filt.Rd | 4 spant-0.2.0/spant/man/int_spec.Rd |only spant-0.2.0/spant/man/inv_even_dyns.Rd | 2 spant-0.2.0/spant/man/inv_odd_dyns.Rd | 2 spant-0.2.0/spant/man/mat2mrs_data.Rd |only spant-0.2.0/spant/man/mean_dyn_blocks.Rd |only spant-0.2.0/spant/man/mrs_data2basis.Rd |only spant-0.2.0/spant/man/mrs_data2mat.Rd |only spant-0.2.0/spant/man/phase.Rd | 2 spant-0.2.0/spant/man/read_basis.Rd | 2 spant-0.2.0/spant/man/read_lcm_coord.Rd | 6 spant-0.2.0/spant/man/read_mrs.Rd | 10 spant-0.2.0/spant/man/read_tqn_result.Rd | 2 spant-0.2.0/spant/man/rep_dyn.Rd |only spant-0.2.0/spant/man/seconds.Rd |only spant-0.2.0/spant/man/set_def_acq_paras.Rd | 2 spant-0.2.0/spant/man/set_lcm_cmd.Rd |only spant-0.2.0/spant/man/set_tqn_cmd.Rd |only spant-0.2.0/spant/man/sim_basis.Rd |only spant-0.2.0/spant/man/sim_basis_1h_brain_press.Rd | 11 spant-0.2.0/spant/man/sim_basis_tqn.Rd | 4 spant-0.2.0/spant/man/sim_noise.Rd |only spant-0.2.0/spant/man/sim_resonances.Rd | 6 spant-0.2.0/spant/man/sum_coils.Rd |only spant-0.2.0/spant/man/td2fd.Rd |only spant-0.2.0/spant/man/td_conv_filt.Rd | 2 spant-0.2.0/spant/man/varpro_3_para_opts.Rd |only spant-0.2.0/spant/man/varpro_opts.Rd | 2 spant-0.2.0/spant/man/zf.Rd | 2 spant-0.2.0/spant/man/zf_xy.Rd | 2 spant-0.2.0/spant/vignettes/spant-intro.Rmd | 5 81 files changed, 1548 insertions(+), 432 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp and Paule-Mandel method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression (if R package 'metafor' is installed);
- generalised linear mixed models (if R packages 'metafor', 'lme4', 'numDeriv', and 'BiasedUrn' are installed).
Author: Guido Schwarzer [cre, aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.8-1 dated 2017-03-17 and 4.8-2 dated 2017-05-24
DESCRIPTION | 8 MD5 | 35 +- NAMESPACE | 2 NEWS | 80 ++++ R/calcH.R | 11 R/forest-internal.R | 14 R/forest.meta.R | 830 +++++++++++++++++++++++++++++++++---------------- R/format.p.R | 68 ++-- R/hetcalc.R | 8 R/meta-internal.R | 4 R/print.meta.R | 18 - R/print.summary.meta.R | 45 ++ R/pvalQ.R |only R/settings.meta.R | 8 R/subgroup.R | 4 man/forest.Rd | 61 ++- man/meta-package.Rd | 4 man/metainc.Rd | 34 +- man/print.meta.Rd | 15 19 files changed, 870 insertions(+), 379 deletions(-)
Title: Add Even More Interactivity to Interactive Charts
Description: Like package 'manipulate' does for static graphics, this package
helps to easily add controls like sliders, pickers, checkboxes, etc. that
can be used to modify the input data or the parameters of an interactive
chart created with package 'htmlwidgets'.
Author: Francois Guillem [aut, cre],
RTE [cph],
JJ Allaire [ctb]
Maintainer: Francois Guillem <francois.guillem@rte-france.com>
Diff between manipulateWidget versions 0.5.1 dated 2017-01-27 and 0.6.0 dated 2017-05-24
manipulateWidget-0.5.1/manipulateWidget/man/mwUI.Rd |only manipulateWidget-0.6.0/manipulateWidget/DESCRIPTION | 16 manipulateWidget-0.6.0/manipulateWidget/MD5 | 72 +-- manipulateWidget-0.6.0/manipulateWidget/NAMESPACE | 3 manipulateWidget-0.6.0/manipulateWidget/NEWS.md | 18 manipulateWidget-0.6.0/manipulateWidget/R/controls.R | 127 ++++- manipulateWidget-0.6.0/manipulateWidget/R/controlsUtils.R | 192 +------- manipulateWidget-0.6.0/manipulateWidget/R/manipulateWidget.R | 110 +--- manipulateWidget-0.6.0/manipulateWidget/R/mwControlsUI.R | 13 manipulateWidget-0.6.0/manipulateWidget/R/mwServer.R | 226 ++-------- manipulateWidget-0.6.0/manipulateWidget/R/mwServer_helpers.R |only manipulateWidget-0.6.0/manipulateWidget/R/mwUI.R | 48 -- manipulateWidget-0.6.0/manipulateWidget/R/preprocessControls.R |only manipulateWidget-0.6.0/manipulateWidget/R/zzz.R | 4 manipulateWidget-0.6.0/manipulateWidget/build/vignette.rds |binary manipulateWidget-0.6.0/manipulateWidget/inst/doc/manipulateWidgets.R | 90 +-- manipulateWidget-0.6.0/manipulateWidget/inst/doc/manipulateWidgets.Rmd | 124 +---- manipulateWidget-0.6.0/manipulateWidget/inst/doc/manipulateWidgets.html | 131 ++--- manipulateWidget-0.6.0/manipulateWidget/inst/examples/manipulateWidget.Rmd | 5 manipulateWidget-0.6.0/manipulateWidget/man/combineWidgets-shiny.Rd | 1 manipulateWidget-0.6.0/manipulateWidget/man/combineWidgets.Rd | 1 manipulateWidget-0.6.0/manipulateWidget/man/manipulateWidget-package.Rd | 1 manipulateWidget-0.6.0/manipulateWidget/man/manipulateWidget.Rd | 54 +- manipulateWidget-0.6.0/manipulateWidget/man/mwCheckbox.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwCheckboxGroup.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwControlsUI.Rd | 1 manipulateWidget-0.6.0/manipulateWidget/man/mwDate.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwDateRange.Rd | 14 manipulateWidget-0.6.0/manipulateWidget/man/mwGroup.Rd |only manipulateWidget-0.6.0/manipulateWidget/man/mwNumeric.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwPassword.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwRadio.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwSelect.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwSlider.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/mwText.Rd | 13 manipulateWidget-0.6.0/manipulateWidget/man/staticPlot.Rd | 3 manipulateWidget-0.6.0/manipulateWidget/tests |only manipulateWidget-0.6.0/manipulateWidget/vignettes/kmeans.png |only manipulateWidget-0.6.0/manipulateWidget/vignettes/manipulateWidgets.Rmd | 32 - 39 files changed, 572 insertions(+), 831 deletions(-)
More information about manipulateWidget at CRAN
Permanent link
Title: Analysis and Presentation of Social Scientific Data
Description: This is a collection of tools that the author (Jacob) has written
for the purpose of more efficiently understanding and sharing the results of
(primarily) regression analyses. There are a number of functions focused
specifically on the interpretation and presentation of interactions in linear
models. Just about everything supports models from the survey package.
Author: Jacob A. Long [aut, cre]
Maintainer: Jacob A. Long <long.1377@osu.edu>
Diff between jtools versions 0.4.4 dated 2017-03-26 and 0.4.5 dated 2017-05-24
DESCRIPTION | 8 - MD5 | 61 +++---- NAMESPACE | 8 + NEWS.md | 9 + R/center_lm.R | 6 R/gscale.R | 2 R/interact_plot.R | 82 ++++++++-- R/internal.R | 108 +++++++++++++ R/j_summary.R | 348 +++++++++++++++++++++++++++++++++++++++++--- R/johnson_neyman.R | 2 R/probe_interaction.R | 2 R/scale_lm.R | 4 R/simple_slopes.R | 4 R/theme_apa.R | 2 R/wgttest.R | 2 build/vignette.rds |binary inst/CITATION | 2 inst/doc/interactions.html | 12 - inst/doc/j_summ.html | 8 - inst/doc/svycor.html | 12 - man/center_lm.Rd | 6 man/gscale.Rd | 2 man/interact_plot.Rd | 45 ++++- man/j_summ.Rd | 8 - man/johnson_neyman.Rd | 2 man/probe_interaction.Rd | 2 man/scale_lm.Rd | 4 man/sim_slopes.Rd | 4 man/theme_apa.Rd | 2 man/wgttest.Rd | 2 tests/testthat/test-jsumm.R | 17 ++ tests/testthat/test-misc.R |only 32 files changed, 648 insertions(+), 128 deletions(-)
Title: Antares Results Processing
Description: Process results generated by Antares, a powerful software developed by
RTE to simulate and study electric power systems (more information about
Antares here: <https://antares.rte-france.com>). This package provides
functions to create new columns like net load, load factors, upward and
downward margins or to compute aggregated statistics like economic surpluses
of consumers, producers and sectors.
Author: Francois Guillem [aut, cre],
Jalal-Edine ZAWAM [ctb],
RTE [cph]
Maintainer: Francois Guillem <francois.guillem@rte-france.com>
Diff between antaresProcessing versions 0.10.1 dated 2017-04-20 and 0.10.2 dated 2017-05-24
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 13 +++++++++++++ R/synthesize.R | 6 +++++- README.md | 25 +++++++------------------ tests/testthat/test-synthesize.R | 7 +++++++ 6 files changed, 40 insertions(+), 27 deletions(-)
More information about antaresProcessing at CRAN
Permanent link
Title: Statistical Disclosure Control Methods for Anonymization of
Microdata and Risk Estimation
Description: Data from statistical agencies and other institutions are mostly
confidential. This package can be used for the generation of anonymized
(micro)data, i.e. for the creation of public- and scientific-use files. In
addition, various risk estimation methods are included. Note that the package
includes a graphical user interface that allows to use various methods of this
package.
Author: Matthias Templ, Alexander Kowarik, Bernhard Meindl
Maintainer: Matthias Templ <matthias.templ@gmail.com>
Diff between sdcMicro versions 5.0.1 dated 2017-03-14 and 5.0.2 dated 2017-05-24
DESCRIPTION | 10 MD5 | 202 ++++++++--------- NAMESPACE | 3 NEWS | 10 R/0classes.r | 1 R/GUIfunctions.R | 96 ++++++-- R/LocalRecProg.R | 2 R/aux_functions.r | 4 R/dataGen.r | 2 R/localSuppression.R | 35 +- R/maG.R | 2 R/measure_risk.R | 4 R/pram.R | 2 build/vignette.rds |binary inst/doc/sdcApp.Rmd | 147 ++++++------ inst/doc/sdcApp.html | 162 +++++++------ inst/doc/sdc_guidelines.pdf |binary inst/shiny/sdcApp/controllers/reactive_expressions.R | 12 - inst/shiny/sdcApp/controllers/ui_about.R | 2 inst/shiny/sdcApp/controllers/ui_anonymize.R | 18 - inst/shiny/sdcApp/controllers/ui_export_data.R | 69 +++-- inst/shiny/sdcApp/controllers/ui_import_data.R | 115 +++++++-- inst/shiny/sdcApp/controllers/ui_modify_data.R | 66 ++--- inst/shiny/sdcApp/controllers/ui_results_categorical.R | 4 inst/shiny/sdcApp/controllers/ui_setup_sdc.R | 194 ++++++++-------- inst/shiny/sdcApp/controllers/ui_sidebar_problemInfo.R | 36 +-- inst/shiny/sdcApp/global.R | 12 - inst/shiny/sdcApp/server.R | 81 ++++-- man/CASCrefmicrodata.Rd | 1 man/EIA.Rd | 1 man/LLmodGlobalRisk.Rd | 7 man/LocalRecProg.Rd | 2 man/Tarragona.Rd | 1 man/addGhostVars.Rd | 1 man/addNoise.Rd | 7 man/calcRisks.Rd | 1 man/casc1.Rd | 1 man/createNewID.Rd | 1 man/dRisk.Rd | 7 man/dRiskRMD.Rd | 7 man/dUtility.Rd | 7 man/dataGen.Rd | 9 man/extractManipData.Rd | 1 man/francdat.Rd | 1 man/free1.Rd | 1 man/freq.Rd | 1 man/freqCalc.Rd | 7 man/generateStrata.Rd | 1 man/get.sdcMicroObj.Rd | 1 man/globalRecode.Rd | 7 man/groupAndRename.Rd | 1 man/importProblem.Rd | 1 man/indivRisk.Rd | 9 man/localSupp.Rd | 7 man/localSuppression.Rd | 3 man/mafast.Rd | 7 man/measure_risk.Rd | 11 man/mergeHouseholdData.Rd | 1 man/microData.Rd | 1 man/microaggrGower.Rd | 3 man/microaggregation.Rd | 23 - man/modRisk.Rd | 7 man/nextSdcObj.Rd | 1 man/plot.localSuppression.Rd | 7 man/plot.sdcMicroObj.Rd | 7 man/plotMicro.Rd | 7 man/pram.Rd | 7 man/print.freqCalc.Rd | 7 man/print.indivRisk.Rd | 7 man/print.localSuppression.Rd | 7 man/print.micro.Rd | 7 man/print.modrisk.Rd | 9 man/print.pram.Rd | 7 man/print.sdcMicroObj.Rd | 3 man/print.suda2.Rd | 7 man/rankSwap.Rd | 11 man/readMicrodata.Rd | 3 man/removeDirectID.Rd | 1 man/report.Rd | 1 man/sdcApp.Rd | 1 man/sdcMicro-package.Rd | 13 - man/sdcMicroObj-class.Rd | 6 man/selectHouseholdData.Rd | 1 man/set.sdcMicroObj.Rd | 1 man/show-sdcMicroObj-method.Rd | 1 man/shuffle.Rd | 7 man/subsetMicrodata.Rd | 1 man/suda2.Rd | 21 - man/summary.freqCalc.Rd | 7 man/summary.micro.Rd | 7 man/summary.pram.Rd | 7 man/testdata.Rd | 1 man/topBotCoding.Rd | 7 man/valTable.Rd | 7 man/varToFactor.Rd | 1 man/writeSafeFile.Rd | 4 src/LocalRecProg/kneibmatch.cpp | 2 src/Measure_Risk.h | 2 src/calcSuppInds.cpp | 9 src/gowerD.cpp | 2 src/init.c | 12 - vignettes/sdcApp.Rmd | 147 ++++++------ 102 files changed, 969 insertions(+), 835 deletions(-)
Title: R Interface to Brazilian Central Bank Web Services
Description: The Brazilian Central Bank API delivers many datasets which regard economic
activity, regional economy, international economy, public finances, credit
indicators and many more. For more information please see <http://dadosabertos.bcb.gov.br/>.
These datasets can be accessed through 'rbcb' functions and can be obtained in
different data structures common to R ('tibble', 'data.frame', 'xts', ...).
Author: Wilson Freitas <wilson.freitas@gmail.com>
Maintainer: Wilson Freitas <wilson.freitas@gmail.com>
Diff between rbcb versions 0.1.0 dated 2017-03-22 and 0.1.1 dated 2017-05-24
DESCRIPTION | 6 +++--- MD5 | 14 ++++++++------ NEWS |only R/rbcb_get_series.R | 2 +- R/rbcb_url.R | 6 ++++-- README.md | 3 +++ tests/testthat/test-currencies.R | 6 ++++++ tests/testthat/test-get_series.R |only tests/testthat/test-url.R | 10 ++++++++-- 9 files changed, 33 insertions(+), 14 deletions(-)
Title: Functional Rarity Indices Computation
Description: Computes functional rarity indices as proposed by Violle et al.
(2017) <doi:10.1016/j.tree.2017.02.002>. Various indices can be computed
using both regional and local information. Functional Rarity combines both
the functional aspect of rarity as well as the extent aspect of rarity.
Author: Matthias Grenié [aut, cre],
Pierre Denelle [aut],
Caroline Tucker [aut]
Maintainer: Matthias Grenié <matthias.grenie@gmail.com>
Diff between funrar versions 1.0.3 dated 2017-05-05 and 1.1.0 dated 2017-05-24
funrar-1.0.3/funrar/man/make_absolute.Rd |only funrar-1.1.0/funrar/DESCRIPTION | 6 funrar-1.1.0/funrar/MD5 | 93 - funrar-1.1.0/funrar/NAMESPACE | 48 funrar-1.1.0/funrar/NEWS.md | 34 funrar-1.1.0/funrar/R/check_functions.R | 504 +++--- funrar-1.1.0/funrar/R/compute_dist_matrix.R | 152 + funrar-1.1.0/funrar/R/distinctiveness.R | 537 +++--- funrar-1.1.0/funrar/R/funrar.R | 230 +- funrar-1.1.0/funrar/R/make_relative.R | 191 +- funrar-1.1.0/funrar/R/rarity_dimensions.R |only funrar-1.1.0/funrar/R/restrictedness.R | 273 +-- funrar-1.1.0/funrar/R/scarcity.R | 338 ++-- funrar-1.1.0/funrar/R/stack_matrix.R | 313 +-- funrar-1.1.0/funrar/R/uniqueness.R | 286 +-- funrar-1.1.0/funrar/README.md | 88 - funrar-1.1.0/funrar/build/vignette.rds |binary funrar-1.1.0/funrar/inst/doc/rarity_indices.R | 324 +-- funrar-1.1.0/funrar/inst/doc/rarity_indices.Rmd | 700 ++++---- funrar-1.1.0/funrar/inst/doc/rarity_indices.html | 1138 +++++++------- funrar-1.1.0/funrar/inst/doc/sparse_matrices.R | 186 +- funrar-1.1.0/funrar/inst/doc/sparse_matrices.Rmd | 320 +-- funrar-1.1.0/funrar/inst/doc/sparse_matrices.html | 472 ++--- funrar-1.1.0/funrar/man/compute_dist_matrix.Rd | 124 - funrar-1.1.0/funrar/man/distinctiveness.Rd | 146 - funrar-1.1.0/funrar/man/distinctiveness_com.Rd | 93 - funrar-1.1.0/funrar/man/distinctiveness_stack.Rd | 126 - funrar-1.1.0/funrar/man/funrar.Rd | 92 - funrar-1.1.0/funrar/man/funrar_stack.Rd | 101 - funrar-1.1.0/funrar/man/is_relative.Rd | 62 funrar-1.1.0/funrar/man/make_relative.Rd | 46 funrar-1.1.0/funrar/man/matrix_to_stack.Rd | 92 - funrar-1.1.0/funrar/man/rarity_dimensions.Rd |only funrar-1.1.0/funrar/man/restrictedness.Rd | 109 - funrar-1.1.0/funrar/man/restrictedness_stack.Rd | 87 - funrar-1.1.0/funrar/man/scarcity.Rd | 104 - funrar-1.1.0/funrar/man/scarcity_com.Rd | 78 funrar-1.1.0/funrar/man/scarcity_stack.Rd | 105 - funrar-1.1.0/funrar/man/stack_to_matrix.Rd | 85 - funrar-1.1.0/funrar/man/uniqueness.Rd | 122 - funrar-1.1.0/funrar/man/uniqueness_stack.Rd | 102 - funrar-1.1.0/funrar/tests/testthat.R | 8 funrar-1.1.0/funrar/tests/testthat/test-check_functions.R | 350 ++-- funrar-1.1.0/funrar/tests/testthat/test-dist_matrix.R | 255 +-- funrar-1.1.0/funrar/tests/testthat/test-rarity_indices.R | 605 +++---- funrar-1.1.0/funrar/tests/testthat/test-rel_abund.R | 174 +- funrar-1.1.0/funrar/tests/testthat/test-tidy_matrix.R | 313 +-- funrar-1.1.0/funrar/vignettes/rarity_indices.Rmd | 700 ++++---- funrar-1.1.0/funrar/vignettes/sparse_matrices.Rmd | 320 +-- 49 files changed, 5391 insertions(+), 5241 deletions(-)
Title: Optimum Contribution Selection and Population Genetics
Description: A framework for the optimization of breeding programs via optimum contribution selection and mate allocation. An easy to use set of function for computation of optimum contributions of selection candidates, and of the population genetic parameters to be optimized. These parameters can be estimated using pedigree or genotype information, and include kinships, kinships at native haplotype segments, and breed composition of crossbred individuals. They are suitable for managing genetic diversity, removing introgressed genetic material, and accelerating genetic gain. Additionally, functions are provided for computing genetic contributions from ancestors, inbreeding coefficients, the native effective size, the native genome equivalent, pedigree completeness, and for preparing and plotting pedigrees.
Author: Robin Wellmann
Maintainer: Robin Wellmann <r.wellmann@uni-hohenheim.de>
Diff between optiSel versions 0.8.1 dated 2017-04-25 and 0.9 dated 2017-05-24
DESCRIPTION | 12 ++-- MD5 | 68 ++++++++++++----------- NAMESPACE | 4 + R/RcppExports.R | 4 - R/genecont.R | 17 ++++- R/matings.R |only R/opticont.R | 9 ++- R/plot.HaploFreq.R | 14 ++-- R/prePed.R | 1 R/sampleIndiv.R |only R/segIBDatN.R | 4 - build/partial.rdb |binary data/Cattle.rda |binary inst/doc/ocs-vignette.R | 7 ++ inst/doc/ocs-vignette.Rmd | 17 +++++ inst/doc/ocs-vignette.html | 96 +++++++++++++++++++------------- inst/doc/ped-vignette.html | 4 - inst/doc/ped-vignette_files |only inst/doc/seg-vignette.Rmd | 4 - inst/doc/seg-vignette.html | 26 ++++---- man/Cattle.Rd | 2 man/matings.Rd |only man/optiSel-package.Rd | 5 + man/opticont.Rd | 12 ++-- man/opticont4mb.Rd | 117 ++++++---------------------------------- man/plot.HaploFreq.Rd | 21 ++++--- man/sampleIndiv.Rd |only src/RcppExports.cpp | 9 ++- src/init.c | 2 src/rcpp_completeness.cpp | 2 src/rcpp_genecont.cpp | 71 +++++++++++++++++++----- src/rcpp_segIBD.cpp | 8 +- src/rcpp_segIBDandN.cpp | 10 +-- src/rcpp_segIBDandNVersion2.cpp | 10 +-- src/rcpp_segN.cpp | 6 +- vignettes/ocs-vignette.Rmd | 17 +++++ vignettes/seg-vignette.Rmd | 4 - 37 files changed, 316 insertions(+), 267 deletions(-)
Title: Pathway and Gene-Level Association Test
Description: Pathway and gene level association test using raw data or summary statistics.
Author: Han Zhang, Bill Wheeler, Kai Yu, Yifan Yang, R Core Team
Maintainer: Han Zhang <han.zhang2@nih.gov>
Diff between ARTP2 versions 0.9.30 dated 2016-07-11 and 0.9.32 dated 2017-05-24
ARTP2-0.9.30/ARTP2/src/Makevars |only ARTP2-0.9.30/ARTP2/src/artp2.cpp |only ARTP2-0.9.30/ARTP2/src/test.cpp |only ARTP2-0.9.32/ARTP2/DESCRIPTION | 12 +++--- ARTP2-0.9.32/ARTP2/MD5 | 46 +++++++++++++----------- ARTP2-0.9.32/ARTP2/NAMESPACE | 2 - ARTP2-0.9.32/ARTP2/R/artp2.R | 2 - ARTP2-0.9.32/ARTP2/R/extract.reference.allele.R | 14 ++++++- ARTP2-0.9.32/ARTP2/R/load.summary.files.R | 5 ++ ARTP2-0.9.32/ARTP2/R/load.summary.statistics.R | 3 + ARTP2-0.9.32/ARTP2/R/recover.stat.R | 4 ++ ARTP2-0.9.32/ARTP2/R/test.R | 2 - ARTP2-0.9.32/ARTP2/cleanup |only ARTP2-0.9.32/ARTP2/configure |only ARTP2-0.9.32/ARTP2/configure.ac |only ARTP2-0.9.32/ARTP2/data/data.rda |binary ARTP2-0.9.32/ARTP2/data/geno.rda |binary ARTP2-0.9.32/ARTP2/data/pathway.rda |binary ARTP2-0.9.32/ARTP2/data/ref.geno.rda |binary ARTP2-0.9.32/ARTP2/data/subj.id.rda |binary ARTP2-0.9.32/ARTP2/man/meta.Rd | 2 - ARTP2-0.9.32/ARTP2/man/rARTP.Rd | 22 ++++++++++- ARTP2-0.9.32/ARTP2/man/sARTP.Rd | 22 +++++++---- ARTP2-0.9.32/ARTP2/man/warm.start.Rd | 2 + ARTP2-0.9.32/ARTP2/src/ARTP2_init.c |only ARTP2-0.9.32/ARTP2/src/Makevars.in |only ARTP2-0.9.32/ARTP2/src/artp2_main.cpp |only ARTP2-0.9.32/ARTP2/src/test_c.cpp |only ARTP2-0.9.32/ARTP2/src/util.h | 2 - 29 files changed, 97 insertions(+), 43 deletions(-)
Title: Spatial Designs for Ecological and Environmental Surveys
Description: Provides spatially balanced designs from a set of (contiguous) potential sampling locations in a study region. Accommodates , without detrimental effects on spatial balance, sites that the researcher wishes to include in the survey for reasons other than the current randomisation (legacy sites).
Author: Scott D. Foster
Maintainer: Scott Foster <scott.foster@csiro.au>
Diff between MBHdesign versions 1.0.61 dated 2016-11-22 and 1.0.63 dated 2017-05-24
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/MBHdesign.R | 26 ++++++++++++++++++-------- R/sysdata.rda |binary build/vignette.rds |binary inst/doc/MBHdesign.pdf |binary man/alterInclProbs.Rd | 4 +++- man/modEsti.Rd | 5 ++++- man/quasiSamp.Rd | 7 ++++--- 9 files changed, 40 insertions(+), 24 deletions(-)
Title: Multivariate Normal Functions for Sparse Covariance and
Precision Matrices
Description: Computes multivariate normal (MVN) densities, and
samples from MVN distributions, when the covariance or
precision matrix is sparse.
Author: Michael Braun [aut, cre, cph]
Maintainer: Michael Braun <braunm@smu.edu>
Diff between sparseMVN versions 0.2.0 dated 2015-02-05 and 0.2.1 dated 2017-05-24
sparseMVN-0.2.0/sparseMVN/R/sparseMVN-package.R |only sparseMVN-0.2.0/sparseMVN/inst/doc/sparseMVN-demo.R |only sparseMVN-0.2.0/sparseMVN/inst/doc/sparseMVN-demo.Rmd |only sparseMVN-0.2.0/sparseMVN/inst/doc/sparseMVN-demo.html |only sparseMVN-0.2.0/sparseMVN/inst/doc/timing.Rmd |only sparseMVN-0.2.0/sparseMVN/inst/doc/timing.pdf |only sparseMVN-0.2.0/sparseMVN/inst/examples |only sparseMVN-0.2.0/sparseMVN/vignettes/sparseMVN-demo.Rmd |only sparseMVN-0.2.0/sparseMVN/vignettes/timing.Rmd |only sparseMVN-0.2.0/sparseMVN/vignettes/timing.html |only sparseMVN-0.2.1/sparseMVN/DESCRIPTION | 23 ++- sparseMVN-0.2.1/sparseMVN/MD5 | 39 ++--- sparseMVN-0.2.1/sparseMVN/NAMESPACE | 8 + sparseMVN-0.2.1/sparseMVN/NEWS | 5 sparseMVN-0.2.1/sparseMVN/R/binary.R |only sparseMVN-0.2.1/sparseMVN/R/rmvn-sparse.R | 10 - sparseMVN-0.2.1/sparseMVN/R/sparseMVN.R |only sparseMVN-0.2.1/sparseMVN/build/vignette.rds |binary sparseMVN-0.2.1/sparseMVN/inst/doc/replication.R |only sparseMVN-0.2.1/sparseMVN/inst/doc/runtimes.Rdata |only sparseMVN-0.2.1/sparseMVN/inst/doc/sparseMVN.R |only sparseMVN-0.2.1/sparseMVN/inst/doc/sparseMVN.Rnw |only sparseMVN-0.2.1/sparseMVN/inst/doc/sparseMVN.bib |only sparseMVN-0.2.1/sparseMVN/inst/doc/sparseMVN.pdf |only sparseMVN-0.2.1/sparseMVN/man/binary.Rd |only sparseMVN-0.2.1/sparseMVN/man/rmvn.sparse.Rd | 65 ++++----- sparseMVN-0.2.1/sparseMVN/man/sparseMVN-package.Rd | 22 +-- sparseMVN-0.2.1/sparseMVN/vignettes/.install_extras |only sparseMVN-0.2.1/sparseMVN/vignettes/replication.R |only sparseMVN-0.2.1/sparseMVN/vignettes/runtimes.Rdata |only sparseMVN-0.2.1/sparseMVN/vignettes/sparseMVN.Rnw |only sparseMVN-0.2.1/sparseMVN/vignettes/sparseMVN.bib | 114 +++++++---------- 32 files changed, 143 insertions(+), 143 deletions(-)
Title: Bi-Directional Interface Between R and Scala with Callbacks
Description: The Scala <http://www.scala-lang.org/> interpreter is embedded in R and callbacks to R from the embedded interpreter are supported. Conversely, the R interpreter is embedded in Scala. Scala versions in the 2.10.x, 2.11.x, and 2.12.x series are supported.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between rscala versions 2.1.1 dated 2017-05-11 and 2.2.0 dated 2017-05-24
rscala-2.1.1/rscala/inst/java/rscala_2.10-2.1.1.jar |only rscala-2.1.1/rscala/inst/java/rscala_2.11-2.1.1.jar |only rscala-2.1.1/rscala/inst/java/rscala_2.12-2.1.1.jar |only rscala-2.2.0/rscala/DESCRIPTION | 8 +-- rscala-2.2.0/rscala/MD5 | 18 +++--- rscala-2.2.0/rscala/NEWS | 12 ++++ rscala-2.2.0/rscala/R/rServer.R | 6 -- rscala-2.2.0/rscala/R/scala.R | 52 +++++++++++--------- rscala-2.2.0/rscala/inst/java/scala-2.10 |only rscala-2.2.0/rscala/inst/java/scala-2.11 |only rscala-2.2.0/rscala/inst/java/scala-2.12 |only rscala-2.2.0/rscala/java/rscala-sources.jar |binary rscala-2.2.0/rscala/man/constructor.Rd | 34 ++++++------- 13 files changed, 75 insertions(+), 55 deletions(-)
Title: Distance Weighted Discrimination (DWD) and Kernel Methods
Description: A novel implementation that solves the linear distance weighted discrimination and the kernel distance weighted discrimination.
Author: Boxiang Wang <boxiang@umn.edu>, Hui Zou <hzou@stat.umn.edu>
Maintainer: Boxiang Wang <boxiang@umn.edu>
Diff between kerndwd versions 1.1.2 dated 2015-10-01 and 2.0.0 dated 2017-05-24
kerndwd-1.1.2/kerndwd/src/kdwd.f90 |only kerndwd-1.1.2/kerndwd/src/klum.f90 |only kerndwd-1.1.2/kerndwd/src/ldwd.f90 |only kerndwd-1.1.2/kerndwd/src/llum.f90 |only kerndwd-1.1.2/kerndwd/src/wkdwd.f90 |only kerndwd-1.1.2/kerndwd/src/wklum.f90 |only kerndwd-1.1.2/kerndwd/src/wldwd.f90 |only kerndwd-1.1.2/kerndwd/src/wllum.f90 |only kerndwd-2.0.0/kerndwd/DESCRIPTION | 10 kerndwd-2.0.0/kerndwd/MD5 | 42 - kerndwd-2.0.0/kerndwd/NAMESPACE | 16 kerndwd-2.0.0/kerndwd/R/cv.kerndwd.R | 47 - kerndwd-2.0.0/kerndwd/R/kerndwd.R | 296 ---------- kerndwd-2.0.0/kerndwd/R/kernels.R | 773 --------------------------- kerndwd-2.0.0/kerndwd/R/predict.kerndwd.R | 6 kerndwd-2.0.0/kerndwd/R/tunedwd.R |only kerndwd-2.0.0/kerndwd/R/utilities.R | 20 kerndwd-2.0.0/kerndwd/man/cv.kerndwd.Rd | 20 kerndwd-2.0.0/kerndwd/man/dots.Rd | 16 kerndwd-2.0.0/kerndwd/man/kerndwd-package.Rd | 15 kerndwd-2.0.0/kerndwd/man/kerndwd.Rd | 58 -- kerndwd-2.0.0/kerndwd/man/plot.cv.kerndwd.Rd | 10 kerndwd-2.0.0/kerndwd/man/plot.kerndwd.Rd | 8 kerndwd-2.0.0/kerndwd/man/predict.kerndwd.Rd | 10 kerndwd-2.0.0/kerndwd/man/tunedwd.Rd |only kerndwd-2.0.0/kerndwd/src/dwd.f90 |only kerndwd-2.0.0/kerndwd/src/gdwd.f90 |only kerndwd-2.0.0/kerndwd/src/init.c |only kerndwd-2.0.0/kerndwd/src/wdwd.f90 |only 29 files changed, 146 insertions(+), 1201 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-10-08 1.0