Title: Simple Variable Treatment
Description: A data.frame processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner.
Prepares variables so that data has fewer exceptional cases, making
it easier to safely use models in production. Common problems 'vtreat' defends
against: Inf, NA, too many categorical levels, rare categorical levels, new
categorical levels (levels seen during application, but not during training).
'vtreat::prepare' should be used as you would use 'model.matrix'.
Author: John Mount, Nina Zumel
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 0.5.23 dated 2016-04-29 and 0.5.25 dated 2016-05-03
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Title: Network Visualization using 'vis.js' Library
Description: Provides an R interface to the 'vis.js' JavaScript charting
library. It allows an interactive visualization of networks.
Author: Almende B.V. [aut, cph] (vis.js library in htmlwidgets/lib,
http://visjs.org, http://www.almende.com/home),
Benoit Thieurmel [aut, cre] (R interface)
Maintainer: Benoit Thieurmel <benoit.thieurmel@datastorm.fr>
Diff between visNetwork versions 0.2.1 dated 2016-01-31 and 1.0.0 dated 2016-05-03
visNetwork-0.2.1/visNetwork/inst/doc/css/tipuesearch.css |only visNetwork-0.2.1/visNetwork/inst/doc/js/jquery.highlight.js |only visNetwork-0.2.1/visNetwork/inst/doc/js/jquery.url.min.js |only visNetwork-0.2.1/visNetwork/inst/doc/js/main.js |only visNetwork-0.2.1/visNetwork/inst/doc/js/tipuesearch.config.js |only visNetwork-0.2.1/visNetwork/inst/doc/js/tipuesearch.js |only visNetwork-0.2.1/visNetwork/inst/doc/js/tipuesearch.min.js |only visNetwork-0.2.1/visNetwork/inst/htmlwidgets/lib/font-awesome/css/font-awesome.css |only visNetwork-0.2.1/visNetwork/inst/htmlwidgets/lib/font-awesome/font-awesome.min.css |only visNetwork-0.2.1/visNetwork/man/visNetworkProxy.Rd |only visNetwork-1.0.0/visNetwork/DESCRIPTION | 20 visNetwork-1.0.0/visNetwork/LICENSE | 2 visNetwork-1.0.0/visNetwork/MD5 | 351 visNetwork-1.0.0/visNetwork/NAMESPACE | 13 visNetwork-1.0.0/visNetwork/NEWS | 27 visNetwork-1.0.0/visNetwork/R/dependencies.R | 59 visNetwork-1.0.0/visNetwork/R/visClustering.R | 4 visNetwork-1.0.0/visNetwork/R/visConfigure.R | 2 visNetwork-1.0.0/visNetwork/R/visDocumentation.R | 6 visNetwork-1.0.0/visNetwork/R/visEdges.R | 6 visNetwork-1.0.0/visNetwork/R/visFit.R | 2 visNetwork-1.0.0/visNetwork/R/visFocus.R | 2 visNetwork-1.0.0/visNetwork/R/visGetPositions.R | 4 visNetwork-1.0.0/visNetwork/R/visGroups.R | 7 visNetwork-1.0.0/visNetwork/R/visHierarchicalLayout.R | 17 visNetwork-1.0.0/visNetwork/R/visIgraph.R | 34 visNetwork-1.0.0/visNetwork/R/visIgraphLayout.R | 34 visNetwork-1.0.0/visNetwork/R/visInteraction.R | 2 visNetwork-1.0.0/visNetwork/R/visLayout.R | 2 visNetwork-1.0.0/visNetwork/R/visLegend.R | 42 visNetwork-1.0.0/visNetwork/R/visMoveNode.R |only visNetwork-1.0.0/visNetwork/R/visNetwork.R | 80 visNetwork-1.0.0/visNetwork/R/visNetworkProxy.R | 70 visNetwork-1.0.0/visNetwork/R/visNodes.R | 7 visNetwork-1.0.0/visNetwork/R/visOptions.R | 145 visNetwork-1.0.0/visNetwork/R/visPhysics.R | 2 visNetwork-1.0.0/visNetwork/R/visRedraw.R | 4 visNetwork-1.0.0/visNetwork/R/visRemoveEdges.R |only visNetwork-1.0.0/visNetwork/R/visRemoveNodes.R |only visNetwork-1.0.0/visNetwork/R/visSelectEdges.R |only visNetwork-1.0.0/visNetwork/R/visSelectNodes.R |only visNetwork-1.0.0/visNetwork/R/visSetData.R | 4 visNetwork-1.0.0/visNetwork/R/visSetOptions.R |only visNetwork-1.0.0/visNetwork/R/visSetSelection.R |only visNetwork-1.0.0/visNetwork/R/visStabilize.R | 2 visNetwork-1.0.0/visNetwork/R/visUnselectAll.R |only visNetwork-1.0.0/visNetwork/R/visUpdateEdges.R |only visNetwork-1.0.0/visNetwork/R/visUpdateNodes.R |only visNetwork-1.0.0/visNetwork/README.md | 14 visNetwork-1.0.0/visNetwork/inst/doc/Introduction-to-visNetwork.R | 17 visNetwork-1.0.0/visNetwork/inst/doc/Introduction-to-visNetwork.Rmd | 27 visNetwork-1.0.0/visNetwork/inst/doc/Introduction-to-visNetwork.html | 250 visNetwork-1.0.0/visNetwork/inst/doc/css/bootstrap-theme.css | 940 visNetwork-1.0.0/visNetwork/inst/doc/css/bootstrap-theme.min.css | 8 visNetwork-1.0.0/visNetwork/inst/doc/css/bootstrap.css |12664 +++++----- visNetwork-1.0.0/visNetwork/inst/doc/css/bootstrap.min.css | 8 visNetwork-1.0.0/visNetwork/inst/doc/css/carousel.css | 282 visNetwork-1.0.0/visNetwork/inst/doc/css/prettify.css | 172 visNetwork-1.0.0/visNetwork/inst/doc/css/style.css | 476 visNetwork-1.0.0/visNetwork/inst/doc/js/bootstrap.js | 4640 +-- visNetwork-1.0.0/visNetwork/inst/doc/js/bootstrap.min.js | 12 visNetwork-1.0.0/visNetwork/inst/doc/js/docs.min.js | 50 visNetwork-1.0.0/visNetwork/inst/doc/js/googleAnalytics.js | 28 visNetwork-1.0.0/visNetwork/inst/doc/js/ie-emulation-modes-warning.js | 102 visNetwork-1.0.0/visNetwork/inst/doc/js/ie10-viewport-bug-workaround.js | 44 visNetwork-1.0.0/visNetwork/inst/doc/js/jquery.min.js | 8 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-apollo.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-css.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-hs.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-lisp.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-lua.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-ml.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-scala.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-sql.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-vb.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-vhdl.js | 4 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-wiki.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/lang-yaml.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/prettify/prettify.js | 64 visNetwork-1.0.0/visNetwork/inst/doc/js/smooth-scroll.min.js | 2 visNetwork-1.0.0/visNetwork/inst/doc/js/toggleTable.js | 160 visNetwork-1.0.0/visNetwork/inst/doc/network/configure.html | 386 visNetwork-1.0.0/visNetwork/inst/doc/network/edges.html | 1403 - 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Title: Variance Estimation for Sample Surveys by the Ultimate Cluster
Method
Description: Generation of domain variables, linearisation of several nonlinear population statistics (the ratio of two totals, weighted income percentile, relative median income ratio, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, the aggregate replacement ratio, the relative median income ratio, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow, 1953), variance estimation for longitudinal, cross-sectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y.G.). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre],
Martins Liberts [aut],
Santa Ivanova [aut]
Maintainer: Juris Breidaks <Juris.Breidaks@csb.gov.lv>
Diff between vardpoor versions 0.5.9 dated 2016-04-07 and 0.6.0 dated 2016-05-03
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/vardom.R | 4 ++-- R/vardom_othstr.R | 3 +-- R/vardomh.R | 3 +-- R/varpoord.R | 4 +--- inst/CITATION | 4 ++-- inst/NEWS | 7 +++++++ man/vardom.Rd | 6 +++--- man/vardom_othstr.Rd | 9 ++++----- man/vardomh.Rd | 21 ++++++++++----------- man/vardpoor-package.Rd | 4 ++-- man/varpoord.Rd | 19 +++++++++---------- 13 files changed, 58 insertions(+), 58 deletions(-)
Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut],
Kurt Hornik [aut, cre],
Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tseries versions 0.10-34 dated 2015-02-20 and 0.10-35 dated 2016-05-03
ChangeLog | 18 ++++++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- R/finance.R | 2 +- R/test.R | 10 +++++----- data/NelPlo.rda |binary data/USeconomic.rda |binary data/bev.rda |binary data/camp.rda |binary data/ice.river.rda |binary data/nino.rda |binary data/tcm.rda |binary data/tcmd.rda |binary inst/CITATION | 2 +- man/get.hist.quote.Rd | 6 +++--- 15 files changed, 46 insertions(+), 28 deletions(-)
Title: Enhanced Tipping Point Displays the Results of Sensitivity
Analyses for Missing Data
Description: Using the idea of "tipping point" (proposed in
Gregory Campbell, Gene Pennello and Lilly Yue(2011)
<DOI:10.1080/10543406.2011.550094>) to visualize the results
of sensitivity analysis for missing data, the package provides
a set of functions to list out all the possible combinations
of the values of missing data in two treatment arms, calculate
corresponding estimated treatment effects and p values and draw
a colored heat-map to visualize them. It could deal with randomized
experiments with a binary outcome or a continuous outcome. In addition,
the package provides a visualized method to compare various imputation
methods by adding the rectangles or convex hulls on the basic plot.
Author: Shengjie Zhang <zhangshengjie@mrbc-nccd.com>,
Xikun Han <hanxikun2014@163.com> and
Victoria Liublinska <vliublin@g.harvard.edu>
Maintainer: Xikun Han <hanxikun2014@163.com>
Diff between TippingPoint versions 1.0.0 dated 2016-05-02 and 1.1.0 dated 2016-05-03
TippingPoint-1.0.0/TippingPoint/src |only TippingPoint-1.1.0/TippingPoint/DESCRIPTION | 11 +++----- TippingPoint-1.1.0/TippingPoint/MD5 | 17 ++++++------- TippingPoint-1.1.0/TippingPoint/NAMESPACE | 1 TippingPoint-1.1.0/TippingPoint/NEWS | 4 +++ TippingPoint-1.1.0/TippingPoint/R/TippingPoint.R | 2 - TippingPoint-1.1.0/TippingPoint/inst/doc/TippingPoint.R | 3 -- TippingPoint-1.1.0/TippingPoint/inst/doc/TippingPoint.Rmd | 3 -- TippingPoint-1.1.0/TippingPoint/inst/doc/TippingPoint.html | 14 +++++----- TippingPoint-1.1.0/TippingPoint/vignettes/TippingPoint.Rmd | 3 -- 10 files changed, 28 insertions(+), 30 deletions(-)
Title: Time Series from S-PLUS
Description: A collection of classes and methods for working with time series.
The code was originally available in S-PLUS.
Author: TIBCO Software Inc.
Maintainer: Stephen Kaluzny <skaluzny@tibco.com>
Diff between splusTimeSeries versions 1.5.0-73 dated 2013-09-10 and 1.5.0-74 dated 2016-05-03
DESCRIPTION | 14 +- LICENSE | 26 ---- MD5 | 26 ++-- NAMESPACE | 255 +++++++++++++++++++++++------------------------ R/ordered.R | 27 ++++ man/class.signal.Rd | 2 man/class.time.series.Rd | 2 man/djia.Rd | 7 - man/fed.rate.Rd | 2 man/tbauc.Rd | 2 man/tcm.curve.Rd | 3 man/timeseries.Rd | 2 tests/signalTests.t | 4 tests/timeSeriesTests.t | 6 + 14 files changed, 200 insertions(+), 178 deletions(-)
More information about splusTimeSeries at CRAN
Permanent link
Title: Times and Dates from S-PLUS
Description: A collection of classes and methods for working with
times and dates. The code was originally available in S-PLUS.
Author: TIBCO Software Inc.
Maintainer: Stephen Kaluzny <skaluzny@tibco.com>
Diff between splusTimeDate versions 2.5.0-135 dated 2014-07-21 and 2.5.0-136 dated 2016-05-03
DESCRIPTION | 11 +- LICENSE | 2 MD5 | 17 +-- NAMESPACE | 280 +++++++++++++++++++++++++++---------------------------- R/aaa.R | 1 R/timeDate.R | 2 R/timeMath.R | 11 +- R/timeSpan.R | 2 R/timeZone.R | 2 man/sort.list.Rd |only 10 files changed, 165 insertions(+), 163 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Mixed model equation solver allowing the specification of variance covariance structures of random effects and residual structures. ML/REML estimates are obtained using the Average Information, Expectation-Maximization or Efficient Mixed Model Association algorithms. Designed for genomic prediction and genome wide association studies (GWAS) to include additive, dominant and epistatic relationship structures or other covariance structures in R, but functional as a regular mixed model program.
Author: Giovanny Covarrubias-Pazaran
Maintainer: Giovanny Covarrubias-Pazaran <covarrubiasp@wisc.edu>
Diff between sommer versions 1.4 dated 2016-03-24 and 1.5 dated 2016-05-03
CHANGELOG | 22 +- DESCRIPTION | 8 MD5 | 36 ++- NAMESPACE | 6 R/AI3.R | 2 R/EM.R | 22 +- R/PEV.R |only R/TP.prep.R |only R/atcg1234.R | 2 R/bag.R | 7 R/mmer.R | 484 ++++++++++++++++++++------------------------------ R/mmer2.R | 37 +-- data/RICE.RData |only data/datalist | 1 man/PEV.Rd |only man/RICE.Rd |only man/TP.prep.Rd |only man/atcg1234.Rd | 16 + man/bag.Rd | 5 man/mmer.Rd | 34 +-- man/mmer2.Rd | 2 man/sommer-package.Rd | 8 22 files changed, 325 insertions(+), 367 deletions(-)
Title: Efficiently Read Sequence Data (VCF Format, BCF Format and METAL
Format) into R
Description: Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R.
Author: Xiaowei Zhan <zhanxw@gmail.com> and Dajiang Liu
<dajiang.liu@gmail.com>, with contributions from Heng Li
<lh3@live.co.uk> (Heng Li wrote tabix and with MIT license
we include tabix source codes).
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Diff between seqminer versions 5.0 dated 2015-10-22 and 5.2 dated 2016-05-03
ChangeLog | 6 ++++++ DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ inst/CITATION | 4 ++++ src/GeneAnnotation.h | 5 ++--- src/RangeList.cpp | 2 +- src/StringTemplate.h | 35 ++++++++++++++++++----------------- src/bcf_index.c | 2 +- src/bedidx.c | 2 +- src/knetfile.c | 2 +- src/tabixLoader.cpp | 5 ++++- src/tabix_index.c | 2 +- src/vcf.c | 2 +- 13 files changed, 57 insertions(+), 44 deletions(-)
Title: Deployment Interface for R Markdown Documents and Shiny
Applications
Description: Programmatic deployment interface for 'RPubs', 'shinyapps.io', and
'RStudio Connect'. Supported content types include R Markdown documents,
Shiny applications, plots, and static web content.
Author: JJ Allaire
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between rsconnect versions 0.4.2.1 dated 2016-03-29 and 0.4.3 dated 2016-05-03
DESCRIPTION | 10 +++++----- MD5 | 8 +++++--- NAMESPACE | 1 + R/bundle.R | 10 ++++++++-- R/deploySite.R |only man/deploySite.Rd |only 6 files changed, 19 insertions(+), 10 deletions(-)
Title: Modelling Ordinary Differential Equations Leading to
Luminescence
Description: A collection of function to simulate luminescence signals in the
mineral quartz based on published models.
Author: Johannes Friedrich [aut, trl, cre],
Sebastian Kreutzer [aut, ths],
Christoph Schmidt [aut, ths]
Maintainer: Johannes Friedrich <johannes.friedrich@uni-bayreuth.de>
Diff between RLumModel versions 0.1.0 dated 2016-02-03 and 0.1.1 dated 2016-05-03
DESCRIPTION | 8 MD5 | 64 NAMESPACE | 18 NEWS | 12 R/RLumModel-package.R | 168 - R/calc_concentrations.R | 176 +- R/calc_signal.R | 144 - R/create_DRT.sequence.R | 244 +- R/create_SAR.sequence.R | 230 +- R/model_LuminescenceSignals.R | 946 +++++------ R/read_SEQ2R.R | 626 +++---- R/set_ODE.R | 236 +- R/set_ODE_LM_OSL.R | 246 +- R/set_pars.R | 486 ++--- R/simulate_CW_OSL.R | 320 +-- R/simulate_LM_OSL.R | 312 +-- R/simulate_RF.R | 328 +-- R/simulate_TL.R | 278 +-- R/simulate_heating.R | 210 +- R/simulate_illumination.R | 222 +- R/simulate_irradiation.R | 228 +- R/simulate_pause.R | 210 +- R/translate_sequence.R | 556 +++--- inst/NEWS.Rd | 36 inst/extdata/example_SAR_cycle.SEQ | 2062 ++++++++++++------------ man/ExampleData.ModelOutput.Rd | 76 man/RLumModel-package.Rd | 104 - man/model_LuminescenceSignals.Rd | 604 +++---- man/read_SEQ2R.Rd | 106 - tests/testthat.R | 8 tests/testthat/test-model_LuminescenceSignals.R | 34 tests/testthat/test-read_SEQ2R.R | 12 tests/testthat/test-set_pars.R | 18 33 files changed, 4669 insertions(+), 4659 deletions(-)
Title: A Data-Centered Data Flow Manager
Description: A data manager meant to avoid manual storage/retrieval of
data to/from the file system. It builds one (or more) centralized
repository where R objects are stored with annotations, tags,
dependency notes, provenance traces. It also provides navigation
tools to easily locate, load and edit previously stored resources.
Author: Francesco Napolitano <franapoli@gmail.com>
Maintainer: Francesco Napolitano <franapoli@gmail.com>
Diff between repo versions 1.0 dated 2015-08-03 and 2.0.2 dated 2016-05-03
DESCRIPTION | 19 - MD5 | 73 ++-- NAMESPACE | 2 NEWS.md |only R/repo.R | 695 ++++++++++++++++++++++++++++++++++-------- R/repoS3.R | 775 ++++++++++++++++++++++++++++------------------- R/repo_cpanel.R |only README.md | 52 ++- build/vignette.rds |binary inst/doc/index.R | 152 +++++---- inst/doc/index.Rmd | 554 +++++++++++++++------------------ inst/doc/index.html | 606 ++++++++++++++++++------------------ man/print.repo.Rd | 43 +- man/repo-package.Rd | 8 man/repo_append.Rd | 9 man/repo_attach.Rd | 16 man/repo_bulkedit.Rd |only man/repo_check.Rd | 32 + man/repo_copy.Rd | 31 + man/repo_cpanel.Rd |only man/repo_dependencies.Rd | 82 ++-- man/repo_entries.Rd | 20 - man/repo_export.Rd | 18 - man/repo_find.Rd |only man/repo_get.Rd | 16 man/repo_handlers.Rd | 35 +- man/repo_info.Rd | 18 - man/repo_lazydo.Rd |only man/repo_open.Rd | 14 man/repo_pull.Rd |only man/repo_put.Rd | 82 ++-- man/repo_rm.Rd | 24 - man/repo_root.Rd | 14 man/repo_set.Rd | 26 - man/repo_stash.Rd | 29 - man/repo_stashclear.Rd | 21 - man/repo_sys.Rd | 31 + man/repo_tag.Rd | 23 - man/repo_tags.Rd | 22 - man/repo_untag.Rd | 23 - vignettes/index.Rmd | 554 +++++++++++++++------------------ 41 files changed, 2361 insertions(+), 1758 deletions(-)
Title: Record Linkage in R
Description: Provides functions for linking and de-duplicating data sets.
Methods based on a stochastic approach are implemented as well as
classification algorithms from the machine learning domain.
Author: Andreas Borg <borga@uni-mainz.de>, Murat Sariyar <murat.sariyar@charite.de>
Maintainer: Andreas Borg <borga@uni-mainz.de>
Diff between RecordLinkage versions 0.4-8 dated 2015-05-28 and 0.4-9 dated 2016-05-03
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NAMESPACE | 6 ++++++ NEWS | 2 ++ build/vignette.rds |binary inst/doc/BigData.pdf |binary inst/doc/EVT.pdf |binary inst/doc/Supervised.pdf |binary inst/doc/WeightBased.pdf |binary 9 files changed, 19 insertions(+), 11 deletions(-)
Title: Jester Dataset for 'recommenderlab'
Description: Provides the Jester Dataset for package recommenderlab.
Author: Michael Hahsler
Maintainer: Michael Hahsler <mhahsler@smu.edu>
Diff between recommenderlabJester versions 0.1-1 dated 2015-07-14 and 0.1-2 dated 2016-05-03
DESCRIPTION | 10 +++++----- MD5 | 9 +++++---- data/Jester.rda |binary data/Jester_text.rda |only data/datalist | 1 + man/Jester.Rd | 10 ++++++++++ 6 files changed, 21 insertions(+), 9 deletions(-)
More information about recommenderlabJester at CRAN
Permanent link
Title: Visualization of Spatial and Spatio-Temporal Objects in Google
Earth
Description: Writes sp-class, spacetime-class, raster-class and similar spatial and spatio-temporal objects to KML following some basic cartographic rules.
Author: Tomislav Hengl [cre, aut],
Pierre Roudier [ctb],
Dylan Beaudette [ctb],
Edzer Pebesma [ctb],
Michael Blaschek [ctb]
Maintainer: Tomislav Hengl <tom.hengl@isric.org>
Diff between plotKML versions 0.5-5 dated 2016-01-06 and 0.5-6 dated 2016-05-03
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/layer.SpatialPolygons.R | 2 +- R/legend.bar.R | 4 ++-- R/plotKML.GDALobj.R | 30 ++++++++++++++++++------------ build/vignette.rds |binary inst/doc/jss1079.pdf |binary man/kml_legend.bar.Rd | 3 ++- man/layer.SpatialPolygons.Rd | 8 ++++---- man/plotKML.GDALobj.Rd | 5 ++++- man/readGPX.Rd | 2 +- man/readKML.GBIFdensity.Rd | 4 ++-- man/spPhoto.Rd | 2 +- 13 files changed, 51 insertions(+), 41 deletions(-)
Title: Tools to Manage a Parametric Function that Describes Phenology
Description: Functions used to fit and test the phenology of species based on counts.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between phenology versions 4.2.4 dated 2015-06-30 and 5.1 dated 2016-05-03
DESCRIPTION | 10 - MD5 | 128 +++++++------- NAMESPACE | 2 NEWS | 39 ++++ R/Lnegbin.R | 386 +++++++++++++++++++++---------------------- R/add_phenology.R | 52 ++--- R/daily_count.R | 172 ++++++++----------- R/fitRMU.R | 102 +++++------ R/fitRMU_MHmcmc.R | 12 + R/fit_phenology.R | 158 +++++++++++------ R/format_par.R | 2 R/map_phenology.R | 69 ++----- R/par_init.R | 49 ++--- R/phenology-package.R | 16 - R/phenology_MHmcmc.R | 14 + R/plot.fitRMU.R | 50 +++-- R/plot.phenology.R | 106 ++++++----- R/print.phenologyout.R | 11 - R/summary.phenology.R | 2 R/summary.phenologyout.R | 2 data/result_Gratiot.rda |binary data/result_Gratiot_Flat.rda |binary man/BE_to_LBLE.Rd | 12 - man/Gratiot.Rd | 10 - man/LBLE_to_BE.Rd | 6 man/LBLE_to_L.Rd | 8 man/L_to_LBLE.Rd | 8 man/MinBMinE_to_Min.Rd | 6 man/adapt_parameters.Rd | 6 man/add_SD.Rd | 4 man/add_phenology.Rd | 58 +++--- man/extract_result.Rd | 8 man/fitRMU.Rd | 122 +++++++------ man/fitRMU_MHmcmc.Rd | 38 ++-- man/fitRMU_MHmcmc_p.Rd | 36 ++-- man/fit_phenology.Rd | 67 ++++--- man/likelihood_phenology.Rd | 8 man/logLik.fitRMU.Rd | 36 ++-- man/logLik.phenology.Rd | 2 man/map_Gratiot.Rd | 8 man/map_phenology.Rd | 37 ++-- man/par_init.Rd | 16 - man/phenology-package.Rd | 50 ++--- man/phenology.Rd | 2 man/phenology_MHmcmc.Rd | 12 - man/phenology_MHmcmc_p.Rd | 12 - man/plot.fitRMU.Rd | 95 +++++----- man/plot.phenology.Rd | 19 +- man/plot.phenologymap.Rd | 16 - man/plot_delta.Rd | 16 - man/plot_phi.Rd | 14 - man/print.phenology.Rd | 8 man/print.phenologymap.Rd | 16 - man/print.phenologyout.Rd | 8 man/remove_site.Rd | 8 man/result_Gratiot.Rd | 8 man/result_Gratiot1.Rd | 10 - man/result_Gratiot2.Rd | 10 - man/result_Gratiot_Flat.Rd | 8 man/result_Gratiot_mcmc.Rd | 8 man/shift_sinusoid.Rd | 16 - man/summary.phenology.Rd | 10 - man/summary.phenologymap.Rd | 16 - man/summary.phenologyout.Rd | 10 - man/toggle_Min_PMin.Rd | 6 65 files changed, 1181 insertions(+), 1075 deletions(-)
Title: Functions for Optimal Matching
Description: Distance based bipartite matching using the RELAX-IV minimum cost flow solver,
oriented to matching of treatment and control groups in observational
studies. Routines are provided to generate distances from generalised linear models (propensity
score matching), formulas giving variables on which to limit matched distances, stratified or
exact matching directives, or calipers, alone or in combination.
Author: Ben B. Hansen <ben.hansen@umich.edu>, Mark Fredrickson
<mark.m.fredrickson@gmail.com>, Josh Buckner, Josh Errickson, and Peter
Solenberger, with embedded Fortran code due to Dimitri P. Bertsekas
<dimitrib@mit.edu> and Paul Tseng
Maintainer: Mark M. Fredrickson <mark.m.fredrickson@gmail.com>
Diff between optmatch versions 0.9-5 dated 2015-07-30 and 0.9-6 dated 2016-05-03
optmatch-0.9-5/optmatch/inst/tests |only optmatch-0.9-5/optmatch/man/fill.NAs.rd |only optmatch-0.9-5/optmatch/man/min.controls.cap.Rd |only optmatch-0.9-5/optmatch/src/register.cc |only optmatch-0.9-5/optmatch/src/register.h |only optmatch-0.9-5/optmatch/tests/Examples |only optmatch-0.9-5/optmatch/tests/fullmatch.R |only optmatch-0.9-5/optmatch/tests/fullmatch.Rout.save |only optmatch-0.9-5/optmatch/tests/makingTests.txt |only optmatch-0.9-5/optmatch/tests/maxcontrolscap-tests.R |only optmatch-0.9-5/optmatch/tests/maxcontrolscap-tests.Rout.save |only optmatch-0.9-5/optmatch/tests/mdist.R |only optmatch-0.9-5/optmatch/tests/mdist.Rout.save |only optmatch-0.9-5/optmatch/tests/moremethods.optmatch-tests.R |only optmatch-0.9-5/optmatch/tests/moremethods.optmatch-tests.Rout.save |only optmatch-0.9-5/optmatch/tests/pairmatch-tests.R |only optmatch-0.9-5/optmatch/tests/pairmatch-tests.Rout.save |only optmatch-0.9-5/optmatch/tests/stratumStructure-tests.R |only optmatch-0.9-5/optmatch/tests/stratumStructure-tests.Rout.save |only optmatch-0.9-5/optmatch/tests/summary.optmatch-tests.R |only optmatch-0.9-5/optmatch/tests/summary.optmatch-tests.Rout.save |only optmatch-0.9-5/optmatch/tests/testthat-tests.R |only optmatch-0.9-6/optmatch/DESCRIPTION | 38 - optmatch-0.9-6/optmatch/MD5 | 269 +++++----- optmatch-0.9-6/optmatch/NAMESPACE | 201 ++++--- optmatch-0.9-6/optmatch/NEWS | 40 + optmatch-0.9-6/optmatch/R/DenseMatrix.R | 4 optmatch-0.9-6/optmatch/R/InfinitySparseMatrix.R | 212 ++++++- optmatch-0.9-6/optmatch/R/Ops.optmatch.dlist.R | 9 optmatch-0.9-6/optmatch/R/Optmatch-package.R |only optmatch-0.9-6/optmatch/R/Optmatch.R | 102 +-- optmatch-0.9-6/optmatch/R/RcppExports.R |only optmatch-0.9-6/optmatch/R/boxplotMethods.R | 7 optmatch-0.9-6/optmatch/R/data.R |only optmatch-0.9-6/optmatch/R/exactMatch.R | 92 +++ optmatch-0.9-6/optmatch/R/feasible.R | 153 ++--- optmatch-0.9-6/optmatch/R/fill.NAs.R | 149 +++++ optmatch-0.9-6/optmatch/R/fmatch.R | 2 optmatch-0.9-6/optmatch/R/fullmatch.R | 97 ++- optmatch-0.9-6/optmatch/R/match_on.R | 68 +- optmatch-0.9-6/optmatch/R/matched.R | 83 +++ optmatch-0.9-6/optmatch/R/matched.distances.R | 34 + optmatch-0.9-6/optmatch/R/matchfailed.R | 6 optmatch-0.9-6/optmatch/R/max.controls.cap.R | 37 - optmatch-0.9-6/optmatch/R/mdist.R | 137 ++++- optmatch-0.9-6/optmatch/R/min.controls.cap.R | 84 ++- optmatch-0.9-6/optmatch/R/pairmatch.R | 27 - optmatch-0.9-6/optmatch/R/print.optmatch.R | 18 optmatch-0.9-6/optmatch/R/relaxinfo.R | 120 ++-- optmatch-0.9-6/optmatch/R/stratumStructure.R | 235 ++++++-- optmatch-0.9-6/optmatch/R/summary.ism.R |only optmatch-0.9-6/optmatch/R/summary.optmatch.R | 63 +- optmatch-0.9-6/optmatch/R/utilities.R | 37 - optmatch-0.9-6/optmatch/R/zzzDistanceSpecification.R | 73 +- optmatch-0.9-6/optmatch/README.md |only optmatch-0.9-6/optmatch/build |only optmatch-0.9-6/optmatch/data/nuclearplants.rda |binary optmatch-0.9-6/optmatch/data/plantdist.rda |binary optmatch-0.9-6/optmatch/demo |only optmatch-0.9-6/optmatch/inst/doc |only optmatch-0.9-6/optmatch/inst/examples/fullmatch.R | 18 optmatch-0.9-6/optmatch/inst/examples/match_on.R | 19 optmatch-0.9-6/optmatch/inst/examples/pairmatch.R | 19 optmatch-0.9-6/optmatch/man/InfinitySparseMatrix-class.Rd | 2 optmatch-0.9-6/optmatch/man/antiExactMatch.Rd | 2 optmatch-0.9-6/optmatch/man/as.InfinitySparseMatrix.Rd |only optmatch-0.9-6/optmatch/man/caliper-methods.Rd | 6 optmatch-0.9-6/optmatch/man/caliperSize.Rd |only optmatch-0.9-6/optmatch/man/caliperUpperBound.Rd |only optmatch-0.9-6/optmatch/man/cbindrbind.Rd |only optmatch-0.9-6/optmatch/man/compare_optmatch.Rd | 2 optmatch-0.9-6/optmatch/man/dimnames-InfinitySparseMatrix.Rd | 9 optmatch-0.9-6/optmatch/man/distUnion.Rd | 2 optmatch-0.9-6/optmatch/man/dist_digest.Rd |only optmatch-0.9-6/optmatch/man/effectiveSampleSize.Rd | 11 optmatch-0.9-6/optmatch/man/exactMatch.Rd | 107 ++- optmatch-0.9-6/optmatch/man/fill.NAs.Rd |only optmatch-0.9-6/optmatch/man/fmla2treatedblocking.Rd |only optmatch-0.9-6/optmatch/man/fullmatch.Rd | 20 optmatch-0.9-6/optmatch/man/getMaxProblemSize.Rd | 2 optmatch-0.9-6/optmatch/man/ismBinaryOps.Rd | 2 optmatch-0.9-6/optmatch/man/makeOptmatch.Rd |only optmatch-0.9-6/optmatch/man/match_on-methods.Rd | 26 optmatch-0.9-6/optmatch/man/matched.Rd | 112 +--- optmatch-0.9-6/optmatch/man/matched.distances.Rd | 68 +- optmatch-0.9-6/optmatch/man/maxCaliper.Rd | 2 optmatch-0.9-6/optmatch/man/mdist.Rd | 192 ++++--- optmatch-0.9-6/optmatch/man/minExactMatch.Rd | 4 optmatch-0.9-6/optmatch/man/minmaxctlcap.Rd |only optmatch-0.9-6/optmatch/man/missing_x_msg.Rd |only optmatch-0.9-6/optmatch/man/nuclearplants.Rd | 114 +--- optmatch-0.9-6/optmatch/man/num_eligible_matches-methods.Rd | 2 optmatch-0.9-6/optmatch/man/optmatch-defunct.Rd | 2 optmatch-0.9-6/optmatch/man/optmatch.Rd | 26 optmatch-0.9-6/optmatch/man/optmatch_restrictions.Rd | 5 optmatch-0.9-6/optmatch/man/optmatch_same_distance.Rd | 7 optmatch-0.9-6/optmatch/man/pairmatch.Rd | 21 optmatch-0.9-6/optmatch/man/plantdist.Rd | 35 - optmatch-0.9-6/optmatch/man/print.optmatch.Rd | 14 optmatch-0.9-6/optmatch/man/relaxinfo.Rd | 25 optmatch-0.9-6/optmatch/man/scoreCaliper.Rd |only optmatch-0.9-6/optmatch/man/scores.Rd | 2 optmatch-0.9-6/optmatch/man/setFeasibilityConstants.Rd |only optmatch-0.9-6/optmatch/man/setTryRecovery.Rd |only optmatch-0.9-6/optmatch/man/show-BlockedInfinitySparseMatrix-method.Rd |only optmatch-0.9-6/optmatch/man/show-InfinitySparseMatrix-method.Rd |only optmatch-0.9-6/optmatch/man/sort.ism.Rd |only optmatch-0.9-6/optmatch/man/stratumStructure.Rd | 180 +++--- optmatch-0.9-6/optmatch/man/subdim-methods.Rd | 2 optmatch-0.9-6/optmatch/man/subproblemSuccess.Rd | 2 optmatch-0.9-6/optmatch/man/subset.InfinitySparseMatrix.Rd |only optmatch-0.9-6/optmatch/man/summary.ism.Rd |only optmatch-0.9-6/optmatch/man/update.optmatch.Rd | 5 optmatch-0.9-6/optmatch/man/validDistanceSpecification.Rd |only optmatch-0.9-6/optmatch/src/RcppExports.cpp |only optmatch-0.9-6/optmatch/src/distances.cc | 7 optmatch-0.9-6/optmatch/src/ism.cc | 11 optmatch-0.9-6/optmatch/src/ism.h | 4 optmatch-0.9-6/optmatch/src/r_smahal.cc | 11 optmatch-0.9-6/optmatch/src/r_smahal.h | 4 optmatch-0.9-6/optmatch/src/smahal.h | 5 optmatch-0.9-6/optmatch/src/subsetInfSparseMatrix.cc | 32 - optmatch-0.9-6/optmatch/src/subsetInfSparseMatrix.h | 3 optmatch-0.9-6/optmatch/tests/testthat |only optmatch-0.9-6/optmatch/tests/testthat.R |only optmatch-0.9-6/optmatch/vignettes |only 126 files changed, 2305 insertions(+), 1236 deletions(-)
Title: Neyman-Pearson Receiver Operator Curve
Description: Given a sample of class 0 and class 1 and a classification method, the package generates the corresponding Neyman-Pearson classifier with a pre-specified type-I error control and Neyman-Pearson Receiver Operator Curve.
Author: Yang Feng, Jessica Li and Xin Tong
Maintainer: Yang Feng <yang.feng@columbia.edu>
Diff between nproc versions 0.1 dated 2016-02-13 and 0.4 dated 2016-05-03
ChangeLog |only DESCRIPTION | 10 +-- MD5 | 28 +++++--- NAMESPACE | 5 + R/npc.R | 171 ++++++++++++++++++++++++++++++++--------------------- R/npfuns.R | 8 +- R/nproc.R | 92 ++++++++++++++++------------ R/nproc.core.R |only R/plot.nproc.R |only R/predict.npc.R | 62 +++++++++---------- build |only inst |only man/npc.Rd | 41 ++++++++---- man/nproc.Rd | 42 +++++++++---- man/plot.nproc.Rd |only man/predict.npc.Rd | 24 +++---- vignettes |only 17 files changed, 292 insertions(+), 191 deletions(-)
Title: Solve Systems of Nonlinear Equations
Description: Solve a system of nonlinear equations using a Broyden or a Newton method
with a choice of global strategies such as line search and trust region.
There are options for using a numerical or user supplied Jacobian,
for specifying a banded numerical Jacobian and for allowing
a singular or ill-conditioned Jacobian.
Author: Berend Hasselman
Maintainer: Berend Hasselman <bhh@xs4all.nl>
Diff between nleqslv versions 3.0 dated 2016-01-28 and 3.0.1 dated 2016-05-03
DESCRIPTION | 8 ++-- MD5 | 25 ++++++------ NEWS | 7 +++ R/nleqslv.R | 2 - R/testnslv.R | 12 +++--- man/nleqslv.Rd | 9 +++- man/testnslv.Rd | 7 +-- src/lirslv.f |only src/nleqslv.c | 92 ++++++++++++++++++++++++++-------------------- src/nwbjac.f | 37 +----------------- src/nwbrdn.f | 47 ++--------------------- src/nwnjac.f | 41 ++------------------ tests/xtestnslv.Rout | 70 +++++++++++++++++------------------ tests/xtestnslv.Rout.save | 70 +++++++++++++++++------------------ 14 files changed, 176 insertions(+), 251 deletions(-)
Title: Statistical Modeling with Network Cohesion
Description: Model fitting procedures for regression with network cohesion effects, when a network connecting sample individuals is available in a regression problem. In the future, other commonly used statistical models will be added, such as gaussian graphical model.
Author: Tianxi Li, Elizaveta Levina, Ji Zhu
Maintainer: Tianxi Li <tianxili@umich.edu>
Diff between netcoh versions 0.1 dated 2016-03-03 and 0.2 dated 2016-05-03
DESCRIPTION | 8 +-- MD5 | 14 +++--- NAMESPACE | 1 R/Rfunc.R | 113 ++++++++++++++++++++++++++++---------------------- man/netcoh-package.Rd | 4 - man/rncReg-class.Rd | 6 ++ man/rncreg.Rd | 16 +++++-- man/rncregpath.Rd | 9 +++ 8 files changed, 103 insertions(+), 68 deletions(-)
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using 'LAPACK' and 'SuiteSparse'.
Author: Douglas Bates <bates@stat.wisc.edu> and Martin Maechler
Maintainer: Martin Maechler <mmaechler+Matrix@gmail.com>
Diff between Matrix versions 1.2-5 dated 2016-04-17 and 1.2-6 dated 2016-05-03
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/diagMatrix.R | 10 ++++++++-- TODO | 3 +++ inst/NEWS.Rd | 15 +++++++++++++-- inst/doc/Comparisons.pdf |binary inst/doc/Design-issues.pdf |binary inst/doc/Intro2Matrix.pdf |binary inst/doc/Introduction.pdf |binary inst/doc/sparseModels.pdf |binary man/SparseM-conv.Rd | 2 ++ man/expm.Rd | 6 ++++-- tests/matprod.R | 6 +++++- 13 files changed, 51 insertions(+), 23 deletions(-)
Title: Client for 'Turfjs' for 'Geospatial' Analysis
Description: Client for 'Turfjs' (http://turfjs.org/) for
'geospatial' analysis. The package revolves around using 'GeoJSON'
data. Functions are included for creating 'GeoJSON' data objects,
measuring aspects of 'GeoJSON', and combining, transforming,
and creating random 'GeoJSON' data objects.
Author: Scott Chamberlain [aut, cre],
Jeff Hollister [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between lawn versions 0.1.6 dated 2016-03-04 and 0.1.7 dated 2016-05-03
DESCRIPTION | 8 +++--- MD5 | 44 +++++++++++++++++------------------ NEWS | 7 +++++ README.md | 14 +++++------ build/vignette.rds |binary inst/doc/lawn_vignette.html | 10 +++---- tests/testthat/test-bearing.R | 2 - tests/testthat/test-center.R | 4 +-- tests/testthat/test-extent.R | 8 +++--- tests/testthat/test-geojson_random.R | 2 - tests/testthat/test-hex_grid.R | 6 ++-- tests/testthat/test-isolines.R | 2 - tests/testthat/test-line_distance.R | 6 ++-- tests/testthat/test-nearest.R | 4 +-- tests/testthat/test-planepoint.R | 6 ++-- tests/testthat/test-point_grid.R | 6 ++-- tests/testthat/test-remove.R | 2 - tests/testthat/test-sample.R | 6 ++-- tests/testthat/test-simplify.R | 6 ++-- tests/testthat/test-size.R | 8 +++--- tests/testthat/test-square_grid.R | 4 +-- tests/testthat/test-triangle_grid.R | 4 +-- tests/testthat/test-union.R | 2 - 23 files changed, 84 insertions(+), 77 deletions(-)
Title: Lambert-W Function
Description: Implements both real-valued branches of the Lambert-W function, also known as the product logarithm, without the need for installing the entire GSL.
Author: Avraham Adler [aut, cph, cre]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between lamW versions 1.1.0 dated 2016-03-16 and 1.1.1 dated 2016-05-03
lamW-1.1.0/lamW/inst/News.Rd |only lamW-1.1.1/lamW/DESCRIPTION | 8 ++++---- lamW-1.1.1/lamW/MD5 | 14 +++++++------- lamW-1.1.1/lamW/README.md | 6 +++++- lamW-1.1.1/lamW/build/partial.rdb |binary lamW-1.1.1/lamW/inst/NEWS.Rd |only lamW-1.1.1/lamW/man/lamW-package.Rd | 4 ++-- lamW-1.1.1/lamW/man/lamW.Rd | 8 ++++---- lamW-1.1.1/lamW/tests/testthat/test-lamW.R | 10 ++++++++++ 9 files changed, 32 insertions(+), 18 deletions(-)
Title: Client for 'jq', a JSON Processor
Description: Client for 'jq', a JSON processor (<http://stedolan.github.io/jq/>), written
in C. 'jq' allows the following with JSON data: index into, parse, do calculations,
cut up and filter, change key names and values, perform conditionals and comparisons,
and more.
Author: Rich FitzJohn [aut],
Scott Chamberlain [aut, cre],
Stefan Milton Bache [aut],
Stephen Dolan [aut, cph] (jq library),
jq contributors [ctb] (jq library; authors listed in inst/AUTHORS.jq),
Free Software Foundation [ctb, cph] (parser code in src/parser.c),
David M Gay [ctb, cph] (code in src/jv_dtoa.c)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between jqr versions 0.2.0 dated 2016-03-23 and 0.2.2 dated 2016-05-03
DESCRIPTION | 6 +++--- MD5 | 21 +++++++++++---------- NEWS.md | 13 +++++++++++-- README.md | 2 ++ build/vignette.rds |binary src/Makevars | 1 + src/endianfix.h |only src/jq/execute.c | 2 +- src/jq/jv_dtoa.c | 3 +-- src/jq/parser.c | 2 +- src/jq/parser.y | 2 +- tests/testthat/test-spec.R | 1 + 12 files changed, 33 insertions(+), 20 deletions(-)
Title: Invariant Causal Prediction
Description: Confidence intervals for causal effects, using data collected in different experimental or environmental conditions. Hidden variables can be included in the model with a more experimental version.
Author: Nicolai Meinshausen
Maintainer: Nicolai Meinshausen <meinshausen@stat.math.ethz.ch>
Diff between InvariantCausalPrediction versions 0.6-0 dated 2016-04-12 and 0.6-1 dated 2016-05-03
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/ICP.R | 2 +- man/InvariantCausalPrediction-package.Rd | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
More information about InvariantCausalPrediction at CRAN
Permanent link
Title: Harrell Miscellaneous
Description: Contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, importing and annotating datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of R objects to LaTeX code,
and recoding variables.
Author: Frank E Harrell Jr <f.harrell@vanderbilt.edu>, with
contributions from Charles Dupont and many others.
Maintainer: Frank E Harrell Jr <f.harrell@vanderbilt.edu>
Diff between Hmisc versions 3.17-3 dated 2016-04-03 and 3.17-4 dated 2016-05-03
DESCRIPTION | 10 +- INDEX | 5 - MD5 | 20 ++-- NAMESPACE | 2 NEWS | 8 + R/Merge.r |only R/rcspline.plot.s | 229 ++++++++++++++++++++++++-------------------------- R/summaryP.s | 25 ++++- R/ynbind.s | 2 man/Merge.Rd |only tests/bootkm.r |only tests/rcspline.plot.r |only tests/summaryP.r | 9 + 13 files changed, 176 insertions(+), 134 deletions(-)
Title: Global Soil Information Facilities
Description: Global Soil Information Facilities - tools (standards and functions) and sample datasets for global soil mapping.
Author: Tomislav Hengl [cre, aut],
Bas Kempen [ctb],
Gerard Heuvelink [ctb],
Brendan Malone [ctb]
Maintainer: Tomislav Hengl <tom.hengl@isric.org>
Diff between GSIF versions 0.4-7 dated 2015-07-20 and 0.5-1 dated 2016-05-03
DESCRIPTION | 12 ++++---- MD5 | 42 +++++++++++++++------------- NAMESPACE | 5 ++- R/AAAA.R | 8 ++++- R/as.data.frame.R | 20 ++++++++++--- R/autopredict.R | 2 - R/buffer.dist.R |only R/fit.gstatModel.R | 27 ++++++++++-------- R/fit.regModel.R | 71 +++++++++++++++++++++++++++++++++++++------------ R/fit.vgmModel.R | 5 ++- R/predict.gstatModel.R | 44 ++++++++++++++++++++++++------ R/tile.R | 7 ++-- R/warp.R | 4 +- data/cookfarm.rda |binary man/afsp.Rd | 1 man/autopredict.Rd | 4 +- man/buffer.dist.Rd |only man/cookfarm.Rd | 4 ++ man/edgeroi.Rd | 4 +- man/fit.gstatModel.Rd | 13 ++++++-- man/fit.regModel.Rd | 14 ++++++++- man/geochm.Rd | 6 ++-- man/test.gstatModel.Rd | 1 23 files changed, 201 insertions(+), 93 deletions(-)
Title: Analysis of Geostatistical Data
Description: Geostatistical analysis including traditional, likelihood-based and Bayesian methods.
Author: Paulo J. Ribeiro Jr <paulojus@ufpr.br> and
Peter J. Diggle <p.diggle@lancaster.ac.uk>
Maintainer: Paulo J. Ribeiro Jr <paulojus@ufpr.br>
Diff between geoR versions 1.7-5.1 dated 2015-04-23 and 1.7-5.2 dated 2016-05-03
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- man/SIC.Rd | 2 +- man/locations.inside.Rd | 2 +- man/polygrid.Rd | 8 ++++---- 5 files changed, 14 insertions(+), 14 deletions(-)
Title: Main Package of the EMU Speech Database Management System
Description: Provides the next iteration of the EMU Speech
Database Management System (EMU_SDMS) with database management, data
extraction, data preparation and data visualization facilities.
Author: Raphael Winkelmann [aut, cre],
Klaus Jaensch [aut, ctb],
Steve Cassidy [aut, ctb],
Jonathan Harrington [aut, ctb]
Maintainer: Raphael Winkelmann <raphael@phonetik.uni-muenchen.de>
Diff between emuR versions 0.1.7 dated 2016-03-31 and 0.1.8 dated 2016-05-03
DESCRIPTION | 6 MD5 | 50 +- NAMESPACE | 1 NEWS.md | 25 + R/emuR-convert_BPFCollection.R | 2 R/emuR-convert_TextGridCollection.R | 20 R/emuR-create_seglists.R | 142 ++++++ R/emuR-database.DBconfig.R | 30 + R/emuR-database.R | 55 ++ R/emuR-database.files.R | 4 R/emuR-emuDBhandle.R | 8 R/emuR-emuRtrackdata.R | 8 R/emuR-get_trackdata.R | 28 - R/emuR-legacy.R | 30 + R/emuR-legacy.template.R | 6 R/emuR-parser.BPF.R | 26 - R/emuR-query.database.R | 467 +++++++++++++++-------- build/vignette.rds |binary inst/doc/EQL.html | 21 - inst/doc/emuDB.html | 46 +- inst/doc/emuR_intro.html | 30 - man/convert_TextGridCollection.Rd | 2 man/load_emuDB.Rd | 4 tests/testthat/test_emuR-convert_BPFCollection.R | 12 tests/testthat/test_emuR-get_trackdata.R | 10 tests/testthat/test_emuR-query.database.R | 3 26 files changed, 740 insertions(+), 296 deletions(-)
Title: Tools for Pre-Processing Emission-Excitation-Matrix (EEM)
Fluorescence Data
Description: Provides various tools to calculate EEM fluorescence metrics and preprocess EEM for PARAFAC analysis.
Author: Philippe Massicotte [aut, cre]
Maintainer: Philippe Massicotte <pm@bios.au.dk>
Diff between eemR versions 0.1.2 dated 2016-02-04 and 0.1.3 dated 2016-05-03
eemR-0.1.2/eemR/inst/extdata/cary/eem |only eemR-0.1.2/eemR/inst/extdata/cary/nano.csv |only eemR-0.1.2/eemR/man/eem_sample_names-set.Rd |only eemR-0.1.2/eemR/man/eem_sample_names.Rd |only eemR-0.1.2/eemR/man/plot.eem.Rd |only eemR-0.1.3/eemR/DESCRIPTION | 14 eemR-0.1.3/eemR/MD5 | 87 ++-- eemR-0.1.3/eemR/NAMESPACE | 13 eemR-0.1.3/eemR/NEWS.md | 43 ++ eemR-0.1.3/eemR/R/absorbance.R | 51 +- eemR-0.1.3/eemR/R/eem_correction.R | 164 +++++-- eemR-0.1.3/eemR/R/eem_export.R | 234 +++++----- eemR-0.1.3/eemR/R/eem_metrics.R | 537 ++++++++++++------------- eemR-0.1.3/eemR/R/eem_read.R | 119 +++-- eemR-0.1.3/eemR/R/eem_utils.R | 271 +++++++++--- eemR-0.1.3/eemR/README.md | 337 --------------- eemR-0.1.3/eemR/build |only eemR-0.1.3/eemR/inst/doc |only eemR-0.1.3/eemR/inst/extdata/cary/scans_day_1 |only eemR-0.1.3/eemR/inst/extdata/cary/scans_day_2 |only eemR-0.1.3/eemR/man/absorbance.Rd | 10 eemR-0.1.3/eemR/man/eem.Rd | 4 eemR-0.1.3/eemR/man/eem_bind.Rd | 4 eemR-0.1.3/eemR/man/eem_biological_index.Rd | 10 eemR-0.1.3/eemR/man/eem_coble_peaks.Rd | 6 eemR-0.1.3/eemR/man/eem_cut.Rd | 12 eemR-0.1.3/eemR/man/eem_export_matlab.Rd | 6 eemR-0.1.3/eemR/man/eem_extract.Rd | 22 - eemR-0.1.3/eemR/man/eem_fluorescence_index.Rd | 6 eemR-0.1.3/eemR/man/eem_humification_index.Rd | 6 eemR-0.1.3/eemR/man/eem_inner_filter_effect.Rd | 7 eemR-0.1.3/eemR/man/eem_names-set.Rd |only eemR-0.1.3/eemR/man/eem_names.Rd |only eemR-0.1.3/eemR/man/eem_raman_normalisation.Rd | 48 +- eemR-0.1.3/eemR/man/eem_read.Rd | 4 eemR-0.1.3/eemR/man/eem_remove_blank.Rd | 72 ++- eemR-0.1.3/eemR/man/eem_remove_scattering.Rd | 6 eemR-0.1.3/eemR/man/eem_set_wavelengths.Rd | 4 eemR-0.1.3/eemR/man/plot.eemlist.Rd | 12 eemR-0.1.3/eemR/man/summary.eem.Rd | 2 eemR-0.1.3/eemR/man/summary.eemlist.Rd | 4 eemR-0.1.3/eemR/tests |only eemR-0.1.3/eemR/vignettes |only 43 files changed, 1092 insertions(+), 1023 deletions(-)
Title: R Database Interface
Description: A database interface definition for communication
between R and relational database management systems. All
classes in this package are virtual and need to be extended by
the various R/DBMS implementations.
Author: R Special Interest Group on Databases (R-SIG-DB) [aut],
Hadley Wickham [aut],
Kirill Müller [aut, cre]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between DBI versions 0.3.1 dated 2014-09-24 and 0.4 dated 2016-05-03
DBI-0.3.1/DBI/NEWS |only DBI-0.3.1/DBI/R/compliance.R |only DBI-0.3.1/DBI/R/keywords.R |only DBI-0.3.1/DBI/man/dbiCheckCompliance.Rd |only DBI-0.4/DBI/DESCRIPTION | 33 ++-- DBI-0.4/DBI/MD5 | 125 +++++++++------- DBI-0.4/DBI/NAMESPACE | 25 ++- DBI-0.4/DBI/NEWS.md |only DBI-0.4/DBI/R/ANSI.R |only DBI-0.4/DBI/R/DBConnection.R | 203 +++++++++++++------------- DBI-0.4/DBI/R/DBDriver.R | 119 +++++++-------- DBI-0.4/DBI/R/DBObject.R | 65 ++++---- DBI-0.4/DBI/R/DBResult.R | 168 +++++++++++---------- DBI-0.4/DBI/R/data-types.R |only DBI-0.4/DBI/R/data.R |only DBI-0.4/DBI/R/deprecated.R |only DBI-0.4/DBI/R/interpolate.R |only DBI-0.4/DBI/R/quote.R | 70 ++++---- DBI-0.4/DBI/R/rownames.R |only DBI-0.4/DBI/R/table-create.R |only DBI-0.4/DBI/R/table-insert.R |only DBI-0.4/DBI/R/table.R |only DBI-0.4/DBI/R/transactions.R |only DBI-0.4/DBI/R/util.R | 48 +----- DBI-0.4/DBI/README.md | 6 DBI-0.4/DBI/build |only DBI-0.4/DBI/inst |only DBI-0.4/DBI/man/ANSI.Rd |only DBI-0.4/DBI/man/DBIConnection-class.Rd | 14 + DBI-0.4/DBI/man/DBIDriver-class.Rd | 14 + DBI-0.4/DBI/man/DBIObject-class.Rd | 7 DBI-0.4/DBI/man/DBIResult-class.Rd | 27 ++- DBI-0.4/DBI/man/SQL.Rd | 22 +- DBI-0.4/DBI/man/Table.Rd |only DBI-0.4/DBI/man/dbBind.Rd |only DBI-0.4/DBI/man/dbCallProc.Rd | 7 DBI-0.4/DBI/man/dbClearResult.Rd | 15 - DBI-0.4/DBI/man/dbColumnInfo.Rd | 15 - DBI-0.4/DBI/man/dbConnect.Rd | 3 DBI-0.4/DBI/man/dbDataType.Rd | 25 +-- DBI-0.4/DBI/man/dbDisconnect.Rd | 15 - DBI-0.4/DBI/man/dbDriver.Rd | 3 DBI-0.4/DBI/man/dbExistsTable.Rd | 15 - DBI-0.4/DBI/man/dbFetch.Rd | 13 - DBI-0.4/DBI/man/dbGetDBIVersion.Rd | 3 DBI-0.4/DBI/man/dbGetException.Rd | 15 - DBI-0.4/DBI/man/dbGetInfo.Rd | 20 +- DBI-0.4/DBI/man/dbGetQuery.Rd | 35 ++-- DBI-0.4/DBI/man/dbGetRowCount.Rd | 21 +- DBI-0.4/DBI/man/dbGetRowsAffected.Rd | 21 +- DBI-0.4/DBI/man/dbGetStatement.Rd | 18 -- DBI-0.4/DBI/man/dbHasCompleted.Rd | 20 +- DBI-0.4/DBI/man/dbIsValid.Rd | 3 DBI-0.4/DBI/man/dbListConnections.Rd | 3 DBI-0.4/DBI/man/dbListFields.Rd | 16 +- DBI-0.4/DBI/man/dbListResults.Rd | 16 +- DBI-0.4/DBI/man/dbListTables.Rd | 16 +- DBI-0.4/DBI/man/dbReadTable.Rd | 14 - DBI-0.4/DBI/man/dbRemoveTable.Rd | 16 +- DBI-0.4/DBI/man/dbSendQuery.Rd | 39 ++-- DBI-0.4/DBI/man/dbSetDataMappings.Rd | 3 DBI-0.4/DBI/man/make.db.names.Rd | 3 DBI-0.4/DBI/man/print.list.pairs.Rd | 9 - DBI-0.4/DBI/man/rownames.Rd |only DBI-0.4/DBI/man/sqlAppendTable.Rd |only DBI-0.4/DBI/man/sqlCreateTable.Rd |only DBI-0.4/DBI/man/sqlData.Rd |only DBI-0.4/DBI/man/sqlInterpolate.Rd |only DBI-0.4/DBI/man/sqlParseVariables.Rd |only DBI-0.4/DBI/man/transactions.Rd | 29 +++ DBI-0.4/DBI/tests/testthat/test-data-type.R | 8 - DBI-0.4/DBI/tests/testthat/test-interpolate.R |only DBI-0.4/DBI/tests/testthat/test-quoting.R |only DBI-0.4/DBI/tests/testthat/test-rownames.R |only DBI-0.4/DBI/tests/testthat/test-sql-df.R |only DBI-0.4/DBI/vignettes |only 76 files changed, 747 insertions(+), 638 deletions(-)
Title: Adaptive Sum of Powered Score Test
Description: R codes for the (adaptive) Sum of Powered Score ('SPU' and 'aSPU')
tests, inverse variance weighted Sum of Powered score ('SPUw' and 'aSPUw') tests
and gene-based and some pathway based association tests (Pathway based Sum of
Powered Score tests ('SPUpath'), adaptive 'SPUpath' ('aSPUpath') test, 'GEEaSPU'
test for multiple traits - single 'SNP' (single-nucleotide-polymorphism)
association in generalized estimation equations, 'MTaSPUs' test for multiple
traits - single 'SNP' association with Genome Wide Association Studies ('GWAS')
summary statistics, Gene-based Association Test that uses an extended Simes
procedure ('GATES'), Hybrid Set-based Test ('HYST') and extended version
of 'GATES' test for pathway-based association testing ('GATES-Simes'). ).
The tests can be used with genetic and other data sets with covariates. The
response variable is binary or quantitative. Summary; (1) Single trait-'SNP' set
association with individual-level data ('aSPU', 'aSPUw'), (2) Single trait-'SNP'
set association with summary statistics ('aSPUs'), (3) Single trait-pathway
association with individual-level data ('aSPUpath'), (4) Single trait-pathway
association with summary statistics ('aSPUsPath'), (5) Multiple traits-single
'SNP' association with individual-level data ('GEEaSPU'), (6) Multiple traits-
single SNP association with summary statistics ('MTaSPUs'), (7) Multiple traits-`SNP' set association with summary statistics(`MTaSPUsSet'), (8) Multiple traits-pathway association with summary statistics(`MTaSPUsSetPath').
Author: Il-Youp Kwak and others (See Author(s) in each function manual)
Maintainer: Il-Youp Kwak <ikwak@umn.edu>
Diff between aSPU versions 1.41 dated 2016-03-21 and 1.42 dated 2016-05-03
DESCRIPTION | 31 ++++++++++--- MD5 | 72 ++++++++++++++++++------------ NAMESPACE | 5 ++ R/MTaSPUsSet.R |only R/MTaSPUsSetC.R |only R/MTaSPUsSetPath.R |only R/MTaSPUsSetScore.R |only R/RcppExports.R | 4 + R/aSPU.R | 4 - R/aSPUboot.R | 4 - R/aSPUboot2.R | 4 - R/aSPUpath.r | 4 - R/aSPUperm.R | 4 - R/aSPUperm2.R | 4 - R/aSPUpermC.R | 4 - R/aSPUpermC2.R | 4 - R/aSPUsPath.r | 3 - R/aSPUsim1.R | 4 - R/aSPUsim2.R | 4 - R/aSPUsimC2.R | 4 - R/aSPUw.R | 4 - R/aSPUwboot.R | 4 - R/aSPUwperm.R | 4 - R/aSPUwpermC.R | 4 + R/aSPUwsim.R | 4 - README.md | 29 ++++++++---- build/vignette.rds |binary data/SAMD11.rda |only data/someGs.rda |only inst/doc/MTaSPUsSet.R |only inst/doc/MTaSPUsSet.Rmd |only inst/doc/MTaSPUsSet.html |only man/MTaSPUsSet.Rd |only man/MTaSPUsSetC.Rd |only man/MTaSPUsSetPath.Rd |only man/MTaSPUsSetScore.Rd |only man/SAMD11.Rd |only man/aSPU.Rd | 4 - man/aSPUpath.Rd | 4 - man/aSPUsPath.Rd | 3 - man/aSPUw.Rd | 4 - man/someGs.Rd |only src/RcppExports.cpp | 17 +++++++ src/aSPU.cpp | 112 +++++++++++++++++++++++++++++++++++++++++++++++ vignettes/MTaSPUsSet.Rmd |only 45 files changed, 269 insertions(+), 83 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-27 1.0-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-16 2.1
2015-11-30 2.0
2013-03-19 1.9-6
2013-02-10 1.9-5
2012-04-23 1.8-4
2009-10-12 1.3-7
2009-02-10 1.3-6
2008-08-11 1.3-5
2008-03-21 1.3-1
2007-10-07 1.3-0
2007-09-14 1.2-9
2007-09-04 1.2-8
2007-03-11 1.2-7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-07-22 1.6
2012-12-14 1.5
2012-07-21 1.4
2012-07-03 1.3
2012-06-07 0.2
2012-05-31 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-02-24 2.0
2014-01-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-02-22 1.2
2015-01-26 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-25 1.0.4
2015-02-27 1.0.3
2014-12-23 1.0.2
2014-03-18 1.0.1
2013-12-19 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-13 1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-17 2.1
2015-12-19 2.0
2014-12-28 1.1-4
2014-06-12 1.1-3
2014-02-11 1.1-2
2013-12-11 1.1-1
2013-11-01 1.1-0
2013-03-25 1.0-5
2012-07-31 1.0-4
2012-04-25 1.0-3
2012-04-22 1.0-2
2012-04-09 1.0-1
2012-04-08 1.0-0
2010-11-10 0.6-5
2010-11-09 0.6-4
2009-10-11 0.6-3
2009-09-23 0.6-2
2009-09-22 0.6-1
2009-09-21 0.6-0
2009-07-01 0.5-4
2009-03-28 0.5-3
2009-02-09 0.5-2
2008-12-30 0.5-1
2007-10-18 0.5-0
2007-10-07 0.4-9
2007-09-21 0.4-8
2007-09-14 0.4-6
2007-09-10 0.4-5
2007-09-03 0.4-3
2007-03-11 0.4-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-20 0.1.1
2015-10-22 0.1.0