Title: Generalized Synthetic Control Method
Description: Generalized synthetic control method: causal inference with interactive fixed-effect models. It imputes counterfactuals for each treated unit using control group information based on a linear interactive fixed effects model that incorporates unit-specific intercepts interacted with time-varying coefficients. This method generalizes the synthetic control method to the case of multiple treated units and variable treatment periods, and improves efficiency and interpretability. Data must be in form of a balanced panel with a dichotomous treatment.
Author: Yiqing Xu, University of California, San Diego
Maintainer: Yiqing Xu <yiqingxu@ucsd.edu>
Diff between gsynth versions 1.0.2 dated 2017-03-12 and 1.0.3 dated 2017-03-12
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NAMESPACE | 2 +- src/interFE.cpp | 8 ++++---- 4 files changed, 11 insertions(+), 11 deletions(-)
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides interfaces to
C implementations of the association mining algorithms Apriori and Eclat
by C. Borgelt.
Author: Michael Hahsler [aut, cre, cph],
Christian Buchta [aut, cph],
Bettina Gruen [aut, cph],
Kurt Hornik [aut, cph],
Ian Johnson [ctb, cph],
Christian Borgelt [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arules versions 1.5-0 dated 2016-10-02 and 1.5-2 dated 2017-03-12
DESCRIPTION | 22 +++-- MD5 | 132 +++++++++++++++++----------------- NAMESPACE | 40 +++++----- NEWS.md | 166 +++++++++++++++++++++++++++++++------------ R/AllGenerics.R | 10 +- R/DATAFRAME.R |only R/Matrix.R | 2 R/abbreviate.R | 15 ++- R/apriori.R | 5 - R/associations.R | 9 +- R/crossTable.R | 3 R/eclat.R | 5 - R/interestMeasures.R | 51 ++++++++----- R/is.closed.R | 4 - R/is.maximal.R | 3 R/is.significant.R | 22 ++++- R/is.superset.R | 74 +++++++------------ R/itemCoding.R | 2 R/itemFrequency.R | 4 - R/itemMatrix.R | 28 ++----- R/ruleInduction.R | 7 - R/setsItemwise.R | 3 R/support.R | 10 +- R/tidLists.R | 14 +-- R/warm.R | 4 - README.md | 60 +++++++++------ inst/doc/arules.pdf |binary man/APappearance-class.Rd | 3 man/AScontrol-class.Rd | 4 - man/ASparameter-class.Rd | 14 ++- man/DATAFRAME.Rd |only man/Income.Rd | 2 man/LIST.Rd | 10 +- man/SunBai.Rd | 6 - man/abbreviate.Rd | 3 man/affinity.Rd | 10 +- man/apriori.Rd | 3 man/associations-class.Rd | 2 man/discretize.Rd | 4 - man/dissimilarity.Rd | 37 +++++---- man/duplicated.Rd | 3 man/eclat.Rd | 6 - man/hits.Rd | 4 - man/inspect.Rd | 3 man/interestMeasure.Rd | 43 +++++++---- man/is.maximal.Rd | 1 man/is.significant.Rd | 5 + man/is.superset.Rd | 12 +-- man/itemCoding.Rd | 2 man/itemFrequencyPlot.Rd | 4 - man/itemMatrix-class.Rd | 5 - man/itemsets-class.Rd | 2 man/merge.Rd | 2 man/proximity-classes.Rd | 2 man/ruleInduction.Rd | 43 +++++++---- man/rules-class.Rd | 2 man/sample.Rd | 2 man/size.Rd | 6 - man/sort.Rd | 2 man/tidLists-class.Rd | 2 man/transactions-class.Rd | 11 +- man/unique.Rd | 2 man/weclat.Rd | 4 - man/write.Rd | 6 - src/dll.c |only src/issubset.c |only src/rapriori.c | 2 tests/testthat/test-matrix.R | 42 +++++----- tests/testthat/test-sets.R | 17 ++-- 69 files changed, 577 insertions(+), 451 deletions(-)
Title: Calculate Indices and Theoretical Physicochemical Properties of
Protein Sequences
Description: Includes functions to calculate several physicochemical properties and indices for amino-acid sequences as well as to read and plot 'XVG' output files from the 'GROMACS' molecular dynamics package.
Author: Daniel Osorio [aut, cre],
Paola Rondon-Villarreal [aut, ths],
Rodrigo Torres [aut, ths],
J. Sebastian Paez [ctb]
Maintainer: Daniel Osorio <dcosorioh@unal.edu.co>
Diff between Peptides versions 1.2.1 dated 2017-02-21 and 2.0.0 dated 2017-03-12
Peptides-1.2.1/Peptides/NEWS |only Peptides-1.2.1/Peptides/R/data-CP.R |only Peptides-1.2.1/Peptides/R/data-H.R |only Peptides-1.2.1/Peptides/R/data-K.R |only Peptides-1.2.1/Peptides/R/data-pK.R |only Peptides-1.2.1/Peptides/R/plot.xvg.R |only Peptides-1.2.1/Peptides/R/read.xvg.R |only Peptides-1.2.1/Peptides/data/CP.RData |only Peptides-1.2.1/Peptides/data/H.RData |only Peptides-1.2.1/Peptides/data/K.RData |only Peptides-1.2.1/Peptides/data/pK.RData |only Peptides-1.2.1/Peptides/inst/tests |only Peptides-1.2.1/Peptides/man/CP.Rd |only Peptides-1.2.1/Peptides/man/H.Rd |only Peptides-1.2.1/Peptides/man/K.Rd |only Peptides-1.2.1/Peptides/man/aacomp.Rd |only Peptides-1.2.1/Peptides/man/aindex.Rd |only Peptides-1.2.1/Peptides/man/instaindex.Rd |only Peptides-1.2.1/Peptides/man/pK.Rd |only Peptides-1.2.1/Peptides/man/plot.xvg.Rd |only Peptides-1.2.1/Peptides/man/read.xvg.Rd |only Peptides-1.2.1/Peptides/tests/doRUnit.R |only Peptides-2.0.0/Peptides/DESCRIPTION | 24 ++- Peptides-2.0.0/Peptides/MD5 | 139 +++++++++++----------- Peptides-2.0.0/Peptides/NAMESPACE | 22 ++- Peptides-2.0.0/Peptides/NEWS.md |only Peptides-2.0.0/Peptides/R/aaCheck.R |only Peptides-2.0.0/Peptides/R/aaDescriptors.R |only Peptides-2.0.0/Peptides/R/aacomp.R | 14 +- Peptides-2.0.0/Peptides/R/aindex.R | 15 +- Peptides-2.0.0/Peptides/R/autocorrelation.R | 15 +- Peptides-2.0.0/Peptides/R/autocovariance.R | 13 +- Peptides-2.0.0/Peptides/R/blosumIndices.R |only Peptides-2.0.0/Peptides/R/boman.R | 12 - Peptides-2.0.0/Peptides/R/charge.R | 58 ++++----- Peptides-2.0.0/Peptides/R/crosscovariance.R | 17 +- Peptides-2.0.0/Peptides/R/crucianiProperties.R | 23 +-- Peptides-2.0.0/Peptides/R/data-AA.R |only Peptides-2.0.0/Peptides/R/fasgaiVectors.R |only Peptides-2.0.0/Peptides/R/hmoment.R | 12 - Peptides-2.0.0/Peptides/R/hydrophobicity.R | 86 ++++++------- Peptides-2.0.0/Peptides/R/instaindex.R | 31 ++-- Peptides-2.0.0/Peptides/R/kideraFactors.R | 52 +++----- Peptides-2.0.0/Peptides/R/lengthpep.R | 6 Peptides-2.0.0/Peptides/R/membpos.R | 20 ++- Peptides-2.0.0/Peptides/R/mswhimScores.R |only Peptides-2.0.0/Peptides/R/mw.R | 12 + Peptides-2.0.0/Peptides/R/pI.R | 19 +-- Peptides-2.0.0/Peptides/R/plotXVG.R |only Peptides-2.0.0/Peptides/R/protFP.R |only Peptides-2.0.0/Peptides/R/readXVG.R |only Peptides-2.0.0/Peptides/R/stScales.R |only Peptides-2.0.0/Peptides/R/sysdata.rda |only Peptides-2.0.0/Peptides/R/tScales.R |only Peptides-2.0.0/Peptides/R/vhseScales.R |only Peptides-2.0.0/Peptides/R/zScales.R |only Peptides-2.0.0/Peptides/README.md | 30 ++-- Peptides-2.0.0/Peptides/data/AAdata.RData |only Peptides-2.0.0/Peptides/data/datalist | 7 - Peptides-2.0.0/Peptides/inst/xvg-files/RDF.xvg |only Peptides-2.0.0/Peptides/man/AAdata.Rd |only Peptides-2.0.0/Peptides/man/aIndex.Rd |only Peptides-2.0.0/Peptides/man/aaComp.Rd |only Peptides-2.0.0/Peptides/man/aaDescriptors.Rd |only Peptides-2.0.0/Peptides/man/autoCorrelation.Rd | 8 - Peptides-2.0.0/Peptides/man/autoCovariance.Rd | 6 Peptides-2.0.0/Peptides/man/blosumIndices.Rd |only Peptides-2.0.0/Peptides/man/boman.Rd | 2 Peptides-2.0.0/Peptides/man/charge.Rd | 26 ++-- Peptides-2.0.0/Peptides/man/crossCovariance.Rd | 10 - Peptides-2.0.0/Peptides/man/crucianiProperties.Rd | 6 Peptides-2.0.0/Peptides/man/fasgaiVectors.Rd |only Peptides-2.0.0/Peptides/man/hydrophobicity.Rd | 76 ++++++------ Peptides-2.0.0/Peptides/man/instaIndex.Rd |only Peptides-2.0.0/Peptides/man/kideraFactors.Rd | 33 ++--- Peptides-2.0.0/Peptides/man/lengthpep.Rd | 2 Peptides-2.0.0/Peptides/man/membpos.Rd | 4 Peptides-2.0.0/Peptides/man/mswhimScores.Rd |only Peptides-2.0.0/Peptides/man/mw.Rd | 5 Peptides-2.0.0/Peptides/man/pI.Rd | 18 +- Peptides-2.0.0/Peptides/man/plotXVG.Rd |only Peptides-2.0.0/Peptides/man/protFP.Rd |only Peptides-2.0.0/Peptides/man/readXVG.Rd |only Peptides-2.0.0/Peptides/man/stScales.Rd |only Peptides-2.0.0/Peptides/man/tScales.Rd |only Peptides-2.0.0/Peptides/man/vhseScales.Rd |only Peptides-2.0.0/Peptides/man/zScales.Rd |only Peptides-2.0.0/Peptides/tests/testthat |only Peptides-2.0.0/Peptides/tests/testthat.R |only 89 files changed, 422 insertions(+), 401 deletions(-)
Title: 'Rcpp' Implementation of 'FSelector' Entropy-Based Feature
Selection Algorithms with a Sparse Matrix Support
Description: 'Rcpp' (free of 'Java'/'Weka') implementation of 'FSelector' entropy-based feature selection algorithms with a sparse matrix support. It is also equipped with a parallel backend.
Author: Zygmunt Zawadzki [aut, cre],
Marcin Kosinski [aut],
Krzysztof Slomczynski [ctb]
Maintainer: Zygmunt Zawadzki <zygmunt@zstat.pl>
Diff between FSelectorRcpp versions 0.1.0 dated 2017-03-06 and 0.1.2 dated 2017-03-12
DESCRIPTION | 12 MD5 | 100 +-- NAMESPACE | 64 +- R/RcppExports.R | 114 ++-- R/cut_attrs.R | 112 ++-- R/discretize.R | 336 ++++++------ R/feature_search.R | 560 ++++++++++---------- R/information_gain.R | 440 +++++++-------- R/utils.R | 344 ++++++------ build/vignette.rds |binary inst/benchmarks/README.Rmd | 18 inst/benchmarks/bench-cutOff.R | 50 - inst/benchmarks/bench-discretise.R | 58 +- inst/benchmarks/bench-entropy.R | 14 inst/benchmarks/bench-information_gain.R | 38 - inst/benchmarks/bench-support.R | 30 - inst/benchmarks/bench-table.R | 26 inst/doc/benchmarks_discretize.R | 278 +++++---- inst/doc/benchmarks_discretize.Rmd | 397 +++++++------- inst/doc/benchmarks_discretize.html | 723 ++++++++++++------------- inst/doc/get_started.R | 150 ++--- inst/doc/get_started.Rmd | 258 ++++----- inst/doc/get_started.html | 621 ++++++++++------------ inst/include/FSelector.h | 20 inst/include/FSelectorConfig.h | 26 inst/include/cutoff/cutOff.h | 166 ++--- inst/include/discretize/discretize.h | 88 +-- inst/include/discretize/discretizeControl.h | 76 +- inst/include/discretize/methods/equalsize.h | 174 +++--- inst/include/discretize/methods/mdl.h | 456 ++++++++-------- inst/include/entropy/entropy.h | 452 ++++++++-------- inst/include/exhaustive.search/Subsets.h | 230 ++++---- inst/include/support/support.h | 126 ++-- inst/include/support/table.h | 132 ++-- inst/test.R | 32 - man/cut_attrs.Rd | 62 +- man/discretize.Rd | 142 ++--- man/feature_search.Rd | 310 +++++------ man/information_gain.Rd | 154 ++--- man/to_formula.Rd | 88 +-- tests/testthat.R | 20 tests/testthat/test-cpp.R | 18 tests/testthat/test-cutoff.R | 44 - tests/testthat/test-discretize.R | 264 ++++----- tests/testthat/test-information_gain.R | 252 ++++----- tests/testthat/test-param-search.R | 64 +- tests/testthat/test-support.R | 164 ++--- vignettes/RJreferences.bib | 780 ++++++++++++++-------------- vignettes/benchmarks_discretize.Rmd | 397 +++++++------- vignettes/get_started.Rmd | 258 ++++----- vignettes/ggsci.css | 432 +++++++-------- 51 files changed, 5079 insertions(+), 5091 deletions(-)
Title: R Interface to RESTful Web Services
Description: Models a RESTful service as if it were a nested R list.
Author: Michael Lawrence
Maintainer: Michael Lawrence <michafla@gene.com>
Diff between restfulr versions 0.0.10 dated 2017-03-07 and 0.0.11 dated 2017-03-12
restfulr-0.0.10/restfulr/MD5 |only restfulr-0.0.11/restfulr/DESCRIPTION | 10 ++++------ 2 files changed, 4 insertions(+), 6 deletions(-)
Title: Supervised Weight of Evidence Binning of Numeric Variables and
Factors
Description: Implements an automated binning of numeric variables and factors with
respect to a dichotomous target variable.
Two approaches are provided: An implementation of fine and coarse classing that
merges granular classes and levels step by step. And a tree-like approach that
iteratively segments the initial bins via binary splits. Both procedures merge,
respectively split, bins based on similar weight of evidence (WOE) values and
stop via an information value (IV) based criteria.
The package can be used with single variables or an entire data frame. It provides
flexible tools for exploring different binning solutions and for deploying them to
(new) data.
Author: Thilo Eichenberg
Maintainer: Thilo Eichenberg <te.r@gmx.net>
Diff between woeBinning versions 0.1.2 dated 2017-03-06 and 0.1.3 dated 2017-03-12
DESCRIPTION | 8 ++--- MD5 | 10 +++---- R/woe.binning.R | 64 +++++++++++++++++----------------------------- R/woe.binning.deploy.R | 7 ++--- R/woe.tree.binning.R | 57 +++++++++++++++------------------------- man/woe.binning.deploy.Rd | 7 ++--- 6 files changed, 60 insertions(+), 93 deletions(-)
Title: Estimating Weight-Function Models for Publication Bias
Description: Estimates the Vevea and Hedges (1995) <doi:10.1007/BF02294384>
weight-function model. By specifying arguments, users can
also estimate the modified model described in Vevea and Woods (2005)
<doi:10.1037/1082-989X.10.4.428>, which may be more practical with small datasets. Users
can also specify moderators to estimate a linear model. The package functionality
allows users to easily extract the results of these analyses as R objects for
other uses. In addition, the package includes a function to launch both models as
a Shiny application. Although the Shiny application is also available online,
this function allows users to launch it locally if they choose.
Author: Kathleen M. Coburn [aut, cre],
Jack L. Vevea [aut]
Maintainer: Kathleen M. Coburn <kcoburn@ucmerced.edu>
Diff between weightr versions 1.0.0 dated 2016-04-24 and 1.1.0 dated 2017-03-12
DESCRIPTION | 32 ++-- MD5 | 22 +- NAMESPACE | 3 NEWS |only R/print.weightfunct.R |only R/weightfunct.R | 263 ++++++++++++----------------------- inst/shiny/server.R | 321 +++++++++++++++++++++++++++++++++++++------ inst/shiny/ui.R | 11 + inst/shiny/weightfunction.R | 110 +++++++++++--- man/dat.bangertdrowns2004.Rd | 1 man/dat.gatb.Rd | 1 man/shiny_weightr.Rd | 1 man/weightfunct.Rd | 37 ++-- 13 files changed, 514 insertions(+), 288 deletions(-)
Title: Network Hierarchical Structure and Randomization
Description: Permits to apply the 'Vertex Sort' algorithm (Jothi et al. (2009) <10.1038/msb.2009.52>) to a graph in order to elucidate its hierarchical structure. It also allows graphic visualization of the sorted graph by exporting the results to a cytoscape friendly format. Moreover, it offers five different algorithms of graph randomization: 1) Randomize a graph with preserving node degrees, 2) with preserving similar node degrees, 3) without preserving node degrees, 4) with preserving node in-degrees and 5) with preserving node out-degrees.
Author: Diala Abd-Rabbo
Maintainer: Diala Abd-Rabbo <diala.abd.rabbo@gmail.com>
Diff between VertexSort versions 0.1-0 dated 2017-03-04 and 0.1-1 dated 2017-03-12
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- R/vertex.sort.R | 4 +++- man/VertexSort-package.Rd | 4 ++-- man/dpr.Rd | 42 ++++++++++++++++++++++-------------------- man/export.to.cytoscape.Rd | 3 +++ man/interactions.Rd | 23 +++++++++++++---------- man/vertex.sort.Rd | 3 +++ 8 files changed, 58 insertions(+), 45 deletions(-)
Title: Optimal Transport in Various Forms
Description: Solve optimal transport problems. Compute Wasserstein distances (a.k.a. Kantorovitch, Fortet--Mourier, Mallows, Earth Mover's, or minimal L_p distances), return the corresponding transference plans, and display them graphically. Objects that can be compared include grey-scale images, (weighted) point patterns, and mass vectors.
Author: Dominic Schuhmacher [aut, cre],
Björn Bähre [aut] (aha and power diagrams),
Carsten Gottschlich [aut] (simplex and shortlist),
Florian Heinemann [aut] (transport_track),
Timo Wilm [ctb] (wpp)
Maintainer: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>
Diff between transport versions 0.8-1 dated 2016-12-07 and 0.8-2 dated 2017-03-12
DESCRIPTION | 20 ++++++++++---------- MD5 | 19 +++++++++++-------- NAMESPACE | 10 ++++++---- NEWS | 10 ++++++++++ R/fundament.R | 5 +++-- R/transport1d.R |only inst/CITATION | 7 ++++--- man/transport-package.Rd | 14 ++++++++------ man/wasserstein.Rd | 15 ++++++++------- man/wasserstein1d.Rd |only src/revsimplex.c | 8 +++----- src/transport_init.c |only 12 files changed, 63 insertions(+), 45 deletions(-)
Title: Two One-Sided Tests (TOST) Equivalence Testing
Description: Two one-sided tests (TOST) procedure to test equivalence for t-tests, correlations,
and meta-analyses, including power analysis for t-tests and correlations. Allows you to
specify equivalence bounds in raw scale units or in terms of effect sizes.
Author: Daniel Lakens <D.Lakens@tue.nl>
Maintainer: Daniel Lakens <D.Lakens@tue.nl>
Diff between TOSTER versions 0.1.3 dated 2016-12-08 and 0.2.3 dated 2017-03-12
DESCRIPTION | 16 ++++++------- MD5 | 54 ++++++++++++++++++++++++++++----------------- NAMESPACE | 10 ++++++++ R/TOSTtwo.R | 52 +++++++++++++++++++++---------------------- R/TOSTtwo.raw.R | 50 ++++++++++++++++++++--------------------- R/datatostone.b.R |only R/datatostone.h.R |only R/datatostpaired.b.R |only R/datatostpaired.h.R |only R/datatostr.b.R |only R/datatostr.h.R |only R/datatosttwo.b.R |only R/datatosttwo.h.R |only R/plot.R |only R/powerTOSTtwo.R | 2 - inst/CITATION |only man/TOSTmeta.Rd | 2 - man/TOSTone.Rd | 1 man/TOSTone.raw.Rd | 1 man/TOSTpaired.Rd | 2 - man/TOSTpaired.raw.Rd | 2 - man/TOSTr.Rd | 2 - man/TOSTtwo.Rd | 28 +++++++++++------------ man/TOSTtwo.raw.Rd | 28 +++++++++++------------ man/dataTOSTone.Rd |only man/dataTOSTpaired.Rd |only man/dataTOSTr.Rd |only man/dataTOSTtwo.Rd |only man/powerTOSTone.Rd | 2 - man/powerTOSTone.raw.Rd | 2 - man/powerTOSTpaired.Rd | 2 - man/powerTOSTpaired.raw.Rd | 2 - man/powerTOSTr.Rd | 1 man/powerTOSTtwo.Rd | 6 ++--- man/powerTOSTtwo.raw.Rd | 2 - 35 files changed, 144 insertions(+), 123 deletions(-)
Title: Estimating Systems of Simultaneous Equations
Description: Fitting simultaneous
systems of linear and nonlinear equations using Ordinary Least
Squares (OLS), Weighted Least Squares (WLS), Seemingly Unrelated
Regressions (SUR), Two-Stage Least Squares (2SLS), Weighted
Two-Stage Least Squares (W2SLS), and Three-Stage Least Squares (3SLS).
Author: Arne Henningsen and Jeff D. Hamann
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between systemfit versions 1.1-18 dated 2015-08-27 and 1.1-20 dated 2017-03-12
DESCRIPTION | 8 - MD5 | 43 ++++---- NEWS | 7 + R/systemfit.R | 4 R/systemfitPanel.R | 30 ++++-- R/zzz.R |only build/vignette.rds |binary inst/doc/systemfit.R | 6 - inst/doc/systemfit.Rnw | 12 +- man/GrunfeldGreene.Rd | 6 - man/systemfit.Rd | 14 +- tests/KleinI.Rout.save | 12 +- tests/KleinI_noMat.Rout.save | 12 +- tests/test_2sls.Rout.save | 12 +- tests/test_3sls.Rout.save | 12 +- tests/test_hausman.Rout.save | 12 +- tests/test_ols.Rout.save | 12 +- tests/test_panel.R | 4 tests/test_panel.Rout.save | 214 ++++++++++++++++++++++--------------------- tests/test_sur.Rout.save | 12 +- tests/test_w2sls.Rout.save | 12 +- tests/test_wls.Rout.save | 12 +- vignettes/systemfit.Rnw | 12 +- 23 files changed, 276 insertions(+), 192 deletions(-)
Title: Survey Planning Tools
Description: Tools for sample survey planning, including sample size calculation, estimation of expected precision for the estimates of totals, and calculation of optimal sample size allocation.
Author: Juris Breidaks [aut, cre],
Martins Liberts [aut],
Janis Jukams [aut]
Maintainer: Juris Breidaks <rcsb@csb.gov.lv>
Diff between surveyplanning versions 2.6 dated 2016-12-08 and 2.8 dated 2017-03-12
DESCRIPTION | 12 +-- MD5 | 18 ++--- R/prop_dom_optimal_allocation.R | 117 ++++++++++++++++++++----------------- README | 3 inst/CITATION | 24 +++---- inst/COPYING | 2 inst/DISCLAIMER | 18 ++--- inst/NEWS | 8 ++ man/prop_dom_optimal_allocation.Rd | 22 ++++-- man/surveyplanning-package.Rd | 6 - 10 files changed, 128 insertions(+), 102 deletions(-)
More information about surveyplanning at CRAN
Permanent link
Title: Univariate Stratification of Survey Populations
Description: Univariate stratification of survey populations with a generalization of the
Lavallee-Hidiroglou method of stratum construction. The generalized method takes into account
a discrepancy between the stratification variable and the survey variable. The determination
of the optimal boundaries also incorporate, if desired, an anticipated non-response, a take-all
stratum for large units, a take-none stratum for small units, and a certainty stratum to ensure
that some specific units are in the sample. The well known cumulative root frequency rule of
Dalenius and Hodges and the geometric rule of Gunning and Horgan are also implemented.
Author: Louis-Paul Rivest [aut, cre],
Sophie Baillargeon [aut]
Maintainer: Louis-Paul Rivest <Louis-Paul.Rivest@mat.ulaval.ca>
Diff between stratification versions 2.2-5 dated 2014-12-04 and 2.2-6 dated 2017-03-12
DESCRIPTION | 29 - MD5 | 51 +- NAMESPACE | 9 NEWS | 9 R/internal.R | 170 +++---- R/strata.LH.R | 146 +++--- R/strata.bh.R | 30 - R/strata.rule.R | 88 ++-- R/strata.tools.R | 6 R/valid_args.R | 102 ++-- R/var.strata.R | 26 - build/vignette.rds |binary inst/doc/stratificationSummaryTable.Rnw | 1 inst/doc/stratificationSummaryTable.pdf |binary man/CochranHorganData.Rd | 12 man/MRTS.Rd | 7 man/SHS.Rd | 11 man/Sweden.Rd | 3 man/strata.LH.Rd | 12 man/strata.bh.Rd | 3 man/strata.rule.Rd | 4 man/strata.tool.Rd | 3 man/stratification-package.Rd | 8 man/var.strata.Rd | 4 src/Ccode.c | 682 +++++++++++++++---------------- src/init.c |only vignettes/stratificationSummaryTable.Rnw | 1 27 files changed, 706 insertions(+), 711 deletions(-)
More information about stratification at CRAN
Permanent link
Title: Sparse Linear Algebra
Description: Some basic linear algebra functionality for sparse matrices is
provided: including Cholesky decomposition and backsolving as well as
standard R subsetting and Kronecker products.
Author: Roger Koenker <rkoenker@uiuc.edu> and Pin Ng <Pin.Ng@NAU.EDU>
Maintainer: Roger Koenker <rkoenker@uiuc.edu>
Diff between SparseM versions 1.74 dated 2016-11-10 and 1.76 dated 2017-03-12
DESCRIPTION | 6 +- MD5 | 13 +++-- NAMESPACE | 2 R/SparseM.R | 115 +++++++++++++++++++++------------------------------ build/vignette.rds |binary inst/ChangeLog | 9 +++ inst/doc/SparseM.pdf |binary src/init.c |only 8 files changed, 68 insertions(+), 77 deletions(-)
Title: Utilities for Learning Sparse Bayesian Networks
Description: A set of tools for representing and estimating sparse Bayesian networks from continuous and discrete data.
Author: Bryon Aragam [aut, cre],
Jiaying Gu [aut]
Maintainer: Bryon Aragam <sparsebn@gmail.com>
Diff between sparsebnUtils versions 0.0.3 dated 2016-11-20 and 0.0.4 dated 2017-03-12
DESCRIPTION | 12 - MD5 | 143 +++++++------ NAMESPACE | 15 + NEWS.md | 10 R/bnlearn-compatibility.R | 2 R/graph-compatibility.R | 6 R/igraph-compatibility.R | 9 R/network-compatibility.R | 2 R/s3-edgeList.R | 83 +++++++- R/s3-generics.R | 4 R/s3-sparse.R | 175 +++++++++++------ R/s3-sparsebnData.R | 6 R/s3-sparsebnFit.R | 5 R/s3-sparsebnPath.R | 5 R/sparsebnUtils-covariance.R | 2 R/sparsebnUtils-defaults.R | 2 R/sparsebnUtils-functions.R | 35 ++- R/sparsebnUtils-generate.R | 126 +++++++++--- R/sparsebnUtils-inference.R | 4 R/sparsebnUtils-lambdas.R | 2 R/sparsebnUtils-messages.R | 10 R/sparsebnUtils-options.R | 2 R/sparsebnUtils-selection.R | 2 R/sparsebnUtils-show.R | 2 R/sparsebnUtils-utils.R | 2 R/zzz.R | 3 man/as.data.frame.sparsebnData.Rd | 1 man/as.edgeList.Rd | 1 man/as.sparse.Rd | 1 man/coerce_discrete.Rd | 7 man/count.interventions.Rd | 1 man/count.levels.Rd | 1 man/edgeList.Rd | 1 man/estimate.parameters.Rd | 1 man/fit_glm_dag.Rd | 1 man/fit_multinom_dag.Rd | 3 man/generate.lambdas.Rd | 1 man/get.adjacency.matrix.Rd | 5 man/get.covariance.Rd | 1 man/get.nodes.Rd | 3 man/get.solution.Rd | 1 man/is.obs.Rd | 1 man/is.zero.Rd | 2 man/num.edges.Rd | 5 man/num.nodes.Rd | 5 man/num.samples.Rd | 3 man/permute.nodes.Rd |only man/plot.edgeList.Rd | 4 man/random.dag.Rd | 4 man/random.graph.Rd |only man/random.spd.Rd | 1 man/select.Rd | 1 man/select.parameter.Rd | 1 man/setGraphPackage.Rd | 4 man/setPlotPackage.Rd | 4 man/show.parents.Rd | 1 man/sparse.Rd | 4 man/sparsebn-functions.Rd | 46 ++-- man/sparsebn-messages.Rd | 20 + man/sparsebnData.Rd | 11 - man/sparsebnFit.Rd | 8 man/sparsebnPath.Rd | 8 man/sparsebnUtils.Rd | 1 man/to_bn.Rd | 1 man/to_graphNEL.Rd | 1 man/to_igraph.Rd | 1 man/to_network.Rd | 1 tests/testthat/helper-sparsebnUtils-generate_objects.R | 23 ++ tests/testthat/test-as.R | 54 ++++- tests/testthat/test-cor_vector.R | 64 +++--- tests/testthat/test-edgeList.R | 12 + tests/testthat/test-random_dag.R | 6 tests/testthat/test-random_graph.R |only tests/testthat/test-sparse.R | 4 74 files changed, 664 insertions(+), 335 deletions(-)
Title: Learning Sparse Bayesian Networks from High-Dimensional Data
Description: Fast methods for learning sparse Bayesian networks from high-dimensional data using sparse regularization. Designed to incorporate mixed experimental and observational data with thousands of variables with either continuous or discrete observations.
Author: Bryon Aragam [aut, cre]
Maintainer: Bryon Aragam <sparsebn@gmail.com>
Diff between sparsebn versions 0.0.2 dated 2016-11-28 and 0.0.3 dated 2017-03-12
DESCRIPTION | 14 +++++++------- MD5 | 28 ++++++++++++++-------------- NEWS.md | 6 ++++++ R/sparsebn-main.R | 4 ---- R/sparsebn-plotting.R | 2 +- build/vignette.rds |binary inst/doc/sparsebn-vignette.html | 28 ++++++++++++++-------------- man/cytometryContinuous.Rd | 1 - man/cytometryDiscrete.Rd | 1 - man/estimate.covariance.Rd | 4 +--- man/estimate.dag.Rd | 3 --- man/pathfinder.Rd | 1 - man/plotDAG.Rd | 3 +-- man/sparsebn.Rd | 1 - tests/testthat/Rplots.pdf |binary 15 files changed, 44 insertions(+), 52 deletions(-)
Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data
processing, see <http://spark.apache.org>. This package supports connecting to
local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end,
and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut, cre],
Kevin Ushey [aut],
JJ Allaire [aut],
RStudio [cph],
The Apache Software Foundation [aut, cph]
Maintainer: Javier Luraschi <javier@rstudio.com>
Diff between sparklyr versions 0.5.2 dated 2017-02-16 and 0.5.3 dated 2017-03-12
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/dbi_spark_connection.R | 8 ++++---- R/dbi_spark_table.R | 3 +++ 4 files changed, 15 insertions(+), 12 deletions(-)
Title: Standard and Nonstandard Statistical Models and Methods for Test
Equating
Description: Contains functions to perform various models and
methods for test equating. It currently implements the traditional
mean, linear and equipercentile equating methods, as well as the
mean-mean, mean-sigma, Haebara and Stocking-Lord IRT linking methods.
It also supports newest methods such that local equating, kernel
equating (using Gaussian, logistic and uniform kernels) with presmoothing,
and IRT parameter linking methods based on asymmetric item characteristic
functions. Functions to obtain both standard error of equating (SEE)
and standard error of equating difference between two equating
functions (SEED) are also implemented for the kernel method of
equating.
Author: Jorge Gonzalez Burgos [cre, aut],
Daniel Leon Acuna [ctb]
Maintainer: Jorge Gonzalez Burgos <jgonzale@mat.puc.cl>
Diff between SNSequate versions 1.2.1 dated 2015-11-13 and 1.3.0 dated 2017-03-12
DESCRIPTION | 37 MD5 | 100 - NAMESPACE | 127 +- R/BNP.eq.R |only R/EE.R | 44 R/LE.R | 90 - R/PREp.R | 154 +- R/Pr.R | 20 R/SEED.R | 162 +- R/bandwidth.R | 595 +++++---- R/cdf.Dist.R | 110 - R/epan.R |only R/eqp.eq.R | 62 - R/eqp.utils.R | 150 +- R/fitmeasures.R | 190 +-- R/helperfuncs.R | 199 +-- R/iccs.R | 22 R/irt.eq.R |only R/irt.link.R | 129 +- R/ker.eq.R | 2780 ++++++++++++++++++++++++---------------------- R/le.eq.R | 164 +- R/lin.eq.R | 128 +- R/loglin.smooth.R | 877 +++++++------- R/lw.dist.R | 124 +- R/mea.eq.R | 52 R/simulate.R |only R/target.R | 92 - R/zzz.R |only data/KB36_t.rda |only inst/CITATION | 38 man/ACTmKB.Rd | 66 - man/BNP.eq.Rd |only man/BNP.eq.predict.Rd |only man/CBdata.Rd | 52 man/KB36.1PL.Rd | 104 - man/KB36.Rd | 70 - man/KB36_t.Rd |only man/Math20EG.Rd | 64 - man/Math20SG.Rd | 58 man/PREp.Rd | 108 - man/SEED.Rd | 172 +- man/SNSequate-package.Rd | 154 +- man/bandwidth.Rd | 274 ++-- man/contaminate_sample.Rd |only man/eqp.eq.Rd | 128 +- man/fitmeasures.Rd | 96 - man/irt.eq.Rd |only man/irt.link.Rd | 228 +-- man/ker.eq.Rd | 418 +++--- man/le.eq.Rd | 166 +- man/lin.eq.Rd | 142 +- man/loglin.smooth.Rd | 338 ++--- man/mea.eq.Rd | 118 - man/pasted_table_to_df.Rd |only man/rowBlockSum.Rd |only man/sim_unimodal.Rd |only tests |only 57 files changed, 4796 insertions(+), 4406 deletions(-)
Title: Pedigree Inference from SNPs
Description: Fast multi-generational pedigree inference from incomplete data on
hundreds of SNPs, including parentage assignment and sibship clustering.
See article "Pedigree reconstruction from SNP data: Parentage assignment,
sibship clustering, and beyond" (Mol Ecol Res, accepted manuscript) for
more information.
Author: Jisca Huisman [aut, cre]
Maintainer: Jisca Huisman <jisca.huisman@gmail.com>
Diff between sequoia versions 0.7.2 dated 2017-02-13 and 0.8.1 dated 2017-03-12
sequoia-0.7.2/sequoia/inst/Fortran/Sequoia.f90 |only sequoia-0.7.2/sequoia/src/Sequoia.f90 |only sequoia-0.8.1/sequoia/DESCRIPTION | 12 - sequoia-0.8.1/sequoia/MD5 | 42 ++--- sequoia-0.8.1/sequoia/R/GenoConvert.R | 21 +- sequoia-0.8.1/sequoia/R/Sequoia_F90wrappers.R | 199 +++++++++---------------- sequoia-0.8.1/sequoia/R/Sequoia_Main.R | 81 +++------- sequoia-0.8.1/sequoia/R/SimulateCompare.R | 43 ++++- sequoia-0.8.1/sequoia/inst/Fortran/sequoia.f90 |only sequoia-0.8.1/sequoia/inst/doc/sequoia.R | 32 ++-- sequoia-0.8.1/sequoia/inst/doc/sequoia.Rnw | 12 - sequoia-0.8.1/sequoia/inst/doc/sequoia.pdf |binary sequoia-0.8.1/sequoia/man/GenoConvert.Rd | 2 sequoia-0.8.1/sequoia/man/NumToID.Rd | 4 sequoia-0.8.1/sequoia/man/SeqDup.Rd | 25 +-- sequoia-0.8.1/sequoia/man/SeqParSib.Rd | 3 sequoia-0.8.1/sequoia/man/SeqPrep.Rd | 24 +-- sequoia-0.8.1/sequoia/man/SimGeno.Rd | 2 sequoia-0.8.1/sequoia/man/orderLH.Rd | 4 sequoia-0.8.1/sequoia/man/sequoia.Rd | 33 +--- sequoia-0.8.1/sequoia/src/Makevars |only sequoia-0.8.1/sequoia/src/register.c | 28 +-- sequoia-0.8.1/sequoia/src/sequoia-win.def |only sequoia-0.8.1/sequoia/src/sequoia.f90 |only sequoia-0.8.1/sequoia/vignettes/sequoia.Rnw | 12 - 25 files changed, 267 insertions(+), 312 deletions(-)
Title: Calculate Text Polarity Sentiment
Description: Calculate text polarity sentiment at the sentence level
and optionally aggregate by rows or grouping variable(s).
Author: Tyler Rinker [aut, cre]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between sentimentr versions 0.4.0 dated 2016-12-28 and 1.0.0 dated 2017-03-12
sentimentr-0.4.0/sentimentr/R/replace_emoticon.R |only sentimentr-0.4.0/sentimentr/R/replace_grade.R |only sentimentr-0.4.0/sentimentr/R/replace_rating.R |only sentimentr-0.4.0/sentimentr/data/emoticons.rda |only sentimentr-0.4.0/sentimentr/data/grades.rda |only sentimentr-0.4.0/sentimentr/data/polarity_table.rda |only sentimentr-0.4.0/sentimentr/data/ratings.rda |only sentimentr-0.4.0/sentimentr/data/sentiword.rda |only sentimentr-0.4.0/sentimentr/data/valence_shifters_table.rda |only sentimentr-0.4.0/sentimentr/man/emoticons.Rd |only sentimentr-0.4.0/sentimentr/man/grades.Rd |only sentimentr-0.4.0/sentimentr/man/polarity_table.Rd |only sentimentr-0.4.0/sentimentr/man/ratings.Rd |only sentimentr-0.4.0/sentimentr/man/replace_emoticon.Rd |only sentimentr-0.4.0/sentimentr/man/replace_grade.Rd |only sentimentr-0.4.0/sentimentr/man/replace_rating.Rd |only sentimentr-0.4.0/sentimentr/man/sentiword.Rd |only sentimentr-0.4.0/sentimentr/man/valence_shifters_table.Rd |only sentimentr-0.4.0/sentimentr/tests/testthat/test-replace_emoticon.R |only sentimentr-0.4.0/sentimentr/tests/testthat/test-replace_grade.R |only sentimentr-0.4.0/sentimentr/tests/testthat/test-replace_rating.R |only sentimentr-1.0.0/sentimentr/DESCRIPTION | 16 sentimentr-1.0.0/sentimentr/LICENSE | 2 sentimentr-1.0.0/sentimentr/MD5 | 123 +- sentimentr-1.0.0/sentimentr/NAMESPACE | 17 sentimentr-1.0.0/sentimentr/NEWS | 62 + sentimentr-1.0.0/sentimentr/R/as_key.R | 36 sentimentr-1.0.0/sentimentr/R/average_downweighted_zero.R |only sentimentr-1.0.0/sentimentr/R/extract_sentiment_terms.R | 6 sentimentr-1.0.0/sentimentr/R/general_rescale.R |only sentimentr-1.0.0/sentimentr/R/highlight.R | 4 sentimentr-1.0.0/sentimentr/R/sentiment.R | 137 +- sentimentr-1.0.0/sentimentr/R/sentiment_attributes.R |only sentimentr-1.0.0/sentimentr/R/sentiment_by.R | 165 +++ sentimentr-1.0.0/sentimentr/R/sentimentr-package.R | 147 -- sentimentr-1.0.0/sentimentr/R/textclean_reexports.R |only sentimentr-1.0.0/sentimentr/R/utils.R | 24 sentimentr-1.0.0/sentimentr/R/validate_sentiment.R |only sentimentr-1.0.0/sentimentr/README.md | 498 ++++++---- sentimentr-1.0.0/sentimentr/data/cannon_reviews.rda |binary sentimentr-1.0.0/sentimentr/data/kotzias_reviews.rda |binary sentimentr-1.0.0/sentimentr/data/presidential_debates_2012.rda |binary sentimentr-1.0.0/sentimentr/data/sam_i_am.rda |binary sentimentr-1.0.0/sentimentr/inst/CITATION | 8 sentimentr-1.0.0/sentimentr/inst/figure/comparisons_between_sentiment_detectors2.pdf |binary sentimentr-1.0.0/sentimentr/inst/figure/comparisons_between_sentiment_detectors2.png |binary sentimentr-1.0.0/sentimentr/inst/figure/comparisons_between_sentiment_detectors_b.png |binary sentimentr-1.0.0/sentimentr/inst/figure/highlight.png |binary sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-10-1.png |only sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-20-1.png |only sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-21-1.png |only sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-7-1.png |binary sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-8-1.png |binary sentimentr-1.0.0/sentimentr/inst/figure/unnamed-chunk-9-1.png |only sentimentr-1.0.0/sentimentr/inst/sentiment_testing/raw_results.R | 39 sentimentr-1.0.0/sentimentr/inst/sentiment_testing/results_list.rds |binary sentimentr-1.0.0/sentimentr/inst/sentiment_testing/sentiment_testing.R | 50 - sentimentr-1.0.0/sentimentr/inst/sfp |only sentimentr-1.0.0/sentimentr/inst/the_case_for_sentimentr |only sentimentr-1.0.0/sentimentr/man/as_key.Rd | 33 sentimentr-1.0.0/sentimentr/man/average_downweighted_zero.Rd |only sentimentr-1.0.0/sentimentr/man/cannon_reviews.Rd | 3 sentimentr-1.0.0/sentimentr/man/extract_sentiment_terms.Rd | 9 sentimentr-1.0.0/sentimentr/man/general_rescale.Rd |only sentimentr-1.0.0/sentimentr/man/get_sentences.Rd | 1 sentimentr-1.0.0/sentimentr/man/highlight.Rd | 3 sentimentr-1.0.0/sentimentr/man/kotzias_reviews.Rd | 3 sentimentr-1.0.0/sentimentr/man/plot.sentiment.Rd | 7 sentimentr-1.0.0/sentimentr/man/plot.sentiment_by.Rd | 1 sentimentr-1.0.0/sentimentr/man/presidential_debates_2012.Rd | 1 sentimentr-1.0.0/sentimentr/man/print.extract_sentiment_terms.Rd | 1 sentimentr-1.0.0/sentimentr/man/reexports.Rd |only sentimentr-1.0.0/sentimentr/man/sam_i_am.Rd | 1 sentimentr-1.0.0/sentimentr/man/sentiment.Rd | 119 +- sentimentr-1.0.0/sentimentr/man/sentiment_attributes.Rd |only sentimentr-1.0.0/sentimentr/man/sentiment_by.Rd | 25 sentimentr-1.0.0/sentimentr/man/sentimentr.Rd | 3 sentimentr-1.0.0/sentimentr/man/uncombine.Rd | 1 sentimentr-1.0.0/sentimentr/man/validate_sentiment.Rd |only sentimentr-1.0.0/sentimentr/tests/testthat/test-extract_sentiment_terms.R |only sentimentr-1.0.0/sentimentr/tests/testthat/test-sentiment.R | 4 81 files changed, 955 insertions(+), 594 deletions(-)
Title: R Graphics Devices for Vector Graphics Output
Description: Vector Graphics devices for 'SVG', 'DrawingML' for Microsoft Word,
PowerPoint and Excel. Functions extending package 'officer' are provided to
embed DrawingML graphics into 'Microsoft Word' or 'Microsoft PowerPoint' documents.
Author: David Gohel [aut, cre],
Bob Rudis [ctb] (the javascript code used by function set_attr),
Francois Brunetti [ctb] (clipping algorithms)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between rvg versions 0.1.2 dated 2017-01-03 and 0.1.3 dated 2017-03-12
rvg-0.1.2/rvg/R/write_docx.R |only rvg-0.1.2/rvg/R/write_pptx.R |only rvg-0.1.2/rvg/R/write_xlsx.R |only rvg-0.1.2/rvg/inst/templates/vanilla.docx |only rvg-0.1.2/rvg/inst/templates/vanilla.pptx |only rvg-0.1.2/rvg/man/write_docx.Rd |only rvg-0.1.2/rvg/man/write_pptx.Rd |only rvg-0.1.2/rvg/man/write_xlsx.Rd |only rvg-0.1.2/rvg/tests/testthat/test-dml-extensions.R |only rvg-0.1.2/rvg/tests/testthat/test-dml-filename.R |only rvg-0.1.3/rvg/DESCRIPTION | 17 +++--- rvg-0.1.3/rvg/MD5 | 53 +++++++++------------ rvg-0.1.3/rvg/NAMESPACE | 18 +++---- rvg-0.1.3/rvg/NEWS | 5 + rvg-0.1.3/rvg/R/body_add_vg.R |only rvg-0.1.3/rvg/R/dml_docx.R | 34 ------------- rvg-0.1.3/rvg/R/dml_pptx.R | 33 ------------- rvg-0.1.3/rvg/R/dml_xlsx.R | 33 ------------- rvg-0.1.3/rvg/R/dsvg.R | 2 rvg-0.1.3/rvg/R/dsvg_view.R | 1 rvg-0.1.3/rvg/R/ph_with_vg.R |only rvg-0.1.3/rvg/R/utils.R | 27 ---------- rvg-0.1.3/rvg/README.md |only rvg-0.1.3/rvg/man/body_add_vg.Rd |only rvg-0.1.3/rvg/man/dml_docx.Rd | 11 ---- rvg-0.1.3/rvg/man/dml_pptx.Rd | 12 ---- rvg-0.1.3/rvg/man/dml_xlsx.Rd | 12 ---- rvg-0.1.3/rvg/man/dsvg.Rd | 1 rvg-0.1.3/rvg/man/dsvg_view.Rd | 1 rvg-0.1.3/rvg/man/ph_with_vg.Rd |only rvg-0.1.3/rvg/man/rvg_tracer_off.Rd | 1 rvg-0.1.3/rvg/man/rvg_tracer_on.Rd | 1 rvg-0.1.3/rvg/man/set_attr.Rd | 1 rvg-0.1.3/rvg/src/registerDynamicSymbol.c |only rvg-0.1.3/rvg/tests/testthat/test-docx-raster.R | 31 ------------ rvg-0.1.3/rvg/tests/testthat/test-officer.R |only 36 files changed, 62 insertions(+), 232 deletions(-)
Title: 'STK++' Core Library Integration to 'R' using 'Rcpp'
Description: 'STK++' <http://www.stkpp.org> is a collection of
C++ classes for statistics, clustering, linear algebra, arrays (with an
'Eigen'-like API), regression, dimension reduction, etc. The integration of
the library to R is using Rcpp.
The rtkore package includes the header files from the 'STK++' core library.
All files contain only templated classes and/or inlined functions.
'STK++' is licensed under the GNU LGPL version 2 or later. rtkore
(the stkpp integration into R) is licensed under the
GNU GPL version 2 or later. See file LICENSE.note for details.
Author: Serge Iovleff [aut, cre],
Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff <serge.iovleff@stkpp.org>
Diff between rtkore versions 1.2.0 dated 2016-11-23 and 1.2.2 dated 2017-03-12
rtkore-1.2.0/rtkore/src/rtkpp.cpp |only rtkore-1.2.0/rtkore/vignettes/images/bench1.png |only rtkore-1.2.0/rtkore/vignettes/images/bench1bis.png |only rtkore-1.2.0/rtkore/vignettes/images/bench1log.png |only rtkore-1.2.0/rtkore/vignettes/images/bench2.png |only rtkore-1.2.0/rtkore/vignettes/images/bench3.png |only rtkore-1.2.0/rtkore/vignettes/images/bench3Without.png |only rtkore-1.2.0/rtkore/vignettes/images/bench3log.png |only rtkore-1.2.0/rtkore/vignettes/images/bench3openMP.png |only rtkore-1.2.0/rtkore/vignettes/images/bench4.png |only rtkore-1.2.0/rtkore/vignettes/images/benchRandom.png |only rtkore-1.2.0/rtkore/vignettes/images/benchUnroll.png |only rtkore-1.2.0/rtkore/vignettes/images/block.png |only rtkore-1.2.0/rtkore/vignettes/images/datastorage.png |only rtkore-1.2.0/rtkore/vignettes/images/logo_stkpp.png |only rtkore-1.2.2/rtkore/DESCRIPTION | 18 rtkore-1.2.2/rtkore/MD5 | 89 +-- rtkore-1.2.2/rtkore/R/rtkoreFlags.R | 7 rtkore-1.2.2/rtkore/build/vignette.rds |binary rtkore-1.2.2/rtkore/inst/NEWS.Rd | 6 rtkore-1.2.2/rtkore/inst/doc/rtkpp-QuickRef.Rnw | 93 +-- rtkore-1.2.2/rtkore/inst/doc/rtkpp-QuickRef.pdf |binary rtkore-1.2.2/rtkore/inst/doc/rtkpp-Tips.Rnw | 2 rtkore-1.2.2/rtkore/inst/doc/rtkpp-Tips.pdf |binary rtkore-1.2.2/rtkore/inst/doc/rtkpp-arrays.Rnw | 2 rtkore-1.2.2/rtkore/inst/doc/rtkpp-arrays.pdf |binary rtkore-1.2.2/rtkore/inst/doc/rtkpp-introduction.Rnw | 16 rtkore-1.2.2/rtkore/inst/doc/rtkpp-introduction.pdf |binary rtkore-1.2.2/rtkore/inst/include/DManager.h | 1 rtkore-1.2.2/rtkore/inst/include/RTKpp.h | 12 rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_CAllocator.h | 17 rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_ICArray.h | 3 rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_Iterators.h | 28 + rtkore-1.2.2/rtkore/inst/projects/DManager/include/STK_CvHandler.h | 250 ++++++---- rtkore-1.2.2/rtkore/inst/projects/DManager/include/STK_PartitionHandler.h |only rtkore-1.2.2/rtkore/inst/projects/Sdk/include/STK_IRunner.h | 10 rtkore-1.2.2/rtkore/inst/projects/Sdk/include/STK_MacrosVersion.h | 2 rtkore-1.2.2/rtkore/man/rtkoreFlags.Rd | 6 rtkore-1.2.2/rtkore/src/fastRand.cpp | 4 rtkore-1.2.2/rtkore/src/init_rtkore.c |only rtkore-1.2.2/rtkore/src/rtkore.cpp |only rtkore-1.2.2/rtkore/src/rtkore.h |only rtkore-1.2.2/rtkore/tests/testFastRand.R | 212 +++++++- rtkore-1.2.2/rtkore/vignettes/programs/tutoAddingCols.out | 16 rtkore-1.2.2/rtkore/vignettes/programs/tutoAddingRows.out | 18 rtkore-1.2.2/rtkore/vignettes/programs/tutoAppliers.out | 12 rtkore-1.2.2/rtkore/vignettes/programs/tutoCenteringAnArray.out | 16 rtkore-1.2.2/rtkore/vignettes/programs/tutoRemoveRowsAndCols.out | 16 rtkore-1.2.2/rtkore/vignettes/programs/tutoRowsAndCols.cpp | 18 rtkore-1.2.2/rtkore/vignettes/programs/tutoRowsAndCols.out | 25 - rtkore-1.2.2/rtkore/vignettes/programs/tutoStatFunctors.out | 20 rtkore-1.2.2/rtkore/vignettes/rtkpp-QuickRef.Rnw | 93 +-- rtkore-1.2.2/rtkore/vignettes/rtkpp-Tips.Rnw | 2 rtkore-1.2.2/rtkore/vignettes/rtkpp-arrays.Rnw | 2 rtkore-1.2.2/rtkore/vignettes/rtkpp-introduction.Rnw | 16 55 files changed, 655 insertions(+), 377 deletions(-)
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to view and analyze seismic data, via spectrum analysis, wavelet transforms, particle motion, hodograms. Includes general time-series tools, plotting, filtering, interactive display.
Author: Jonathan M. Lees
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>
Diff between RSEIS versions 3.6-8 dated 2016-09-23 and 3.7-4 dated 2017-03-12
DESCRIPTION | 8 +++---- MD5 | 21 ++++++++++++------- R/Mine.seis.R | 1 R/Zdate.R | 4 +-- R/convertATT.R |only R/dateStamp.R | 4 +-- R/infoDB.R | 57 ++++++++++++++++++++++++++++++++++++++++++++++++++++-- R/j2posix.R |only man/Zdate.Rd | 16 ++++++++++++--- man/autoreg.Rd | 4 +-- man/convertATT.Rd |only man/j2posix.Rd |only src/ARAIC.c | 12 +++++------ src/init.c |only 14 files changed, 98 insertions(+), 29 deletions(-)
Title: R Interface to SDMX Web Services
Description: Provides functions to retrieve data and metadata from providers
that disseminate data by means of SDMX web services.
SDMX (Statistical Data and Metadata eXchange) is a standard that
has been developed with the aim of simplifying the exchange of
statistical information.
More about the SDMX standard and the SDMX Web Services
can be found at: http://sdmx.org .
Author: Attilio Mattiocco, Diana Nicoletti, Gianpaolo Lopez, Banca d'Italia
Maintainer: Attilio Mattiocco <attilio.mattiocco@bancaditalia.it>
Diff between RJSDMX versions 1.6-2 dated 2016-05-24 and 1.7 dated 2017-03-12
DESCRIPTION | 6 ++-- MD5 | 8 ++--- R/TSConverter.R | 72 +++++++++++++++++++++++++++++++++++------------------ R/onLoad.R | 6 ---- inst/java/SDMX.jar |binary 5 files changed, 55 insertions(+), 37 deletions(-)
Title: Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Description: Implementation of the following methods for event history analysis.
Risk regression models for survival endpoints also in the presence of
competing risks are fitted using binomial regression based on a time sequence
of binary event status variables. A formula interface for the Fine-Gray regression
model and an interface for the combination of cause-specific Cox regression models.
A toolbox for assessing and
comparing performance of risk predictions (risk markers and risk prediction models).
Prediction performance is measured by the Brier score and the area under the ROC curve
for binary possibly time-dependent outcome.
Inverse probability of censoring weighting and pseudo values are used to deal with right censored data.
Lists of risk markers and lists of risk models are assessed simultaneously.
Cross-validation repeatedly splits the data, trains the risk prediction models on one part of each split
and then summarizes and compares the performance across splits.
Author: Thomas Alexander Gerds, Thomas Harder Scheike, Paul Blanche, Brice Ozenne
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 1.3.3 dated 2017-03-07 and 1.3.7 dated 2017-03-12
DESCRIPTION | 6 MD5 | 35 +- NAMESPACE | 1 R/CSC.R | 2 R/FGR.R | 1 R/ate.R | 612 +++++++++++++++++++++++++-------------------- R/iidCox.R | 27 + R/plotEffects.R | 1 R/riskRegression-package.R | 2 R/riskRegression.R | 16 - R/subjectWeights.R | 1 man/CSC.Rd | 2 man/FGR.Rd | 1 man/ate.Rd | 3 man/findP1.Rd |only man/plotEffects.Rd | 1 man/riskRegression.Rd | 16 - man/subjectWeights.Rd | 1 src/predictCIF.cpp | 6 19 files changed, 404 insertions(+), 330 deletions(-)
More information about riskRegression at CRAN
Permanent link
Title: Access iNaturalist Data Through APIs
Description: A programmatic interface to the API provided by the iNaturalist website <http://inaturalist.org> to download species occurrence data submitted by citizen scientists.
Author: Vijay Barve<vijay.barve@gmail.com>,
Edmund Hart <edmund.m.hart@gmail.com>
Maintainer: Edmund Hart <edmund.m.hart@gmail.com>
Diff between rinat versions 0.1.4 dated 2014-07-03 and 0.1.5 dated 2017-03-12
rinat-0.1.4/rinat/vignettes/rinatVignette.html |only rinat-0.1.4/rinat/vignettes/rinatVignette.pdf |only rinat-0.1.5/rinat/DESCRIPTION | 16 rinat-0.1.5/rinat/MD5 | 45 - rinat-0.1.5/rinat/NAMESPACE | 2 rinat-0.1.5/rinat/NEWS.md |only rinat-0.1.5/rinat/R/get_inat_obs.R | 26 rinat-0.1.5/rinat/R/get_inat_obs_id.R | 17 rinat-0.1.5/rinat/R/get_inat_obs_user.R | 4 rinat-0.1.5/rinat/R/globals.R | 2 rinat-0.1.5/rinat/R/inat_map.R | 21 rinat-0.1.5/rinat/README.md | 909 +++++++++---------------- rinat-0.1.5/rinat/build |only rinat-0.1.5/rinat/inst/doc |only rinat-0.1.5/rinat/inst/map.png |binary rinat-0.1.5/rinat/man/get_inat_obs.Rd | 48 - rinat-0.1.5/rinat/man/get_inat_obs_id.Rd | 8 rinat-0.1.5/rinat/man/get_inat_obs_project.Rd | 6 rinat-0.1.5/rinat/man/get_inat_obs_user.Rd | 6 rinat-0.1.5/rinat/man/get_inat_taxon_stats.Rd | 4 rinat-0.1.5/rinat/man/get_inat_user_stats.Rd | 4 rinat-0.1.5/rinat/man/inat_map.Rd | 6 rinat-0.1.5/rinat/tests |only rinat-0.1.5/rinat/vignettes/rinatVignette.Rmd | 449 +----------- rinat-0.1.5/rinat/vignettes/rinatVignette.md | 12 25 files changed, 531 insertions(+), 1054 deletions(-)
More information about rdataretriever at CRAN
Permanent link
Title: Distributed 'randomForest' for Big Data using 'ddR' API
Description: Distributed training and prediction of random forest models based upon 'randomForest' package using 'ddR' (Distributed Data Structures) API in the 'ddR' package.
Author: Vishrut Gupta, Arash Fard, Winston Li, Matthew Saltz
Maintainer: Indrajit Roy <indrajitroy@google.com>
Diff between randomForest.ddR versions 0.1.1 dated 2015-11-06 and 0.1.2 dated 2017-03-12
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- man/drandomForest.Rd | 2 +- 3 files changed, 8 insertions(+), 8 deletions(-)
More information about randomForest.ddR at CRAN
Permanent link
Title: Quantile Universal Threshold
Description: Selection of a threshold parameter based on the Quantile Universal Threshold (QUT) for GLM-lasso and Square-root lasso to obtain a sparse model
with a good compromise between high true positive rate and low false discovery rate.
Author: Jairo Diaz Rodriguez, Sylvain Sardy, Caroline Giacobino, Nick Hengartner.
Maintainer: Jairo Diaz Rodriguez<jairo.diaz@unige.ch>
Diff between qut versions 1.1 dated 2016-09-09 and 1.2 dated 2017-03-12
qut-1.1/qut/R/slimsd.R |only qut-1.1/qut/man/slimsd.Rd |only qut-1.2/qut/DESCRIPTION | 8 +++---- qut-1.2/qut/MD5 | 16 ++++++--------- qut-1.2/qut/NAMESPACE | 2 - qut-1.2/qut/R/coef.qut.R | 6 ++++- qut-1.2/qut/R/lambdaqut.R | 42 ++++++++++++++++++++++++++++++----------- qut-1.2/qut/R/qut.R | 25 ++++++++++++++++++++---- qut-1.2/qut/man/qut-package.Rd | 2 - qut-1.2/qut/man/qut.Rd | 2 - 10 files changed, 71 insertions(+), 32 deletions(-)
Title: Calculating Proportionality Between Vectors of Compositional
Data
Description: The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, this approach lacks statistical validity
when applied to relative count data. This includes, for example, biological data
produced by high-throughput RNA-sequencing, chromatin immunoprecipitation (ChIP),
ChIP-sequencing, Methyl-Capture sequencing, and other techniques. Two metrics of
proportionality, phi [Lovell et al (2015) <DOI:10.1371/journal.pcbi.1004075>]
and rho [Erb and Notredame (2016) <DOI:10.1007/s12064-015-0220-8>], both derived
from compositional data analysis, a branch of math dealing specifically with
relative data, represent novel alternatives to correlation. This package
introduces a programmatic framework for calculating feature dependence through
proportionality, as discussed in the cited publications.
Author: Thomas Quinn [aut, cre],
David Lovell [aut],
Ionas Erb [ctb],
Anders Bilgrau [ctb],
Greg Gloor [ctb]
Maintainer: Thomas Quinn <contacttomquinn@gmail.com>
Diff between propr versions 2.1.2 dated 2017-02-01 and 2.1.8 dated 2017-03-12
propr-2.1.2/propr/R/lrmodel.R |only propr-2.1.2/propr/R/proportionality.R |only propr-2.1.2/propr/R/visualize.R |only propr-2.1.2/propr/man/lrmodel-class.Rd |only propr-2.1.2/propr/man/modelCLR.Rd |only propr-2.1.2/propr/tests/testthat/test-lrmodel.R |only propr-2.1.8/propr/DESCRIPTION | 18 +- propr-2.1.8/propr/MD5 | 60 ++++---- propr-2.1.8/propr/NAMESPACE | 10 - propr-2.1.8/propr/NEWS.md | 52 +++++++ propr-2.1.8/propr/R/RcppExports.R | 16 ++ propr-2.1.8/propr/R/aldex.cor.R |only propr-2.1.8/propr/R/aldex2propr.R |only propr-2.1.8/propr/R/global.R | 147 +++++++++++++++++++- propr-2.1.8/propr/R/methods.R | 2 propr-2.1.8/propr/R/propr.R |only propr-2.1.8/propr/R/proprViz.R |only propr-2.1.8/propr/build/vignette.rds |binary propr-2.1.8/propr/inst/doc/introduction.Rmd | 4 propr-2.1.8/propr/inst/doc/introduction.html | 8 - propr-2.1.8/propr/inst/doc/questions.R |only propr-2.1.8/propr/inst/doc/questions.Rmd |only propr-2.1.8/propr/inst/doc/questions.html |only propr-2.1.8/propr/inst/doc/visualize.Rmd | 10 - propr-2.1.8/propr/inst/doc/visualize.html | 17 +- propr-2.1.8/propr/man/aldex.cor.Rd |only propr-2.1.8/propr/man/aldex2propr.Rd |only propr-2.1.8/propr/man/lr2cor.Rd |only propr-2.1.8/propr/man/migraph.Rd |only propr-2.1.8/propr/man/progress.Rd |only propr-2.1.8/propr/man/proportionality.Rd | 11 + propr-2.1.8/propr/man/top.Rd | 5 propr-2.1.8/propr/man/visualize.Rd | 15 +- propr-2.1.8/propr/src/RcppExports.cpp | 44 +++++ propr-2.1.8/propr/src/backend.cpp | 23 --- propr-2.1.8/propr/src/backend.h |only propr-2.1.8/propr/src/init.c |only propr-2.1.8/propr/src/lr2propr.cpp |only propr-2.1.8/propr/tests/testthat/test-aldex2propr.R |only propr-2.1.8/propr/tests/testthat/test-lr2propr.R |only propr-2.1.8/propr/vignettes/introduction.Rmd | 4 propr-2.1.8/propr/vignettes/questions.Rmd |only propr-2.1.8/propr/vignettes/visualize.Rmd | 10 - 43 files changed, 361 insertions(+), 95 deletions(-)
Title: Person-Centered Analysis
Description: The prcr package provides an easy-to-use yet adaptable set of tools to conduct person-center analysis using cluster analysis. While person-centered analysis is increasingly common in psychology, education, and related fields, carrying it out is challenging.
Author: person("Joshua", "M.", "Rosenberg", role = c("aut", "cre"), email = "jmichaelrosenberg@gmail.com")
Maintainer: Joshua Rosenberg <jmichaelrosenberg@gmail.com>
Diff between prcr versions 0.1.0 dated 2017-02-17 and 0.1.1 dated 2017-03-12
DESCRIPTION | 10 ++++---- MD5 | 15 ++++++------ NEWS.md |only R/functions.R | 29 +++++++++++++++++++----- README.md | 43 +++++++++++-------------------------- build/vignette.rds |binary inst/doc/introduction_to_prcr.Rmd | 4 +-- inst/doc/introduction_to_prcr.html | 10 ++++---- vignettes/introduction_to_prcr.Rmd | 4 +-- 9 files changed, 58 insertions(+), 57 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 5.3 dated 2016-10-01 and 5.4 dated 2017-03-12
DESCRIPTION | 13 - MD5 | 178 +++++++-------- NAMESPACE | 7 NEWS | 26 ++ R/AutoFitPhenology.R |only R/BE_to_LBLE.R | 4 R/LBLE_to_BE.R | 2 R/LBLE_to_L.R | 2 R/L_to_LBLE.R | 2 R/Likelihood_phenology.R | 34 +- R/Lnegbin.R | 494 ++++++++++++++++++++++++++++++------------- R/adapt_parameters.R | 2 R/add_SD.R | 16 - R/add_phenology.R | 16 - R/extract_result.R | 15 - R/fitRMU.R | 28 +- R/fitRMU_MHmcmc.R | 4 R/fit_phenology.R | 166 +++++++++----- R/map_phenology.R | 83 +++---- R/par_init.R | 52 ++-- R/phenology-package.R | 9 R/phenology_MHmcmc.R | 44 ++- R/phenology_MHmcmc_p.R | 4 R/plot.phenology.R | 494 ++++++++++++------------------------------- R/plot.phenologymap.R | 13 - R/plot_delta.R | 6 R/plot_phi.R | 6 R/print.phenology.R | 51 ++-- R/print.phenologymap.R | 12 - R/print.phenologyout.R | 103 ++++---- R/read_phenology.R | 4 R/remove_site.R | 4 R/repeat_last.R |only R/result_Gratiot.R | 11 R/result_Gratiot_mcmc.R | 23 ++ R/shift_sinusoid.R | 18 - R/summary.phenology.R | 273 ++++++++++++++++++++++- R/summary.phenologymap.R | 6 R/summary.phenologyout.R | 30 +- R/toggle_Min_PMin.R | 6 data/map_Gratiot.rda |binary data/result_Gratiot.rda |binary data/result_Gratiot_Flat.rda |binary data/result_Gratiot_mcmc.rda |binary inst/shiny/babel.Rdata |binary inst/shiny/server.R | 362 +++++++++++++------------------ inst/shiny/ui.R | 43 ++- inst/shiny/www/spinner.gif |only man/AutoFitPhenology.Rd |only man/BE_to_LBLE.Rd | 5 man/Gratiot.Rd | 7 man/LBLE_to_BE.Rd | 3 man/LBLE_to_L.Rd | 3 man/L_to_LBLE.Rd | 3 man/MinBMinE_to_Min.Rd | 1 man/adapt_parameters.Rd | 3 man/add_SD.Rd | 10 man/add_phenology.Rd | 7 man/extract_result.Rd | 11 man/fitRMU.Rd | 11 man/fitRMU_MHmcmc.Rd | 7 man/fitRMU_MHmcmc_p.Rd | 7 man/fit_phenology.Rd | 44 +-- man/likelihood_phenology.Rd | 20 + man/logLik.fitRMU.Rd | 7 man/logLik.phenology.Rd | 1 man/map_Gratiot.Rd | 7 man/map_phenology.Rd | 26 +- man/par_init.Rd | 9 man/phenology-package.Rd | 16 - man/phenology.Rd | 1 man/phenology_MHmcmc.Rd | 17 + man/phenology_MHmcmc_p.Rd | 5 man/plot.fitRMU.Rd | 7 man/plot.phenology.Rd | 83 ++++--- man/plot.phenologymap.Rd | 7 man/plot_delta.Rd | 7 man/plot_phi.Rd | 7 man/print.phenology.Rd | 9 man/print.phenologymap.Rd | 9 man/print.phenologyout.Rd | 19 - man/remove_site.Rd | 5 man/result_Gratiot.Rd | 16 + man/result_Gratiot1.Rd | 7 man/result_Gratiot2.Rd | 7 man/result_Gratiot_Flat.Rd | 7 man/result_Gratiot_mcmc.Rd | 28 ++ man/shift_sinusoid.Rd | 13 - man/summary.phenology.Rd | 36 ++- man/summary.phenologymap.Rd | 7 man/summary.phenologyout.Rd | 19 - man/toggle_Min_PMin.Rd | 1 92 files changed, 1781 insertions(+), 1410 deletions(-)
Title: L1-Norm PCA Methods
Description: Implementations of several methods for principal component analysis
using the L1 norm. The package depends on COIN-OR Clp version >=
1.12.0. The methods implemented are
PCA-L1 (Kwak 2008) <DOI:10.1109/TPAMI.2008.114>,
L1-PCA (Ke and Kanade 2003, 2005) <DOI:10.1109/CVPR.2005.309>,
L1-PCA* (Brooks, Dula, and Boone 2013) <DOI:10.1016/j.csda.2012.11.007>,
L1-PCAhp (Visentin, Prestwich and Armagan 2016)
<DOI:10.1007/978-3-319-46227-1_37>,
wPCA (Park and Klabjan 2016),
awPCA (Park and Klabjan 2016),
PCA-Lp (Kwak 2014) <DOI:10.1109/TCYB.2013.2262936>, and
SharpEL1-PCA (Brooks and Dula, submitted).
Author: Sapan Jot <sapan.madaan@gmail.com>, Paul Brooks
<jpbrooks@vcu.edu>,
Andrea Visentin <andrea.visentin@insight-centre.org>,
Young Woong Park <ywpark@mail.smu.edu>,
and Yi-Hui Zhou <yihui_zhou@ncsu.edu>
Maintainer: Paul Brooks <jpbrooks@vcu.edu>
Diff between pcaL1 versions 1.4.1 dated 2016-12-20 and 1.5 dated 2017-03-12
ChangeLog | 25 ++++++++ DESCRIPTION | 19 +++--- INSTALL | 9 ++ MD5 | 88 +++++++++++++++++----------- NAMESPACE | 31 ++++++--- NEWS | 5 + R/awl1pca.R | 28 ++++++-- R/l1pca.R | 35 +++++++---- R/l1pcahp.R | 49 +++++++++++---- R/l1pcastar.R | 35 ++++++++--- R/l1projection.R |only R/l2projection.R |only R/pcal1.R | 30 +++++++-- R/pcalp.R |only R/plot.pcalp.R |only R/plot.sharpel1pca.R |only R/sharpel1pca.R |only R/wl1pca.R | 150 +++++++++++++++++++++++++----------------------- configure | 18 ++--- configure.ac | 2 inst/CITATION | 10 +-- man/awl1pca.Rd | 5 - man/l1pca.Rd | 8 +- man/l1pcahp.Rd | 9 +- man/l1pcastar.Rd | 14 ++-- man/l1projection.Rd |only man/l2projection.Rd |only man/pcaL1-package.Rd | 17 ++++- man/pcal1.Rd | 11 +-- man/pcalp.Rd |only man/plot.l1pcahp.Rd | 2 man/plot.l1pcastar.Rd | 2 man/plot.pcal1.Rd | 2 man/plot.pcalp.Rd |only man/plot.sharpel1pca.Rd |only man/sharpel1pca.Rd |only man/wl1pca.Rd | 5 - src/Makevars.in | 1 src/init.c |only src/l1pca.c | 17 +---- src/l1pca_R.c | 4 - src/l1pcahp.c | 8 +- src/l1pcahp_R.c | 4 - src/l1pcastar.c | 56 ++++++++--------- src/l1pcastar_R.c | 19 +++--- src/l1projection.c |only src/l1projection_R.c |only src/pcaL1-win.def |only src/pcal1.c | 45 +++++++------- src/pcal1_R.c | 4 - src/pcalp.c |only src/pcalp_R.c |only src/sharpel1pca.c |only src/sharpel1pca_R.c |only src/type.h | 32 +++++++++- 55 files changed, 496 insertions(+), 303 deletions(-)
Title: Modelling and Inferencing Attachment Mechanisms of Temporal
Complex Networks
Description: A framework for modelling and inferencing attachment mechanisms of temporal complex networks is implemented in this package. For estimating the preferential attachment (PA) function in isolation, we implement Jeong's method, the corrected Newman's method and the PAFit method. For jointly estimating the PA function and node fitnesses, we implement the PAFit method. The package also provides flexible methods to generate a wide range of temporal networks based on PA and fitness.
Author: Thong Pham, Paul Sheridan, Hidetoshi Shimodaira
Maintainer: Thong Pham <thongpham@thongpham.net>
Diff between PAFit versions 0.9.6 dated 2017-02-01 and 0.9.8.2 dated 2017-03-12
PAFit-0.9.6/PAFit/R/Newman_corrected.R |only PAFit-0.9.6/PAFit/R/calculate_error_PA.R |only PAFit-0.9.6/PAFit/R/calculate_error_fitness.R |only PAFit-0.9.6/PAFit/R/performCV.R |only PAFit-0.9.6/PAFit/man/CreateDataCV.Rd |only PAFit-0.9.6/PAFit/man/Newman_corrected.rd |only PAFit-0.9.6/PAFit/man/PAFit.Rd |only PAFit-0.9.6/PAFit/man/calculate_error_PA.rd |only PAFit-0.9.6/PAFit/man/calculate_error_fitness.rd |only PAFit-0.9.6/PAFit/man/performCV.Rd |only PAFit-0.9.6/PAFit/man/print.PAFit_data.Rd |only PAFit-0.9.6/PAFit/man/print.PAFit_result.Rd |only PAFit-0.9.6/PAFit/man/print.PA_result.rd |only PAFit-0.9.6/PAFit/man/print.cv_data.rd |only PAFit-0.9.6/PAFit/man/print.cv_result.rd |only PAFit-0.9.6/PAFit/man/summary.PAFit_data.Rd |only PAFit-0.9.6/PAFit/man/summary.PAFit_result.Rd |only PAFit-0.9.6/PAFit/man/summary.PA_result.rd |only PAFit-0.9.6/PAFit/man/summary.cv_data.rd |only PAFit-0.9.6/PAFit/man/summary.cv_result.rd |only PAFit-0.9.6/PAFit/tests/test_CV.R |only PAFit-0.9.6/PAFit/tests/test_CV_2.R |only PAFit-0.9.8.2/PAFit/DESCRIPTION | 15 PAFit-0.9.8.2/PAFit/MD5 | 115 PAFit-0.9.8.2/PAFit/NAMESPACE | 24 PAFit-0.9.8.2/PAFit/R/CreateDataCV.R | 2 PAFit-0.9.8.2/PAFit/R/CreateDataCV_new.R |only PAFit-0.9.8.2/PAFit/R/CreateDataCV_onlyA.R |only PAFit-0.9.8.2/PAFit/R/GenerateNet.R | 298 - PAFit-0.9.8.2/PAFit/R/Generate_BA.R |only PAFit-0.9.8.2/PAFit/R/Generate_BB.R |only PAFit-0.9.8.2/PAFit/R/Generate_ER.R |only PAFit-0.9.8.2/PAFit/R/Generate_fitonly.R |only PAFit-0.9.8.2/PAFit/R/GetStatistics.R | 45 PAFit-0.9.8.2/PAFit/R/Jeong.R | 114 PAFit-0.9.8.2/PAFit/R/JointEstimate.R |only PAFit-0.9.8.2/PAFit/R/Newman.R |only PAFit-0.9.8.2/PAFit/R/OnlyA_CV.R |only PAFit-0.9.8.2/PAFit/R/OnlyA_Estimate.R |only PAFit-0.9.8.2/PAFit/R/OnlyF_CV.R |only PAFit-0.9.8.2/PAFit/R/OnlyF_Estimate.R |only PAFit-0.9.8.2/PAFit/R/PAFit.R | 2573 ++++++------- PAFit-0.9.8.2/PAFit/R/RcppExports.R | 20 PAFit-0.9.8.2/PAFit/R/performCV_old.R |only PAFit-0.9.8.2/PAFit/R/perform_CV_core.R |only PAFit-0.9.8.2/PAFit/R/plot.pa_result.R | 81 PAFit-0.9.8.2/PAFit/R/plot.pafit_result.r | 301 - PAFit-0.9.8.2/PAFit/R/print.CV_Result.R | 6 PAFit-0.9.8.2/PAFit/R/print.pafit_data.r | 2 PAFit-0.9.8.2/PAFit/R/print.pafit_result.r | 21 PAFit-0.9.8.2/PAFit/R/summary.CV_Result.R | 6 PAFit-0.9.8.2/PAFit/R/summary.pafit_data.r | 2 PAFit-0.9.8.2/PAFit/R/summary.pafit_result.r | 28 PAFit-0.9.8.2/PAFit/build/vignette.rds |binary PAFit-0.9.8.2/PAFit/data |only PAFit-0.9.8.2/PAFit/inst/NEWS.Rd | 21 PAFit-0.9.8.2/PAFit/man/ComplexNetCoauthor.rd |only PAFit-0.9.8.2/PAFit/man/GenerateNet.Rd | 83 PAFit-0.9.8.2/PAFit/man/Generate_BA.rd |only PAFit-0.9.8.2/PAFit/man/Generate_BB.rd |only PAFit-0.9.8.2/PAFit/man/Generate_ER.rd |only PAFit-0.9.8.2/PAFit/man/Generate_fitonly.rd |only PAFit-0.9.8.2/PAFit/man/GetStatistics.Rd | 26 PAFit-0.9.8.2/PAFit/man/Jeong.rd | 49 PAFit-0.9.8.2/PAFit/man/JointEstimate.rd |only PAFit-0.9.8.2/PAFit/man/Newman.rd |only PAFit-0.9.8.2/PAFit/man/OnlyA_Estimate.rd |only PAFit-0.9.8.2/PAFit/man/OnlyF_Estimate.rd |only PAFit-0.9.8.2/PAFit/man/PAFit-package.Rd | 105 PAFit-0.9.8.2/PAFit/man/plot.PAFit_result.Rd | 65 PAFit-0.9.8.2/PAFit/man/plot.PA_result.rd | 32 PAFit-0.9.8.2/PAFit/src/Cpp_code.cpp | 338 + PAFit-0.9.8.2/PAFit/src/RcppExports.cpp | 81 PAFit-0.9.8.2/PAFit/src/init.c |only PAFit-0.9.8.2/PAFit/tests/loop_PAFit.R | 2 PAFit-0.9.8.2/PAFit/tests/loop_joint_estimate.R |only PAFit-0.9.8.2/PAFit/tests/test_GenerateNet_final_padding.R |only PAFit-0.9.8.2/PAFit/tests/test_Newman_Kong.R | 20 PAFit-0.9.8.2/PAFit/tests/test_PAFit.R | 21 PAFit-0.9.8.2/PAFit/tests/test_PAFit_log_linear.R | 7 PAFit-0.9.8.2/PAFit/tests/test_PA_only_f.R |only PAFit-0.9.8.2/PAFit/tests/test_joint_estimate.R |only PAFit-0.9.8.2/PAFit/tests/test_overall.R | 25 PAFit-0.9.8.2/PAFit/tests/test_true_f.R |only PAFit-0.9.8.2/PAFit/tests/test_variance_s.R |only 85 files changed, 2676 insertions(+), 1852 deletions(-)
Title: Testing for Partial Copulas and the Simplifying Assumption in
Vine Copulas
Description: Routines for two different test types, the Equal Correlation (ECORR) test and the Vectorial Independence (VI) test are provided. The tests can be applied to check whether a conditional copula coincides with its partial copula. Functions to test whether a regular vine copula satisfies the so-called simplifying assumption or to test a single copula within a regular vine copula to be a (j-1)-th order partial copula are available. The ECORR test comes with a decision tree approach to allow testing in high-dimensional settings.
Author: Malte S. Kurz [aut, cre]
Maintainer: Malte S. Kurz <malte.kurz@stat.uni-muenchen.de>
Diff between pacotest versions 0.2 dated 2017-02-15 and 0.2.1 dated 2017-03-12
pacotest-0.2.1/pacotest/DESCRIPTION | 8 pacotest-0.2.1/pacotest/MD5 | 19 pacotest-0.2.1/pacotest/NEWS.md |only pacotest-0.2.1/pacotest/R/pacotestRVine.R | 20 pacotest-0.2.1/pacotest/R/utilitiesRVineEqualCorrHelpingFunctions.R | 12 pacotest-0.2.1/pacotest/R/utilitiesRVineEqualCorrOmega.R | 424 +++++++++- pacotest-0.2.1/pacotest/README.md | 19 pacotest-0.2.1/pacotest/src/EqualCop.cpp | 92 +- pacotest-0.2.1/pacotest/src/Grouping.cpp | 32 pacotest-0.2.1/pacotest/src/pacotest-init.c |only pacotest-0.2.1/pacotest/tests/testthat/hardCodedResPacotestRvineSingleCopula.csv | 14 pacotest-0.2/pacotest/src/pacotest_init.c |only 12 files changed, 516 insertions(+), 124 deletions(-)
Title: Partition-Assisted Clustering and Multiple Alignments of
Networks
Description: Implements Partition-Assisted Clustering and Multiple Alignments of Networks. It 1) utilizes partition-assisted clustering to find robust and accurate clusters and 2) discovers coherent relationships of clusters across multiple samples. It is particularly useful for analyzing single-cell data set.
Author: Ye Henry Li, Dangna Li
Maintainer: Ye Henry Li <ywli@stanford.edu>
Diff between PAC versions 1.0.6 dated 2017-01-23 and 1.0.7 dated 2017-03-12
DESCRIPTION | 10 +-- MD5 | 32 ++++++----- NAMESPACE | 6 +- R/MINetworkPlot_topEdges.R | 10 ++- R/MINetwork_matrix_topEdges.R | 7 +- R/MINetwork_simpliefied_topEdges.R | 5 + R/PAC.R | 13 ++++ R/getRepresentativeNetworks.R | 2 R/samplePass.R | 2 inst/doc/intro.md | 2 man/MINetworkPlot_topEdges.Rd | 4 - man/MINetwork_matrix_topEdges.Rd | 4 - man/PAC.Rd | 12 ++++ src/registerDynamicSymbol.c |only vignettes/bioexample.Rmd | 6 +- vignettes/bioexample.html | 104 ++++++++++++++++++------------------- vignettes/bioexample.md | 102 ++++++++++++++++++------------------ vignettes/intro.md |only 18 files changed, 180 insertions(+), 141 deletions(-)
Title: Estimation of Ordered Generalized Linear Models
Description: Ordered models such as ordered probit and ordered logit presume that the error variance is constant across observations. In the case that this assumption does not hold estimates of marginal effects are typically biased (Weiss (1997)). This package allows for generalization of ordered probit and ordered logit models by allowing the user to specify a model for the variance. Furthermore, the package includes functions to calculate the marginal effects. Wrapper functions to estimate the standard limited dependent variable models are also included.
Author: Nathan Carroll
Maintainer: Nathan Carroll <nathan.carroll@ur.de>
Diff between oglmx versions 2.0.0.1 dated 2016-08-24 and 2.0.0.3 dated 2017-03-12
DESCRIPTION | 10 ++++----- MD5 | 10 ++++----- R/oglmx-functions.R | 46 +++++++++++++++++++++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/oglmxVignette.pdf |binary 6 files changed, 42 insertions(+), 24 deletions(-)
Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Manipulate 'Microsoft Word' and 'Microsoft PowerPoint' documents from R.
The package focus on tabular and graphical reporting from R. A set of functions
lets add and remove images, tables and paragraphs of text in new or existing documents.
When working with 'PowerPoint' presentations, slides can be added or removed; shapes inside
slides can also be added or removed. When working with 'Word' documents, a cursor can be
used to help insert or delete content at a specific location in the document. The package
does not require any installation of Microsoft product to be able to write Microsoft files.
Author: David Gohel [aut, cre]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officer versions 0.1.0 dated 2017-03-01 and 0.1.1 dated 2017-03-12
DESCRIPTION | 8 +- MD5 | 123 ++++++++++++++++++------------------ NAMESPACE | 15 ++-- NEWS |only R/docx_add.R | 128 +++++++++++++++++++++++++++----------- R/docx_add_chunk.R | 39 ++++++++--- R/docx_cursor.R | 7 +- R/pack_folder.R | 25 ++++++- R/ppt_classes.R | 1 R/ppt_ph_add.R | 12 ++- R/ppt_ph_manipulate.R | 12 ++- R/ppt_ph_with.R | 12 ++- R/rcpp.R | 2 R/read_docx.R | 24 ++++--- R/read_pptx.R | 32 +++++---- R/shorcuts.R | 21 +++++- README.md | 2 inst/doc/powerpoint.R | 10 ++ inst/doc/powerpoint.Rmd | 10 ++ inst/doc/powerpoint.html | 54 ++++++++++------ inst/doc/word.R | 58 ++++++++++++++++- inst/doc/word.Rmd | 68 +++++++++++++++++++- inst/doc/word.html | 91 +++++++++++++++++++++++---- man/add_slide.Rd | 2 man/body_add_break.Rd | 4 - man/body_add_fpar.Rd | 4 - man/body_add_gg.Rd |only man/body_add_img.Rd | 7 +- man/body_add_par.Rd | 6 + man/body_add_table.Rd | 6 + man/body_add_toc.Rd | 4 - man/body_end_section.Rd | 4 - man/body_remove.Rd | 14 ++-- man/color_scheme.Rd | 2 man/cursor.Rd | 7 +- man/has_zip.Rd |only man/layout_properties.Rd | 2 man/on_slide.Rd | 7 +- man/ph_add_fpar.Rd | 3 man/ph_add_par.Rd | 6 + man/ph_add_text.Rd | 3 man/ph_empty.Rd | 3 man/ph_hyperlink.Rd | 4 - man/ph_remove.Rd | 4 - man/ph_slidelink.Rd | 4 - man/ph_with_img.Rd | 3 man/ph_with_table.Rd | 3 man/ph_with_text.Rd | 3 man/read_docx.Rd | 16 ++-- man/read_pptx.Rd | 16 +++- man/remove_slide.Rd | 2 man/slide_summary.Rd | 2 man/slip_in_img.Rd | 10 +- man/slip_in_seqfield.Rd | 10 +- man/slip_in_text.Rd | 10 +- man/styles_info.Rd | 2 tests/testthat/test-docx-add.R | 13 +++ tests/testthat/test-docx-insert.R | 3 tests/testthat/test-docx-misc.R | 7 ++ tests/testthat/test-pptx-add.R | 3 tests/testthat/test-pptx-misc.R | 4 + tests/testthat/utils.R | 2 vignettes/powerpoint.Rmd | 10 ++ vignettes/word.Rmd | 68 +++++++++++++++++++- 64 files changed, 765 insertions(+), 272 deletions(-)
Title: Noncompartmental Analysis for Pharmacokinetic Data
Description: Conduct a noncompartmental analysis as closely as possible to the most widely used commercial software for pharmacokinetic analysis, i.e. 'Phoenix(R) WinNonlin(R)' <https://www.certara.com/software/pkpd-modeling-and-simulation/phoenix-winnonlin/>.
Some features are
1) CDISC SDTM terms
2) Automatic slope selection with the same criterion of WinNonlin(R)
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107).
Author: Kyun-Seop Bae [aut], Jee Eun Lee [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between NonCompart versions 0.2.6 dated 2017-01-01 and 0.2.7 dated 2017-03-12
NonCompart-0.2.6/NonCompart/man/NonCompart_0.2.6-package.Rd |only NonCompart-0.2.7/NonCompart/DESCRIPTION | 26 +- NonCompart-0.2.7/NonCompart/MD5 | 71 ++++--- NonCompart-0.2.7/NonCompart/NAMESPACE | 7 NonCompart-0.2.7/NonCompart/R/AUC.R | 9 NonCompart-0.2.7/NonCompart/R/BasicUtil.R |only NonCompart-0.2.7/NonCompart/R/BestSlope.R | 9 NonCompart-0.2.7/NonCompart/R/IndiNCA.R | 120 ++++++------ NonCompart-0.2.7/NonCompart/R/IntAUC.R | 13 - NonCompart-0.2.7/NonCompart/R/Interpol.R | 9 NonCompart-0.2.7/NonCompart/R/LinAUC.R | 3 NonCompart-0.2.7/NonCompart/R/LogAUC.R | 3 NonCompart-0.2.7/NonCompart/R/NCA.R | 81 ++++---- NonCompart-0.2.7/NonCompart/R/NCA0.R |only NonCompart-0.2.7/NonCompart/R/Round.R | 9 NonCompart-0.2.7/NonCompart/R/Slope.R | 3 NonCompart-0.2.7/NonCompart/R/combXPT.R |only NonCompart-0.2.7/NonCompart/R/conv.pp.R |only NonCompart-0.2.7/NonCompart/R/foreNCA.R |only NonCompart-0.2.7/NonCompart/R/loadEXPC.R |only NonCompart-0.2.7/NonCompart/R/plotFit.R |only NonCompart-0.2.7/NonCompart/R/plotPK.R |only NonCompart-0.2.7/NonCompart/R/rNCA.R |only NonCompart-0.2.7/NonCompart/R/readEX.R |only NonCompart-0.2.7/NonCompart/R/readPC.R |only NonCompart-0.2.7/NonCompart/R/sysdata.rda |binary NonCompart-0.2.7/NonCompart/R/unit.R |only NonCompart-0.2.7/NonCompart/inst/NEWS.Rd |only NonCompart-0.2.7/NonCompart/inst/doc/NonCompart-manual.pdf |binary NonCompart-0.2.7/NonCompart/man/AUC.Rd | 10 - NonCompart-0.2.7/NonCompart/man/BasicUtil.Rd |only NonCompart-0.2.7/NonCompart/man/BestSlope.Rd | 6 NonCompart-0.2.7/NonCompart/man/IndiNCA.Rd | 52 ++--- NonCompart-0.2.7/NonCompart/man/IntAUC.Rd | 6 NonCompart-0.2.7/NonCompart/man/Interpol.Rd | 6 NonCompart-0.2.7/NonCompart/man/LogAUC.Rd | 2 NonCompart-0.2.7/NonCompart/man/NCA.Rd | 58 +++-- NonCompart-0.2.7/NonCompart/man/NCA0.Rd |only NonCompart-0.2.7/NonCompart/man/NonCompart-package.Rd |only NonCompart-0.2.7/NonCompart/man/combXPT.Rd |only NonCompart-0.2.7/NonCompart/man/conv.pp.Rd |only NonCompart-0.2.7/NonCompart/man/foreNCA.Rd |only NonCompart-0.2.7/NonCompart/man/loadEXPC.Rd |only NonCompart-0.2.7/NonCompart/man/plotFit.Rd |only NonCompart-0.2.7/NonCompart/man/plotPK.Rd |only NonCompart-0.2.7/NonCompart/man/rNCA.Rd |only NonCompart-0.2.7/NonCompart/man/readEX.Rd |only NonCompart-0.2.7/NonCompart/man/readPC.Rd |only NonCompart-0.2.7/NonCompart/man/unit.Rd |only NonCompart-0.2.7/NonCompart/tests/Test.R | 16 - 50 files changed, 276 insertions(+), 243 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modelling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 0.2.6 dated 2017-02-12 and 0.3.0.1 dated 2017-03-12
NNS-0.2.6/NNS/R/Feature_probability.R |only NNS-0.2.6/NNS/R/Find_Interval.R |only NNS-0.2.6/NNS/R/Stack_intermediate.R |only NNS-0.2.6/NNS/man/Finite.step.Rd |only NNS-0.2.6/NNS/man/NNS.ANOVA.bin.Rd |only NNS-0.2.6/NNS/man/NNS.Feature.prob.Rd |only NNS-0.2.6/NNS/man/NNS.M.reg.Rd |only NNS-0.2.6/NNS/man/NNS.dep.matrix.Rd |only NNS-0.2.6/NNS/man/NNS.stack.intermediate.Rd |only NNS-0.3.0.1/NNS/DESCRIPTION | 14 NNS-0.3.0.1/NNS/MD5 | 140 ++++---- NNS-0.3.0.1/NNS/NAMESPACE | 12 NNS-0.3.0.1/NNS/R/ANOVA.R | 72 ++-- NNS-0.3.0.1/NNS/R/ARMA.R | 412 +++++++++++++----------- NNS-0.3.0.1/NNS/R/Binary_ANOVA.R | 72 ---- NNS-0.3.0.1/NNS/R/Causation.R | 30 - NNS-0.3.0.1/NNS/R/Co_PM_cor.R | 10 NNS-0.3.0.1/NNS/R/Correlation.R | 54 --- NNS-0.3.0.1/NNS/R/Dependence.R | 137 ++++---- NNS-0.3.0.1/NNS/R/Dependence_matrix.R | 38 -- NNS-0.3.0.1/NNS/R/FSD.R | 39 -- NNS-0.3.0.1/NNS/R/LPM_UPM_VaR.R |only NNS-0.3.0.1/NNS/R/Multivariate_Regression.R | 334 +++++++++---------- NNS-0.3.0.1/NNS/R/NNS_term_matrix.R | 51 +- NNS-0.3.0.1/NNS/R/Normalization.R | 20 - NNS-0.3.0.1/NNS/R/Numerical_Differentiation.R | 64 +-- NNS-0.3.0.1/NNS/R/Partial_Moments.R | 93 ++--- NNS-0.3.0.1/NNS/R/Partition_Map.R | 247 +++++--------- NNS-0.3.0.1/NNS/R/Regression.R | 443 +++++++++++++------------- NNS-0.3.0.1/NNS/R/SD_Efficient_Set.R | 25 - NNS-0.3.0.1/NNS/R/SSD.R | 36 -- NNS-0.3.0.1/NNS/R/Seasonality_Test.R | 53 ++- NNS-0.3.0.1/NNS/R/Stack.R | 137 ++++++-- NNS-0.3.0.1/NNS/R/TSD.R | 35 -- NNS-0.3.0.1/NNS/R/Uni_Causation.R | 58 +-- NNS-0.3.0.1/NNS/R/Uni_SD_Routines.R | 96 ----- NNS-0.3.0.1/NNS/R/dy_d_wrt.R | 39 +- NNS-0.3.0.1/NNS/R/dy_dx.R | 43 +- NNS-0.3.0.1/NNS/R/gvload.R |only NNS-0.3.0.1/NNS/build |only NNS-0.3.0.1/NNS/inst |only NNS-0.3.0.1/NNS/man/Co.LPM.Rd | 16 NNS-0.3.0.1/NNS/man/Co.UPM.Rd | 16 NNS-0.3.0.1/NNS/man/D.LPM.Rd | 16 NNS-0.3.0.1/NNS/man/D.UPM.Rd | 16 NNS-0.3.0.1/NNS/man/LPM.Rd | 6 NNS-0.3.0.1/NNS/man/LPM.VaR.Rd | 8 NNS-0.3.0.1/NNS/man/NNS.ANOVA.Rd | 40 +- NNS-0.3.0.1/NNS/man/NNS.ARMA.Rd | 32 + NNS-0.3.0.1/NNS/man/NNS.FSD.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.FSD.uni.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.SD.Efficient.Set.Rd | 10 NNS-0.3.0.1/NNS/man/NNS.SSD.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.SSD.uni.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.TSD.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.TSD.uni.Rd | 4 NNS-0.3.0.1/NNS/man/NNS.caus.Rd | 15 NNS-0.3.0.1/NNS/man/NNS.cor.Rd | 15 NNS-0.3.0.1/NNS/man/NNS.cor.hd.Rd | 8 NNS-0.3.0.1/NNS/man/NNS.dep.Rd | 16 NNS-0.3.0.1/NNS/man/NNS.diff.Rd | 10 NNS-0.3.0.1/NNS/man/NNS.norm.Rd | 12 NNS-0.3.0.1/NNS/man/NNS.part.Rd | 29 - NNS-0.3.0.1/NNS/man/NNS.reg.Rd | 56 +-- NNS-0.3.0.1/NNS/man/NNS.seas.Rd | 11 NNS-0.3.0.1/NNS/man/NNS.stack.Rd | 37 +- NNS-0.3.0.1/NNS/man/NNS.term.matrix.Rd | 6 NNS-0.3.0.1/NNS/man/UPM.Rd | 6 NNS-0.3.0.1/NNS/man/UPM.VaR.Rd | 8 NNS-0.3.0.1/NNS/man/Uni.caus.Rd | 10 NNS-0.3.0.1/NNS/man/dy.d_.Rd | 36 -- NNS-0.3.0.1/NNS/man/dy.dx.Rd | 22 - NNS-0.3.0.1/NNS/vignettes |only 73 files changed, 1607 insertions(+), 1678 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis and supporting Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <DOI:10.1002/jrsm.1058>;
- net heat plot and design-based decomposition of Cochran's Q according to Krahn et al. (2013) <DOI:10.1186/1471-2288-13-35>;
- measures characterizing the flow of evidence between two treatments by König et al. (2013) <DOI:10.1002/sim.6001>;
- ranking of treatments (frequentist analogue of SUCRA) according to Rücker & Schwarzer (2015) <DOI:10.1186/s12874-015-0060-8>;
- partial order of treatment rankings ('poset') and Hasse diagram for 'poset' (Carlsen & Bruggemann, 2014) <DOI:10.1002/cem.2569>;
- split direct and indirect evidence to check consistency (Dias et al., 2010) <DOI:10.1002/sim.3767>;
- automated drawing of network graphs described in Rücker & Schwarzer (2016) <DOI:10.1002/jrsm.1143>.
Author: Gerta Rücker [aut],
Guido Schwarzer [aut, cre],
Ulrike Krahn [aut],
Jochem König [aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between netmeta versions 0.9-2 dated 2016-11-22 and 0.9-3 dated 2017-03-12
DESCRIPTION | 14 - MD5 | 102 ++++---- NAMESPACE | 14 - NEWS | 82 ++++++ R/as.data.frame.netmeta.R | 6 R/chklist.R | 4 R/chkmultiarm.R |only R/decomp.design.R | 36 +- R/decomp.tau.R | 110 ++++---- R/forest.netmeta.R | 29 +- R/format.TE.R | 2 R/hasse.R |only R/lowertri.R |only R/matitle.R | 10 R/netconnection.R | 6 R/netdistance.R | 8 R/netheat.R | 171 ++++++------- R/netmeasures.R | 79 ++++-- R/netmeta-internal.R | 4 R/netmeta.R | 570 ++++++++++++++++++++++++++++++---------------- R/netposet.R |only R/netrank.R | 56 +++- R/netsplit.R |only R/nma.krahn.R | 387 ++++++++++++++++++------------- R/nma.ruecker.R | 260 ++++++++++---------- R/p.ci.R | 8 R/pairwise.R | 210 ++++++++++------ R/plot.netposet.R |only R/prepare.R | 20 - R/print.decomp.design.R | 22 - R/print.netconnection.R | 10 R/print.netmeta.R | 91 +++---- R/print.netposet.R |only R/print.netrank.R | 83 +++++- R/print.netsplit.R |only R/print.summary.netmeta.R | 162 ++++++------- R/setref.R | 22 - R/setseq.R | 28 +- R/shadowtext.R | 2 R/stress.R | 4 R/summary.netmeta.R | 54 ++-- R/tau.within.R | 50 ++-- data/Linde2015.csv.gz |only man/Linde2015.Rd |only man/Senn2013.Rd | 11 man/Woods2010.Rd | 2 man/decomp.design.Rd | 10 man/dietaryfat.Rd | 4 man/hasse.Rd |only man/netmeasures.Rd | 8 man/netmeta-package.Rd | 16 + man/netmeta.Rd | 41 +++ man/netposet.Rd |only man/netrank.Rd | 37 ++ man/netsplit.Rd |only man/pairwise.Rd | 10 man/parkinson.Rd | 2 man/plot.netposet.Rd |only man/smokingcessation.Rd | 2 59 files changed, 1735 insertions(+), 1124 deletions(-)
Title: Subset- And Name-Aware Array Utility Functions
Description: Stacking arrays according to dimension names, subset-aware
splitting and mapping of functions, intersecting along arbitrary
dimensions, converting to and from data.frames, and many other helper
functions.
Author: Michael Schubert <mschu.dev@gmail.com>
Maintainer: Michael Schubert <mschu.dev@gmail.com>
Diff between narray versions 0.1.1 dated 2016-12-07 and 0.2.2 dated 2017-03-12
DESCRIPTION | 16 - MD5 | 41 ++-- NAMESPACE | 3 R/bind.r | 18 + R/dimnames.r | 2 R/filter.r | 2 R/map.r | 4 R/mask.r | 2 R/rep.r |only R/split.r | 14 - R/stack.r | 11 - R/subset.r | 5 inst/doc/narray.R | 3 inst/doc/narray.Rmd | 3 inst/doc/narray.html | 433 +++++++++++++++++++++++++++++-------------- inst/doc/narray.md |only man/filter.Rd | 2 man/map.Rd | 2 man/rep.Rd |only tests/testthat/test_bind.r |only tests/testthat/test_rep.r |only tests/testthat/test_split.r | 8 tests/testthat/test_subset.r | 4 vignettes/narray.Rmd | 3 24 files changed, 394 insertions(+), 182 deletions(-)
Title: Tools for Analyzing Finite Mixture Models
Description: Analyzes finite mixture models for various parametric and semiparametric settings. This includes mixtures of parametric distributions (normal, multivariate normal, multinomial, gamma), various Reliability Mixture Models (RMMs), mixtures-of-regressions settings (linear regression, logistic regression, Poisson regression, linear regression with changepoints, predictor-dependent mixing proportions, random effects regressions, hierarchical mixtures-of-experts), and tools for selecting the number of components (bootstrapping the likelihood ratio test statistic and model selection criteria). Bayesian estimation of mixtures-of-linear-regressions models is available as well as a novel data depth method for obtaining credible bands. This package is based upon work supported by the National Science Foundation under Grant No. SES-0518772.
Author: Derek Young [aut, cre],
Tatiana Benaglia [aut],
Didier Chauveau [aut],
David Hunter [aut],
Ryan Elmore [ctb],
Thomas Hettmansperger [ctb],
Hoben Thomas [ctb],
Fengjuan Xuan [ctb]
Maintainer: Derek Young <derek.young@uky.edu>
Diff between mixtools versions 1.0.4 dated 2016-01-11 and 1.1.0 dated 2017-03-12
DESCRIPTION | 14 MD5 | 87 +-- NAMESPACE | 107 +++ NEWS | 25 R/FDR_spEM.R | 2 R/WeibullRMMSEM.R |only R/bootcomp.R | 5 R/bootse.R | 1207 ++++++++++++++++++++++----------------------- R/depth.R | 2 R/expReliabilityMixEM.R |only R/logisregmixEM.R | 225 ++++---- R/logitfns.R |only R/multmixEM.R | 174 +++--- R/mvnpEM.R | 8 R/normalmixEM.R | 306 +++++------ R/normalmixMMlc.R | 25 R/npEM.R | 245 ++++----- R/npMSL.R | 144 +++-- R/plot.mixEM.R | 456 ++++++++--------- R/regmixEMlambda.R | 244 ++++----- R/spEM.R | 6 R/spEMsymloc.R | 4 R/spRMMSEM.R |only R/spregmix.R | 300 +++++------ R/summary.mixEM.R | 7 R/tauequivnormalmixEM.R |only build/vignette.rds |binary data/Waterdata.RData |binary data/WaterdataFull.RData |only inst/doc/mixtools.pdf |binary man/density.npEM.Rd | 2 man/expRMM_EM.Rd |only man/ise.npEM.Rd | 2 man/mixtools-internal.Rd | 34 + man/normalmixMMlc.Rd | 42 - man/plot.mvnpEM.Rd | 5 man/plotexpRMM.Rd |only man/plotseq.npEM.Rd | 1 man/plotspRMM.Rd |only man/plotweibullRMM.Rd |only man/repnormmixmodel.sel.Rd | 2 man/rexpmix.Rd |only man/rmvnormmix.Rd | 2 man/rweibullmix.Rd |only man/spRMM_SEM.Rd |only man/summary.mixEM.Rd | 4 man/summary.spRMM.Rd |only man/tauequivnormalmixEM.Rd |only man/tonedata.Rd | 2 man/weibullRMM_SEM.Rd |only src/KDEsymloc1comp.c | 9 src/init.c |only src/sd.c | 2 53 files changed, 1972 insertions(+), 1728 deletions(-)
Title: Diagnostic and Prognostic Meta-Analysis
Description: Meta-analysis of diagnostic and prognostic modeling studies. Summarize estimates of diagnostic test accuracy and prediction model performance. Validate, update and combine published prediction models.
Author: Thomas Debray
Maintainer: Thomas Debray <thomas.debray@gmail.com>
Diff between metamisc versions 0.1.1 dated 2013-05-30 and 0.1.3 dated 2017-03-12
DESCRIPTION | 23 - MD5 | 33 +- NAMESPACE | 57 ++-- R/basics.r | 28 +- R/uvmeta.r | 662 ++++++++++++++++++++++++------------------------ R/valmeta.r |only data/Collins.rda |binary data/DVTipd.rda |only data/DVTmodels.rda |only data/Daniels.rda |binary data/EuroSCORE.rda |only data/Kertai.rda |binary data/Roberts.rda |binary data/Scheidler.rda |binary man/DVTipd.Rd |only man/DVTmodels.Rd |only man/EuroSCORE.Rd |only man/metamisc-package.Rd | 59 ++-- man/plot.valmeta.Rd |only man/uvmeta-class.Rd | 108 +++---- man/uvmeta.Rd | 170 ++++++------ man/valmeta.Rd |only 22 files changed, 598 insertions(+), 542 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 4.7-1 dated 2017-02-13 and 4.8-0 dated 2017-03-12
DESCRIPTION | 8 MD5 | 55 - NAMESPACE | 6 NEWS | 64 ++ R/calcH.R | 22 R/catmeth.R | 24 R/forest-internal.R |only R/forest.meta.R | 1544 ++++++++++++++----------------------------------- R/hetcalc.R | 10 R/kentau.R | 5 R/metabin.R | 53 + R/metacum.R | 13 R/metagen.R | 13 R/metainc.R | 29 R/metainf.R | 13 R/metaprop.R | 46 - R/metarate.R | 25 R/print.summary.meta.R | 28 R/settings.meta.R | 2 R/subgroup.R | 16 R/summary.meta.R | 1 R/update.meta.R | 75 +- R/updateversion.R | 2 man/forest.Rd | 4 man/metabin.Rd | 2 man/metainc.Rd | 2 man/metareg.Rd | 4 man/update.meta.Rd | 31 src/kenscore.c | 26 29 files changed, 885 insertions(+), 1238 deletions(-)
Title: Least-Squares Means
Description: Obtain least-squares means for many linear, generalized linear,
and mixed models. Compute contrasts or linear functions of least-squares
means, and comparisons of slopes. Plots and compact letter displays.
Author: Russell Lenth [aut, cre, cph]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between lsmeans versions 2.25 dated 2016-11-19 and 2.25-5 dated 2017-03-12
DESCRIPTION | 8 +- MD5 | 30 ++++----- NAMESPACE | 10 ++- R/helpers.R | 9 -- R/lsm.list.R | 4 + R/lsmeans.R | 55 ++++++++++++++--- R/lstrends.R | 1 R/ordinal-support.R | 8 ++ inst/NEWS | 13 +++- inst/doc/extending.pdf |binary inst/doc/using-lsmeans.R | 135 +++++++++++++++++++++++--------------------- inst/doc/using-lsmeans.pdf |binary inst/doc/using-lsmeans.rnw | 8 ++ man/contrast.Rd | 11 +++ man/summary.Rd | 6 + vignettes/using-lsmeans.rnw | 8 ++ 16 files changed, 198 insertions(+), 108 deletions(-)
Title: Rapid Digital Image Analysis of Leaf Area
Description: An interface for the image processing program 'ImageJ', which
allows a rapid digital image analysis for particle sizes. This package includes
function to write an 'ImageJ' macro which is optimized for a leaf area analysis by
default.
Author: Masatoshi Katabuchi <mattocci27@gmail.com>
Maintainer: Masatoshi Katabuchi <mattocci27@gmail.com>
Diff between LeafArea versions 0.1.5 dated 2016-08-08 and 0.1.7 dated 2017-03-12
LeafArea-0.1.5/LeafArea/vignettes |only LeafArea-0.1.7/LeafArea/DESCRIPTION | 14 +++++++------- LeafArea-0.1.7/LeafArea/MD5 | 11 +++-------- LeafArea-0.1.7/LeafArea/R/find.ij.R | 2 +- LeafArea-0.1.7/LeafArea/man/LeafArea-package.Rd | 3 ++- 5 files changed, 13 insertions(+), 17 deletions(-)
Title: The Kernel Method of Test Equating
Description: Implements the kernel method of test equating using the CB, EG, SG, NEAT CE/PSE and NEC designs, supporting gaussian, logistic and uniform kernels and unsmoothed and pre-smoothed input data.
Author: Bjorn Andersson, Kenny Branberg and Marie Wiberg
Maintainer: Bjorn Andersson <bjoern.h.andersson@gmail.com>
Diff between kequate versions 1.6.0 dated 2016-09-20 and 1.6.1 dated 2017-03-12
DESCRIPTION | 8 +- MD5 | 14 +-- NEWS | 4 + R/kernel.R | 172 ++++++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/irtguide.pdf |binary inst/doc/kequate.pdf |binary man/kequate-package.Rd | 4 - 8 files changed, 110 insertions(+), 92 deletions(-)
Title: Classes and Methods for Seismic Data Analysis
Description: Provides classes and methods for seismic data analysis. The
base classes and methods are inspired by the python code found in
the 'ObsPy' python toolbox <https://github.com/obsypy/obspy>. Additional classes and
methods support data returned by web services provided by the 'IRIS DMC'
<http://service.iris.edu/>.
Author: Jonathan Callahan [aut],
Rob Casey [aut],
Gillian Sharer [aut, cre],
Mary Templeton [aut],
Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>
Diff between IRISSeismic versions 1.4.1 dated 2017-02-11 and 1.4.3 dated 2017-03-12
IRISSeismic-1.4.1/IRISSeismic/src/libmseed/INSTALL |only IRISSeismic-1.4.1/IRISSeismic/src/libmseed/README |only IRISSeismic-1.4.1/IRISSeismic/src/libmseed/lmplatform.h |only IRISSeismic-1.4.3/IRISSeismic/DESCRIPTION | 6 IRISSeismic-1.4.3/IRISSeismic/MD5 | 56 ++-- IRISSeismic-1.4.3/IRISSeismic/NAMESPACE | 1 IRISSeismic-1.4.3/IRISSeismic/R/Class-IrisClient.R | 6 IRISSeismic-1.4.3/IRISSeismic/inst/doc/IRISSeismic-intro.Rmd | 2 IRISSeismic-1.4.3/IRISSeismic/inst/doc/IRISSeismic-intro.html | 2 IRISSeismic-1.4.3/IRISSeismic/man/DDT.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/man/IRISSeismic-package.Rd | 10 IRISSeismic-1.4.3/IRISSeismic/man/basicStats.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/man/crossSpectrum.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/man/getEvent.Rd | 4 IRISSeismic-1.4.3/IRISSeismic/man/getTraveltime.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/man/hilbert.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/man/triggerOnset.Rd | 2 IRISSeismic-1.4.3/IRISSeismic/src/init.c |only IRISSeismic-1.4.3/IRISSeismic/src/libmseed/ChangeLog | 10 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/INSTALL.md |only IRISSeismic-1.4.3/IRISSeismic/src/libmseed/Makefile | 2 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/Makefile.wat | 4 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/Makefile.win | 8 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/README.md |only IRISSeismic-1.4.3/IRISSeismic/src/libmseed/genutils.c | 12 - IRISSeismic-1.4.3/IRISSeismic/src/libmseed/gswap.c | 2 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/libmseed.h | 118 ++++++++-- IRISSeismic-1.4.3/IRISSeismic/src/libmseed/lmplatform.c | 2 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/packdata.c | 80 +++--- IRISSeismic-1.4.3/IRISSeismic/src/libmseed/tracelist.c | 5 IRISSeismic-1.4.3/IRISSeismic/src/libmseed/unpackdata.c | 52 ++-- IRISSeismic-1.4.3/IRISSeismic/vignettes/IRISSeismic-intro.Rmd | 2 32 files changed, 251 insertions(+), 145 deletions(-)
Title: Image Processing Library Based on 'CImg'
Description: Fast image processing for images in up to 4 dimensions (two spatial
dimensions, one time/depth dimension, one colour dimension). Provides most
traditional image processing tools (filtering, morphology, transformations,
etc.) as well as various functions for easily analysing image data using R. The
package wraps CImg, <http://cimg.eu>, a simple, modern C++ library for image
processing.
Author: Simon Barthelme [aut, cre]
Maintainer: Simon Barthelme <simon.barthelme@gipsa-lab.fr>
Diff between imager versions 0.31 dated 2016-09-12 and 0.40 dated 2017-03-12
imager-0.31/imager/data/boats.RData |only imager-0.31/imager/man/as.list.imlist.Rd |only imager-0.31/imager/man/selectSimilar.Rd |only imager-0.40/imager/DESCRIPTION | 24 imager-0.40/imager/MD5 | 181 imager-0.40/imager/NAMESPACE | 90 imager-0.40/imager/NEWS | 35 imager-0.40/imager/NEWS.md | 18 imager-0.40/imager/R/RcppExports.R | 205 imager-0.40/imager/R/basegraphics.R |only imager-0.40/imager/R/canny.R |only imager-0.40/imager/R/cimg_class.R | 251 imager-0.40/imager/R/conversions.R | 173 imager-0.40/imager/R/drawing.R | 26 imager-0.40/imager/R/imgen.R | 7 imager-0.40/imager/R/imglist.R | 149 imager-0.40/imager/R/inline.R | 4 imager-0.40/imager/R/interactive.R | 63 imager-0.40/imager/R/loading.R |only imager-0.40/imager/R/pixset.R |only imager-0.40/imager/R/splitcombine.R | 203 imager-0.40/imager/R/transformations.R |only imager-0.40/imager/R/utils.R | 190 imager-0.40/imager/README.md | 27 imager-0.40/imager/build/vignette.rds |binary imager-0.40/imager/configure | 176 imager-0.40/imager/configure.ac | 69 imager-0.40/imager/data/boats.rda |only imager-0.40/imager/data/datalist |only imager-0.40/imager/inst/doc/gettingstarted.R | 27 imager-0.40/imager/inst/doc/gettingstarted.Rmd | 125 imager-0.40/imager/inst/doc/gettingstarted.html | 323 imager-0.40/imager/inst/doc/pixsets.R |only imager-0.40/imager/inst/doc/pixsets.Rmd |only imager-0.40/imager/inst/doc/pixsets.html |only imager-0.40/imager/inst/extdata/coins.png |only imager-0.40/imager/inst/include/CImg.h |15901 ++++++++++++-------- imager-0.40/imager/inst/include/imager.h | 11 imager-0.40/imager/inst/include/plugins |only imager-0.40/imager/inst/include/wrappers.h | 41 imager-0.40/imager/man/RasterPackage.Rd |only imager-0.40/imager/man/add.colour.Rd | 13 imager-0.40/imager/man/as.cimg.Rd | 5 imager-0.40/imager/man/as.cimg.raster.Rd |only imager-0.40/imager/man/as.data.frame.cimg.Rd | 2 imager-0.40/imager/man/as.data.frame.imlist.Rd | 2 imager-0.40/imager/man/as.data.frame.pixset.Rd |only imager-0.40/imager/man/as.imlist.Rd |only imager-0.40/imager/man/as.pixset.Rd |only imager-0.40/imager/man/as.raster.cimg.Rd | 7 imager-0.40/imager/man/autocrop.Rd | 13 imager-0.40/imager/man/bbox.Rd |only imager-0.40/imager/man/boundary.Rd |only imager-0.40/imager/man/boxblur.Rd | 4 imager-0.40/imager/man/bucketfill.Rd | 2 imager-0.40/imager/man/cannyEdges.Rd |only imager-0.40/imager/man/ci.Rd |only imager-0.40/imager/man/clean.Rd |only imager-0.40/imager/man/common_pixsets.Rd |only imager-0.40/imager/man/contours.Rd |only imager-0.40/imager/man/display.Rd | 2 imager-0.40/imager/man/display.cimg.Rd | 2 imager-0.40/imager/man/erode.Rd | 12 imager-0.40/imager/man/flatten.alpha.Rd |only imager-0.40/imager/man/grab.Rd | 12 imager-0.40/imager/man/grayscale.Rd | 16 imager-0.40/imager/man/grow.Rd |only imager-0.40/imager/man/highlight.Rd |only imager-0.40/imager/man/imager.colourspaces.Rd | 40 imager-0.40/imager/man/imager.combine.Rd | 92 imager-0.40/imager/man/imappend.Rd | 4 imager-0.40/imager/man/imfill.Rd | 3 imager-0.40/imager/man/imlap.Rd |only imager-0.40/imager/man/imlist.Rd | 20 imager-0.40/imager/man/implot.Rd |only imager-0.40/imager/man/imrep.Rd |only imager-0.40/imager/man/imrotate.Rd | 24 imager-0.40/imager/man/imsplit.Rd | 4 imager-0.40/imager/man/is.imlist.Rd |only imager-0.40/imager/man/is.pixset.Rd |only imager-0.40/imager/man/load.example.Rd | 4 imager-0.40/imager/man/load.image.Rd | 4 imager-0.40/imager/man/load.video.Rd |only imager-0.40/imager/man/magick.Rd |only imager-0.40/imager/man/make.video.Rd |only imager-0.40/imager/man/periodic.part.Rd | 4 imager-0.40/imager/man/pixset.Rd |only imager-0.40/imager/man/plot.cimg.Rd | 17 imager-0.40/imager/man/plot.imlist.Rd | 5 imager-0.40/imager/man/px.flood.Rd |only imager-0.40/imager/man/px.na.Rd |only imager-0.40/imager/man/resize_uniform.Rd | 4 imager-0.40/imager/man/rm.alpha.Rd |only imager-0.40/imager/man/rotate_xy.Rd | 5 imager-0.40/imager/man/save.image.Rd | 11 imager-0.40/imager/man/split_connected.Rd |only imager-0.40/imager/man/threshold.Rd | 2 imager-0.40/imager/man/where.Rd |only imager-0.40/imager/src/Makevars.in | 5 imager-0.40/imager/src/Makevars.win | 4 imager-0.40/imager/src/RcppExports.cpp | 409 imager-0.40/imager/src/colourspace.cpp | 108 imager-0.40/imager/src/compile.R |only imager-0.40/imager/src/display.cpp | 22 imager-0.40/imager/src/drawing.cpp | 11 imager-0.40/imager/src/filtering.cpp | 26 imager-0.40/imager/src/morphology.cpp | 136 imager-0.40/imager/src/reductions.cpp |only imager-0.40/imager/src/register.c |only imager-0.40/imager/src/transformations.cpp | 20 imager-0.40/imager/src/utils.cpp | 63 imager-0.40/imager/src/wrappers.cpp | 35 imager-0.40/imager/src/wrappers_cimglist.h | 6 imager-0.40/imager/tests/testthat/test_reductions.R |only imager-0.40/imager/vignettes/gettingstarted.Rmd | 125 imager-0.40/imager/vignettes/pixsets.Rmd |only 116 files changed, 12330 insertions(+), 7294 deletions(-)
Title: Groundwater Data Presentation and Interpretation
Description: Contains one function for drawing Piper diagrams (also
called Piper-Hill diagrams) of water analyses for major ions.
Author: Myles English <myles@rockhead.biz>
Maintainer: Myles English <myles@rockhead.biz>
Diff between hydrogeo versions 0.5-1 dated 2016-11-18 and 0.6-1 dated 2017-03-12
DESCRIPTION | 11 +- LICENCE | 2 MD5 | 31 ++++--- NAMESPACE | 2 NEWS | 12 +++ R/piper.R | 167 +++++++++++++++---------------------------- data/zaporozec.rda |binary man/hydrogeo.Rd | 11 +- man/piper-class.Rd | 33 +++----- man/piper.Rd | 1 man/piperPaper.Rd | 1 man/piperplot-class.Rd | 3 man/plot-piperplot-method.Rd | 1 man/testData.Rd |only man/toPercent.Rd | 2 man/zaporozec.Rd | 1 tests |only 17 files changed, 121 insertions(+), 157 deletions(-)
Title: Supplemental Functions and Datasets for "Handbook of Regression
Methods"
Description: Supplement for the book "Handbook of Regression Methods" by D. S. Young. Some datasets used in the book are included and documented. Wrapper functions are included that simplify the examples in the textbook, such as code for constructing a regressogram and expanding ANOVA tables to reflect the total sum of squares.
Author: Derek S. Young [aut, cre]
Maintainer: Derek S. Young <derek.young@uky.edu>
Diff between HoRM versions 0.1.0 dated 2017-01-27 and 0.1.1 dated 2017-03-12
DESCRIPTION | 12 ++++++------ MD5 | 20 ++++++++++---------- NAMESPACE | 1 + NEWS | 13 ++++++++++++- man/HoRM.package.Rd | 6 +++--- man/JamesBond.Rd | 4 ++-- man/credloss.Rd | 2 +- man/light.Rd | 2 +- man/powerF.Rd | 2 +- man/psiandrew.Rd | 2 +- man/regressogram.Rd | 52 ++++++++++++++++++++++++++-------------------------- 11 files changed, 64 insertions(+), 52 deletions(-)
Title: Tools for Earth Meteorological Analysis
Description: Contains many functions useful for managing 'NetCDF' files (see <http://en.wikipedia.org/wiki/NetCDF>), get tide levels on any point of the globe, get moon phase and time for sun rise and fall, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between HelpersMG versions 1.8 dated 2016-12-26 and 1.9 dated 2017-03-12
HelpersMG-1.8/HelpersMG/R/data.comparison.R |only HelpersMG-1.8/HelpersMG/R/table.comparison.R |only HelpersMG-1.8/HelpersMG/man/data.comparison.Rd |only HelpersMG-1.8/HelpersMG/man/table.comparison.Rd |only HelpersMG-1.9/HelpersMG/DESCRIPTION | 11 - HelpersMG-1.9/HelpersMG/MD5 | 145 ++++++++-------- HelpersMG-1.9/HelpersMG/NAMESPACE | 5 HelpersMG-1.9/HelpersMG/NEWS | 16 + HelpersMG-1.9/HelpersMG/R/HelpersMG-package.R | 4 HelpersMG-1.9/HelpersMG/R/MHalgoGen.R | 15 - HelpersMG-1.9/HelpersMG/R/as.mcmc.mcmcComposite.R | 10 - HelpersMG-1.9/HelpersMG/R/as.parameters.R | 3 HelpersMG-1.9/HelpersMG/R/compare_AICc.R |only HelpersMG-1.9/HelpersMG/R/compare_BIC.R | 4 HelpersMG-1.9/HelpersMG/R/contingencyTable.compare.R |only HelpersMG-1.9/HelpersMG/R/dSnbinom.R | 8 HelpersMG-1.9/HelpersMG/R/merge.mcmcComposite.R | 11 - HelpersMG-1.9/HelpersMG/R/nlConfint.R |only HelpersMG-1.9/HelpersMG/R/pSnbinom.R | 3 HelpersMG-1.9/HelpersMG/R/permutations.R | 2 HelpersMG-1.9/HelpersMG/R/qSnbinom.R | 2 HelpersMG-1.9/HelpersMG/R/r2norm.R | 2 HelpersMG-1.9/HelpersMG/R/rSnbinom.R | 2 HelpersMG-1.9/HelpersMG/R/series.compare.R |only HelpersMG-1.9/HelpersMG/R/symbol.Female.R | 2 HelpersMG-1.9/HelpersMG/R/symbol.Male.R | 2 HelpersMG-1.9/HelpersMG/inst/shiny/server.R | 117 ++++++++++-- HelpersMG-1.9/HelpersMG/inst/shiny/ui.R | 66 ++++--- HelpersMG-1.9/HelpersMG/man/ChangeCoordinate.Rd | 1 HelpersMG-1.9/HelpersMG/man/DIx.Rd | 7 HelpersMG-1.9/HelpersMG/man/HelpersMG-package.Rd | 5 HelpersMG-1.9/HelpersMG/man/LD50.Rd | 7 HelpersMG-1.9/HelpersMG/man/MHalgoGen.Rd | 7 HelpersMG-1.9/HelpersMG/man/ScalePreviousPlot.Rd | 7 HelpersMG-1.9/HelpersMG/man/as.mcmc.mcmcComposite.Rd | 7 HelpersMG-1.9/HelpersMG/man/as.parameters.Rd | 7 HelpersMG-1.9/HelpersMG/man/asc.Rd | 7 HelpersMG-1.9/HelpersMG/man/barplot_errbar.Rd | 7 HelpersMG-1.9/HelpersMG/man/chr.Rd | 7 HelpersMG-1.9/HelpersMG/man/clean.knitr.Rd | 1 HelpersMG-1.9/HelpersMG/man/compare.Rd | 1 HelpersMG-1.9/HelpersMG/man/compare_AIC.Rd | 1 HelpersMG-1.9/HelpersMG/man/compare_AICc.Rd |only HelpersMG-1.9/HelpersMG/man/compare_BIC.Rd | 5 HelpersMG-1.9/HelpersMG/man/contingencyTable.compare.Rd |only HelpersMG-1.9/HelpersMG/man/convert.tz.Rd | 7 HelpersMG-1.9/HelpersMG/man/dSnbinom.Rd | 67 +++++++ HelpersMG-1.9/HelpersMG/man/growlnotify.Rd | 1 HelpersMG-1.9/HelpersMG/man/ind_long_lat.Rd | 1 HelpersMG-1.9/HelpersMG/man/index.periodic.Rd | 7 HelpersMG-1.9/HelpersMG/man/inside.search.Rd | 1 HelpersMG-1.9/HelpersMG/man/local.search.Rd | 1 HelpersMG-1.9/HelpersMG/man/logLik.LD50.Rd | 7 HelpersMG-1.9/HelpersMG/man/merge.mcmcComposite.Rd | 7 HelpersMG-1.9/HelpersMG/man/minmax.periodic.Rd | 7 HelpersMG-1.9/HelpersMG/man/modeled.hist.Rd | 1 HelpersMG-1.9/HelpersMG/man/modifyVector.Rd | 1 HelpersMG-1.9/HelpersMG/man/moon.info.Rd | 7 HelpersMG-1.9/HelpersMG/man/newcompassRose.Rd | 1 HelpersMG-1.9/HelpersMG/man/newmap.scale.Rd | 1 HelpersMG-1.9/HelpersMG/man/pSnbinom.Rd | 7 HelpersMG-1.9/HelpersMG/man/plot.LD50.Rd | 7 HelpersMG-1.9/HelpersMG/man/plot.mcmcComposite.Rd | 7 HelpersMG-1.9/HelpersMG/man/plot_add.Rd | 7 HelpersMG-1.9/HelpersMG/man/plot_errbar.Rd | 7 HelpersMG-1.9/HelpersMG/man/predict.LD50.Rd | 7 HelpersMG-1.9/HelpersMG/man/qSnbinom.Rd | 7 HelpersMG-1.9/HelpersMG/man/r2norm.Rd | 1 HelpersMG-1.9/HelpersMG/man/rSnbinom.Rd | 7 HelpersMG-1.9/HelpersMG/man/read_folder.Rd | 1 HelpersMG-1.9/HelpersMG/man/series.compare.Rd |only HelpersMG-1.9/HelpersMG/man/similar.Rd | 1 HelpersMG-1.9/HelpersMG/man/summary.mcmcComposite.Rd | 7 HelpersMG-1.9/HelpersMG/man/sun.info.Rd | 7 HelpersMG-1.9/HelpersMG/man/symbol.Female.Rd | 7 HelpersMG-1.9/HelpersMG/man/symbol.Male.Rd | 7 HelpersMG-1.9/HelpersMG/man/symmetricize.Rd | 1 HelpersMG-1.9/HelpersMG/man/tide.info.Rd | 7 HelpersMG-1.9/HelpersMG/man/wget.Rd | 1 79 files changed, 420 insertions(+), 300 deletions(-)
Title: Spatial and Spatio-Temporal Geostatistical Modelling, Prediction
and Simulation
Description: Variogram modelling; simple, ordinary and universal point or block (co)kriging; spatio-temporal kriging; sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions.
Author: Edzer Pebesma [aut, cre],
Benedikt Graeler [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between gstat versions 1.1-4 dated 2017-01-11 and 1.1-5 dated 2017-03-12
DESCRIPTION | 6 ++-- MD5 | 47 +++++++++++++++++------------------ R/fit.variogram.R | 5 ++- build/vignette.rds |binary data/DE_RB_2005.rda |binary data/coalash.rda |binary data/fulmar.rda |binary data/jura.rda |binary data/meuse.all.rda |binary data/meuse.alt.rda |binary data/ncp.grid.rda |binary data/oxford.rda |binary data/pcb.rda |binary data/sic2004.rda |binary data/sic97.rda |binary data/tull.rda |binary data/vv.rda |binary data/walker.rda |binary data/wind.rda |binary inst/NEWS.Rd | 8 +++++ inst/doc/gstat.pdf |binary inst/doc/prs.pdf |binary inst/doc/spatio-temporal-kriging.pdf |binary inst/doc/st.pdf |binary src/init.c |only 25 files changed, 37 insertions(+), 29 deletions(-)
Title: Gradient Descent for Regression Tasks
Description: An implementation of various learning algorithms based on Gradient Descent for dealing with regression tasks.
The variants of gradient descent algorithm are :
Mini-Batch Gradient Descent (MBGD), which is an optimization to use training data partially to reduce the computation load.
Stochastic Gradient Descent (SGD), which is an optimization to use a random data in learning to reduce the computation load drastically.
Stochastic Average Gradient (SAG), which is a SGD-based algorithm to minimize stochastic step to average.
Momentum Gradient Descent (MGD), which is an optimization to speed-up gradient descent learning.
Accelerated Gradient Descent (AGD), which is an optimization to accelerate gradient descent learning.
Adagrad, which is a gradient-descent-based algorithm that accumulate previous cost to do adaptive learning.
Adadelta, which is a gradient-descent-based algorithm that use hessian approximation to do adaptive learning.
RMSprop, which is a gradient-descent-based algorithm that combine Adagrad and Adadelta adaptive learning ability.
Adam, which is a gradient-descent-based algorithm that mean and variance moment to do adaptive learning.
Author: Dendi Handian, Imam Fachmi Nasrulloh, Lala Septem Riza
Maintainer: Lala Septem Riza <lala.s.riza@upi.edu>
Diff between gradDescent versions 2.0 dated 2016-12-29 and 2.0.1 dated 2017-03-12
gradDescent-2.0.1/gradDescent/DESCRIPTION | 32 ++--- gradDescent-2.0.1/gradDescent/LICENSE | 34 ++--- gradDescent-2.0.1/gradDescent/MD5 | 49 ++++---- gradDescent-2.0.1/gradDescent/NAMESPACE | 35 +++-- gradDescent-2.0.1/gradDescent/R/docData.R | 58 ++++----- gradDescent-2.0.1/gradDescent/R/gradDescentR.Methods.R |only gradDescent-2.0.1/gradDescent/R/gradDescentR.SupportFunctions.R |only gradDescent-2.0.1/gradDescent/R/gradDescentR.TopLevelFunctions.R |only gradDescent-2.0.1/gradDescent/demo/00Index | 12 +- gradDescent-2.0.1/gradDescent/demo/GD.CompressibilityFactorDemo.R | 60 +++++----- gradDescent-2.0.1/gradDescent/man/ADADELTA.Rd |only gradDescent-2.0.1/gradDescent/man/ADAGRAD.Rd |only gradDescent-2.0.1/gradDescent/man/ADAM.Rd |only gradDescent-2.0.1/gradDescent/man/AGD.Rd |only gradDescent-2.0.1/gradDescent/man/GD.Rd |only gradDescent-2.0.1/gradDescent/man/MBGD.Rd |only gradDescent-2.0.1/gradDescent/man/MGD.Rd |only gradDescent-2.0.1/gradDescent/man/RMSE.Rd |only gradDescent-2.0.1/gradDescent/man/RMSPROP.Rd |only gradDescent-2.0.1/gradDescent/man/SAGD.Rd |only gradDescent-2.0.1/gradDescent/man/SGD.Rd |only gradDescent-2.0.1/gradDescent/man/gradDescentR.learn.Rd |only gradDescent-2.0.1/gradDescent/man/gradDescentRData.Rd | 33 ++--- gradDescent-2.0.1/gradDescent/man/minmaxDescaling.Rd |only gradDescent-2.0.1/gradDescent/man/minmaxScaling.Rd |only gradDescent-2.0.1/gradDescent/man/predict.gradDescentRObject.Rd |only gradDescent-2.0.1/gradDescent/man/prediction.Rd |only gradDescent-2.0.1/gradDescent/man/splitData.Rd |only gradDescent-2.0.1/gradDescent/man/varianceDescaling.Rd |only gradDescent-2.0.1/gradDescent/man/varianceScaling.Rd |only gradDescent-2.0/gradDescent/R/gradDescent.MainFunction.R |only gradDescent-2.0/gradDescent/R/gradDescent.Methods.R |only gradDescent-2.0/gradDescent/R/gradDescent.SupportFunction.R |only gradDescent-2.0/gradDescent/man/adadelta.Rd |only gradDescent-2.0/gradDescent/man/adagrad.Rd |only gradDescent-2.0/gradDescent/man/adam.Rd |only gradDescent-2.0/gradDescent/man/gradDescent.learn.Rd |only gradDescent-2.0/gradDescent/man/gradDescent.predict.Rd |only gradDescent-2.0/gradDescent/man/gradDescent.predictInput.Rd |only gradDescent-2.0/gradDescent/man/gradDescent.preprocessing.Rd |only gradDescent-2.0/gradDescent/man/gradientDescent.Rd |only gradDescent-2.0/gradDescent/man/rmsprop.Rd |only gradDescent-2.0/gradDescent/man/stochasticAverage.Rd |only 43 files changed, 165 insertions(+), 148 deletions(-)
Title: Graph-Constrained Estimation and Hypothesis Tests
Description: Use the graph-constrained estimation (Grace) procedure to estimate graph-guided linear regression coefficients and use the Grace/GraceI/GraceR tests to perform graph-guided hypothesis tests on the association between the response and the predictors.
Author: Sen Zhao
Maintainer: Sen Zhao <sen-zhao@sen-zhao.com>
Diff between Grace versions 0.5.1 dated 2016-10-23 and 0.5.2 dated 2017-03-12
DESCRIPTION | 8 ++++---- MD5 | 15 +++++++++------ NAMESPACE | 2 +- R/checkdata.R |only R/cvGrace.R | 14 ++++++++------ R/grace.R | 17 ++++------------- R/grace.test.R | 27 ++++++++------------------- R/graceI.test.R |only R/make.L.R | 8 +++++++- man/graceI.test.Rd |only 10 files changed, 41 insertions(+), 50 deletions(-)
Title: Read Data from Files Readable by 'gnumeric'
Description: Read data files readable by 'gnumeric' into 'R'. Can read
whole sheet or a range, from several file formats, including
the native format of 'gnumeric'. Reading is done by using
'ssconvert' (a file converter utility included in the 'gnumeric'
distribution <http://projects.gnome.org/gnumeric/>) to convert
the requested part to CSV. From 'gnumeric' files (but not other
formats) can list sheet names and sheet sizes or read all
sheets.
Author: Karoly Antal <antalk2@gmail.com>.
Maintainer: Karoly Antal <antalk2@gmail.com>
Diff between gnumeric versions 0.7-7 dated 2017-03-06 and 0.7-8 dated 2017-03-12
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/read.gnumeric.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Multiple Precision Arithmetic
Description: Multiple Precision Arithmetic (big integers and rationals,
prime number tests, matrix computation), "arithmetic without limitations"
using the C library GMP (GNU Multiple Precision Arithmetic).
Author: Antoine Lucas, Immanuel Scholz, Rainer Boehme <rb-gmp@reflex-studio.de>,
Sylvain Jasson <jasson@toulouse.inra.fr>,
Martin Maechler <maechler@stat.math.ethz.ch>
Maintainer: Antoine Lucas <antoinelucas@gmail.com>
Diff between gmp versions 0.5-13 dated 2017-01-08 and 0.5-13.1 dated 2017-03-12
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/bigintegerR.cc | 1 + 3 files changed, 6 insertions(+), 5 deletions(-)
Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown") objects in R expressions by code
inspection using various strategies, e.g. conservative or liberal. The objective
of this package is to make it as simple as possible to identify global objects
for the purpose of exporting them in distributed compute environments.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between globals versions 0.8.0 dated 2017-01-16 and 0.9.0 dated 2017-03-12
DESCRIPTION | 8 ++++---- MD5 | 27 ++++++++++++++------------- NAMESPACE | 1 + NEWS | 15 +++++++++++++++ R/findGlobals.R | 28 +++++++++++++++++++++++++++- R/globalsOf.R | 46 ++++++++++++++++++++++++++++++++++++++++------ R/utils.R | 46 +++++++++++++++++++++++----------------------- R/where.R |only man/Globals.Rd | 3 +-- man/cleanup.Globals.Rd | 3 +-- man/globalsByName.Rd | 1 - man/globalsOf.Rd | 7 +++---- man/packagesOf.Globals.Rd | 3 +-- man/walkAST.Rd | 1 - tests/globalsOf.R | 17 +++++++++-------- 15 files changed, 139 insertions(+), 67 deletions(-)
Title: Use Image in 'ggplot2'
Description: Supports aesthetic mapping of image files to be visualized in 'ggplot2' graphic system.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggimage versions 0.0.1 dated 2017-02-21 and 0.0.2 dated 2017-03-12
DESCRIPTION | 9 ++-- MD5 | 12 +++--- NEWS |only R/geom_image.R | 96 +++++++++++++++++++++++++++++++++++++++++++------- README.md |only inst/doc/ggimage.Rmd | 1 inst/doc/ggimage.html | 12 +++--- vignettes/ggimage.Rmd | 1 8 files changed, 103 insertions(+), 28 deletions(-)
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Author: Jonathan M. Lees
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>
Diff between GEOmap versions 2.3-8 dated 2015-11-09 and 2.4-0 dated 2017-03-12
GEOmap-2.3-8/GEOmap/build |only GEOmap-2.4-0/GEOmap/DESCRIPTION | 8 ++++---- GEOmap-2.4-0/GEOmap/MD5 | 6 +++--- GEOmap-2.4-0/GEOmap/man/along.great.Rd | 4 ++-- GEOmap-2.4-0/GEOmap/src/init.c |only 5 files changed, 9 insertions(+), 9 deletions(-)
Title: (Fuzzy) AHP Calculation
Description: Calculation of AHP (Analytic Hierarchy Process -
<http://en.wikipedia.org/wiki/Analytic_hierarchy_process>)
with classic and fuzzy weights based on Saaty's pairwise
comparison method for determination of weights.
Author: Jan Caha [aut, cre],
Aneta Drážná [ctb, com] (up to version 0.6.5)
Maintainer: Jan Caha <cahik@atlas.cz>
Diff between FuzzyAHP versions 0.8.0 dated 2016-11-03 and 0.9.0 dated 2017-03-12
FuzzyAHP-0.8.0/FuzzyAHP/inst/shiny |only FuzzyAHP-0.8.0/FuzzyAHP/tests/testthat/test_article_example_2.R |only FuzzyAHP-0.8.0/FuzzyAHP/tests/testthat/testing_fuzzy_pairwise_comparison_matrix_alternatives_C1.txt |only FuzzyAHP-0.8.0/FuzzyAHP/tests/testthat/testing_fuzzy_pairwise_comparison_matrix_alternatives_C2.txt |only FuzzyAHP-0.9.0/FuzzyAHP/DESCRIPTION | 27 FuzzyAHP-0.9.0/FuzzyAHP/MD5 | 61 - FuzzyAHP-0.9.0/FuzzyAHP/NAMESPACE | 5 FuzzyAHP-0.9.0/FuzzyAHP/NEWS |only FuzzyAHP-0.9.0/FuzzyAHP/R/class-FuzzyData.R | 3 FuzzyAHP-0.9.0/FuzzyAHP/R/class-FuzzyPairwiseComparisonMatrix.R | 123 ++- FuzzyAHP-0.9.0/FuzzyAHP/R/class-FuzzyWeights.R | 3 FuzzyAHP-0.9.0/FuzzyAHP/R/class-PairwiseComparisonMatrix.R | 161 +++- FuzzyAHP-0.9.0/FuzzyAHP/R/class-Weights.R | 3 FuzzyAHP-0.9.0/FuzzyAHP/R/function-buildFuzzyPairwiseComparisonMatrix.R |only FuzzyAHP-0.9.0/FuzzyAHP/R/function-buildPairwiseComparisonMatrix.R |only FuzzyAHP-0.9.0/FuzzyAHP/R/function-compare.R | 2 FuzzyAHP-0.9.0/FuzzyAHP/R/function-getFuzzyNumbers.R | 2 FuzzyAHP-0.9.0/FuzzyAHP/R/function-getFuzzyScale.R |only FuzzyAHP-0.9.0/FuzzyAHP/R/function-print.R | 32 FuzzyAHP-0.9.0/FuzzyAHP/R/function-textRepresentation.R |only FuzzyAHP-0.9.0/FuzzyAHP/inst/CITATION | 4 FuzzyAHP-0.9.0/FuzzyAHP/inst/doc/examples.R | 48 + FuzzyAHP-0.9.0/FuzzyAHP/inst/doc/examples.Rmd | 101 ++ FuzzyAHP-0.9.0/FuzzyAHP/inst/doc/examples.html | 174 +++- FuzzyAHP-0.9.0/FuzzyAHP/inst/doc/main-info.Rmd | 10 FuzzyAHP-0.9.0/FuzzyAHP/inst/doc/main-info.html | 37 - FuzzyAHP-0.9.0/FuzzyAHP/man/buildFuzzyPairwiseComparisonMatrix-methods.Rd |only FuzzyAHP-0.9.0/FuzzyAHP/man/buildPairwiseComparisonMatrix-methods.Rd |only FuzzyAHP-0.9.0/FuzzyAHP/man/fuzzyPairwiseComparisonMatrix-methods.Rd | 19 FuzzyAHP-0.9.0/FuzzyAHP/man/getFuzzyNumber-methods.Rd | 2 FuzzyAHP-0.9.0/FuzzyAHP/man/getFuzzyScale-methods.Rd |only FuzzyAHP-0.9.0/FuzzyAHP/man/textRepresentation-methods.Rd |only FuzzyAHP-0.9.0/FuzzyAHP/tests/testthat/test_build_comparison_matrix.R |only FuzzyAHP-0.9.0/FuzzyAHP/tests/testthat/test_calculateAHP.R | 6 FuzzyAHP-0.9.0/FuzzyAHP/tests/testthat/test_pairwiseComparisonMatrix.R | 29 FuzzyAHP-0.9.0/FuzzyAHP/vignettes/ahp-bibliography.bib | 350 +++------- FuzzyAHP-0.9.0/FuzzyAHP/vignettes/examples.Rmd | 101 ++ FuzzyAHP-0.9.0/FuzzyAHP/vignettes/main-info.Rmd | 10 38 files changed, 789 insertions(+), 524 deletions(-)
Title: Data to Support Fish Stock Assessment ('FSA') Package
Description: The datasets to support the Fish Stock Assessment ('FSA') package.
Author: Derek Ogle [aut, cre]
Maintainer: Derek Ogle <derek@derekogle.com>
Diff between FSAdata versions 0.3.5 dated 2016-12-13 and 0.3.6 dated 2017-03-12
DESCRIPTION | 10 - MD5 | 342 +++++++++++++++++++++++----------------------- R/BluegillIL.R | 10 - data/BluegillIL.rdata |binary man/AHerringChile.Rd | 2 man/AfricanRivers.Rd | 2 man/AlewifeLH.Rd | 2 man/AnchovetaChile.Rd | 2 man/BGHRfish.Rd | 2 man/BGHRsample.Rd | 2 man/BSkateGB.Rd | 2 man/BassFL.Rd | 2 man/BlackDrum2001.Rd | 2 man/BloaterLH.Rd | 2 man/BlueCatfish.Rd | 2 man/BlueCrab.Rd | 2 man/BluefishAge.Rd | 2 man/BluegillIL.Rd | 12 - man/BluegillLM.Rd | 2 man/BluntnoseIL1.Rd | 2 man/Bonito.Rd | 2 man/BrookTroutNC.Rd | 2 man/BrookTroutNEWP.Rd | 2 man/BrookTroutNEWP1.Rd | 2 man/BrookTroutOnt.Rd | 2 man/BrownTroutVC1.Rd | 2 man/BullTroutRML1.Rd | 2 man/BullTroutRML2.Rd | 2 man/BullTroutTC.Rd | 2 man/CCatfishNB.Rd | 2 man/Cabezon.Rd | 2 man/Casselman1990.Rd | 2 man/ChinookKR.Rd | 2 man/CiscoTL.Rd | 2 man/CrappieARMS.Rd | 2 man/CreekChub.Rd | 2 man/CreelMN.Rd | 2 man/Croaker1.Rd | 2 man/Croaker2.Rd | 2 man/CutthroatALf.Rd | 2 man/DarterMahon.Rd | 2 man/DarterOnt.Rd | 2 man/Deckeretal1999.Rd | 2 man/EuroPerchTJ.Rd | 2 man/FHCatfish.Rd | 2 man/FHCatfishATL.Rd | 2 man/FSAdata-internals.Rd | 1 man/FSAdata.Rd | 3 man/FWDrumLE1.Rd | 2 man/FWDrumLE2.Rd | 2 man/Ghats.Rd | 2 man/GreensCreekMine.Rd | 2 man/Hake.Rd | 2 man/HalibutPAC.Rd | 2 man/Herman.Rd | 2 man/HerringBWE.Rd | 2 man/HerringISS.Rd | 2 man/HumpbackWFCR.Rd | 2 man/InchLake1.Rd | 2 man/InchLake2.Rd | 2 man/JobfishSIO.Rd | 2 man/JonesStockwell.Rd | 2 man/Jonubi1.Rd | 2 man/Jonubi2.Rd | 2 man/KingCrabAK.Rd | 2 man/LJCisco.Rd | 2 man/LMBassBL.Rd | 2 man/LMBassLCB.Rd | 2 man/LakeTroutALTER.Rd | 2 man/LakeTroutEggs.Rd | 2 man/LakeTroutGIS.Rd | 2 man/LakeTroutMI.Rd | 2 man/Lizardfish.Rd | 2 man/LobsterHI.Rd | 2 man/LobsterPEI.Rd | 2 man/Menhaden1.Rd | 2 man/Morwong1.Rd | 2 man/Morwong2.Rd | 2 man/Morwong3.Rd | 2 man/Morwong4.Rd | 2 man/Morwong4a.Rd | 2 man/Mosquitofish.Rd | 2 man/MulletBS.Rd | 2 man/MuskieSLR.Rd | 2 man/MuskieWI06MR.Rd | 2 man/PSalmonAK.Rd | 2 man/Pallid.Rd | 2 man/Pathfinder.Rd | 2 man/PikeHL.Rd | 2 man/PikeIL.Rd | 2 man/PikeNYPartial2.Rd | 2 man/PikeWindermere.Rd | 2 man/PygmyWFBC.Rd | 2 man/RBSmeltErie.Rd | 2 man/RBSmeltLM.Rd | 2 man/RBTroutKenai.Rd | 2 man/RBTroutUNSP.Rd | 2 man/RWhitefishAI.Rd | 2 man/RWhitefishIR.Rd | 2 man/RedDrum.Rd | 2 man/Riffleshell.Rd | 2 man/RockBassCL.Rd | 2 man/RockBassLO1.Rd | 2 man/RockBassLO2.Rd | 2 man/RuffeSLRH92.Rd | 2 man/RuffeTL89.Rd | 2 man/SLampreyGL.Rd | 2 man/SalmonADP.Rd | 2 man/SalmonidsMCCA.Rd | 2 man/SardineChile.Rd | 2 man/SardineLK.Rd | 2 man/SardinesPacific.Rd | 2 man/SculpinALTER.Rd | 2 man/ShadCR.Rd | 2 man/ShrimpGuam.Rd | 2 man/SimonsonLyons.Rd | 2 man/SiscowetMI2004.Rd | 2 man/Snapper.Rd | 2 man/SnapperHG1.Rd | 2 man/SnapperHG2.Rd | 2 man/SockeyeKL.Rd | 2 man/SockeyeSR.Rd | 2 man/SpotVA2.Rd | 2 man/SpottedSucker1.Rd | 2 man/StripedBass1.Rd | 2 man/StripedBass2.Rd | 2 man/StripedBass3.Rd | 2 man/StripedBass4.Rd | 2 man/StripedBass5.Rd | 2 man/StripedBass6.Rd | 2 man/SturgeonBL.Rd | 2 man/SturgeonGB.Rd | 2 man/SunfishIN.Rd | 2 man/SunfishLP.Rd | 2 man/TPrawnsEG.Rd | 2 man/TroutADP.Rd | 2 man/TroutBR.Rd | 2 man/TroutperchLM1.Rd | 2 man/TroutperchLM2.Rd | 2 man/TroutperchLM3.Rd | 2 man/VendaceLP.Rd | 2 man/VendaceLP2.Rd | 2 man/WShrimpGA.Rd | 2 man/WalleyeConsumption.Rd | 2 man/WalleyeEL.Rd | 2 man/WalleyeErie.Rd | 2 man/WalleyeErie2.Rd | 2 man/WalleyeKS.Rd | 2 man/WalleyeML.Rd | 2 man/WalleyeMN06a.Rd | 2 man/WalleyeMN06b.Rd | 2 man/WalleyePL.Rd | 2 man/WalleyePS.Rd | 2 man/WalleyeRL.Rd | 2 man/WalleyeWad.Rd | 2 man/WalleyeWyrlng.Rd | 2 man/WhiteGrunt1.Rd | 2 man/WhiteGrunt2.Rd | 2 man/WhitefishGSL.Rd | 2 man/WhitefishLS.Rd | 2 man/WhitefishMB.Rd | 2 man/WhitefishTB.Rd | 2 man/YERockfish.Rd | 2 man/YPerchCB1.Rd | 2 man/YPerchCB2.Rd | 2 man/YPerchGB.Rd | 2 man/YPerchGL.Rd | 2 man/YPerchRL.Rd | 2 man/YPerchSB.Rd | 2 man/YPerchSB1.Rd | 2 man/YPerchTL.Rd | 2 man/YTFlounder.Rd | 2 172 files changed, 353 insertions(+), 355 deletions(-)
Title: Simple Fisheries Stock Assessment Methods
Description: A variety of simple fish stock assessment methods.
Detailed vignettes are available on the fishR website <http://derekogle.com/fishR/>.
Author: Derek Ogle [aut, cre]
Maintainer: Derek Ogle <derek@derekogle.com>
Diff between FSA versions 0.8.11 dated 2016-12-13 and 0.8.12 dated 2017-03-12
DESCRIPTION | 10 MD5 | 306 +++++++++++++-------------- NEWS.md | 32 +- R/BluegillJL.R | 2 R/FSA.R | 2 R/FSAUtils.R | 18 - R/Mirex.R | 2 R/SMBassLS.R | 2 R/SMBassWB.R | 2 R/Summarize.R | 12 - R/WR79.R | 2 R/addZeroCatch.R | 42 +-- R/ageComparisons.R | 30 +- R/alkIndivAge.R | 2 R/alkSummaries.R | 6 R/bcFuns.R | 2 R/bootstrap.R | 2 R/capHistConvert.R | 6 R/capHistSum.R | 6 R/catchCurve.R | 4 R/chapmanRobson.R | 10 R/comparisonsDVR.R | 4 R/depletion.R | 22 - R/dunnTest.R | 2 R/expandCounts.R | 6 R/extraTests.R | 2 R/fitPlot.R | 12 - R/growthModels.R | 10 R/hist.formula.R | 6 R/histFromSum.R | 2 R/knitUtil.R | 11 R/lencat.R | 6 R/lwCompPreds.R | 4 R/metaM.R | 64 ++--- R/mrClosed.R | 12 - R/mrOpen.R | 2 R/nlsTracePlot.R | 4 R/plotBinResp.R | 4 R/psdCI.R | 10 R/psdVal.R | 2 R/removal.R | 6 R/residPlot.R | 10 R/srStarts.R | 4 R/sumTable.R | 2 R/tictactoe.R | 2 R/vbStarts.R | 15 - R/wrAdd.R | 2 man/BluegillJL.Rd | 4 man/BrookTroutTH.Rd | 2 man/ChinookArg.Rd | 2 man/CodNorwegian.Rd | 2 man/CutthroatAL.Rd | 2 man/Ecoli.Rd | 2 man/FSA-internals.Rd | 9 man/FSA.Rd | 3 man/FSAUtils.Rd | 1 man/Mirex.Rd | 4 man/PSDlit.Rd | 2 man/PikeNY.Rd | 2 man/PikeNYPartial1.Rd | 2 man/SMBassLS.Rd | 4 man/SMBassWB.Rd | 4 man/Schnute.Rd | 10 man/SpotVA1.Rd | 2 man/Subset.Rd | 15 - man/Summarize.Rd | 21 - man/WR79.Rd | 4 man/WSlit.Rd | 2 man/WhitefishLC.Rd | 2 man/addRadCap.Rd | 7 man/addZeroCatch.Rd | 28 +- man/ageBias.Rd | 28 +- man/agePrecision.Rd | 19 - man/alkAgeDist.Rd | 10 man/alkIndivAge.Rd | 10 man/alkMeanVar.Rd | 12 - man/alkPlot.Rd | 8 man/bcFuns.Rd | 10 man/binCI.Rd | 7 man/bootCase.Rd | 17 - man/capHistConvert.Rd | 14 - man/capHistSum.Rd | 15 - man/catchCurve.Rd | 27 +- man/chapmanRobson.Rd | 29 +- man/chooseColors.Rd | 7 man/col2rgbt.Rd | 9 man/compIntercepts.Rd | 14 - man/compSlopes.Rd | 10 man/depletion.Rd | 43 ++- man/diags.Rd | 3 man/dunnTest.Rd | 15 - man/expandCounts.Rd | 13 - man/expandLenFreq.Rd | 7 man/extraTests.Rd | 9 man/fact2num.Rd | 1 man/fishR.Rd | 3 man/fitPlot.Rd | 38 ++- man/fsaNews.Rd | 4 man/gConvert.Rd | 7 man/geomean.Rd | 4 man/growthModels.Rd | 22 - man/headtail.Rd | 1 man/hist.formula.Rd | 14 - man/histFromSum.Rd | 16 - man/hoCoef.Rd | 7 man/hyperCI.Rd | 1 man/knitUtil.Rd | 22 + man/ksTest.Rd | 13 - man/lagratio.Rd | 11 man/lencat.Rd | 16 - man/logbtcf.Rd | 9 man/lwCompPreds.Rd | 12 - man/mapvalues.Rd | 1 man/metaM.Rd | 36 +-- man/mrClosed.Rd | 31 +- man/mrOpen.Rd | 19 - man/nlsBoot.Rd | 15 - man/nlsTracePlot.Rd | 5 man/oddeven.Rd | 5 man/perc.Rd | 1 man/plotBinResp.Rd | 17 - man/poiCI.Rd | 7 man/psdAdd.Rd | 12 - man/psdCI.Rd | 14 - man/psdCalc.Rd | 8 man/psdPlot.Rd | 8 man/psdVal.Rd | 10 man/rcumsum.Rd | 10 man/removal.Rd | 20 - man/residPlot.Rd | 34 +-- man/se.Rd | 7 man/srStarts.Rd | 10 man/stockRecruitment.Rd | 12 - man/sumTable.Rd | 14 - man/tictactoe.Rd | 10 man/validn.Rd | 8 man/vbStarts.Rd | 20 - man/wrAdd.Rd | 14 - man/wsVal.Rd | 8 tests/testthat/EXS_addZeroCatch.R | 4 tests/testthat/EXS_extraTests.R | 11 tests/testthat/Rplots.pdf |binary tests/testthat/test_AgeLengthKey_MSG.R | 6 tests/testthat/test_CatchCurve_VALIDATE.R | 19 + tests/testthat/test_FSAUtils_MSG.R | 8 tests/testthat/test_FSAUtils_OUT.R | 12 - tests/testthat/test_Internals.R | 6 tests/testthat/test_PSD_MSG.R | 4 tests/testthat/test_Summarize_OUT_VALIDATE.R | 12 - tests/testthat/test_VonBertalanffy_MSG.R | 8 tests/testthat/test_capHist_OUT.R | 2 tests/testthat/test_extraTests_OUT.R | 8 tests/testthat/test_histFormula_MSG.R | 24 +- tests/testthat/test_knitUtil_OUT.R | 6 154 files changed, 973 insertions(+), 912 deletions(-)
Title: General Frailty Models: Shared, Joint and Nested Frailty Models
with Prediction
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package:
1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied.
2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope).
3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects.
4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed.
5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms.
6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects.
7) Multivariate joint frailty models for two types of recurrent events and a terminal event.
8) Joint models for longitudinal data and a terminal event.
9) Trivariate joint models for longitudinal data, recurrent events and a terminal event.
Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey
Mauguen, Agnieszka Krol, Amadou Diakite, Alexandre Laurent and Myriam Lopez
Maintainer: Virginie Rondeau <Virginie.Rondeau@isped.u-bordeaux2.fr>
Diff between frailtypack versions 2.10.6 dated 2017-03-07 and 2.11.0 dated 2017-03-12
DESCRIPTION | 8 MD5 | 262 - NAMESPACE | 2 NEWS | 3 R/Cmeasures.R | 336 +- R/Diffepoce.R | 66 R/SurvIC.R | 98 R/additivePenal.R | 1274 ++++---- R/cindexes.B.R | 156 - R/cindexes.R | 148 - R/cindexes.W.R | 84 R/cindexes.frailty.R | 162 - R/cluster.R | 6 R/epoce.R | 1084 +++---- R/event2.R | 10 R/factor.names.R | 110 R/firstlib.R | 28 R/frailtyPenal.R | 5410 ++++++++++++++++++------------------- R/hazard.R | 256 - R/lines.frailtyPenal.R | 76 R/longiPenal.R | 2704 +++++++++--------- R/multivPenal.R | 2852 +++++++++---------- R/num.id.R | 10 R/plot.Diffepoce.R | 28 R/plot.epoce.R | 34 R/plot.jointNestedPenal.R | 322 +- R/plot.jointPenal.R | 328 +- R/plot.longiPenal.R | 82 R/plot.multivPenal.R | 342 +- R/plot.nestedPenal.additivePenal.R | 134 R/plot.predFrailty.R | 126 R/plot.predJoint.R | 230 - R/plot.predJointNested.R |only R/prediction.R | 365 +- R/print.Cmeasures.R | 314 +- R/print.Diffepoce.R | 38 R/print.additivePenal.R | 480 +-- R/print.epoce.R | 46 R/print.frailtyPenal.R | 634 ++-- R/print.jointNestedPenal.R | 432 +- R/print.jointPenal.R | 742 ++--- R/print.longiPenal.R | 742 ++--- R/print.multivPenal.R | 620 ++-- R/print.nestedPenal.R | 440 +-- R/print.predFrailty.R | 44 R/print.predJoint.R | 116 R/print.predJointNested.R |only R/print.predLongi.R | 40 R/print.trivPenal.R | 912 +++--- R/slope.R | 10 R/statFP.R | 116 R/subcluster.R | 8 R/summary.additivePenal.R | 94 R/summary.frailtyPenal.R | 112 R/summary.jointNestedPenal.R | 112 R/summary.jointPenal.R | 106 R/summary.multivPenal.R | 132 R/summary.nestedPenal.R | 90 R/survival.R | 208 - R/terminal.R | 10 R/timedep.R | 6 R/transfo.table.R | 184 - R/trivPenal.R | 3414 +++++++++++------------ R/waldtest.R | 114 THANKS | 8 demo/00Index | 10 demo/frailtypack_additivePenal.R | 92 demo/frailtypack_frailtyPenal.R | 174 - demo/frailtypack_jointPenal.R | 186 - demo/frailtypack_multivPenal.R | 74 demo/frailtypack_nestedPenal.R | 64 inst/CITATION | 70 inst/doc/Package_summary.Rmd | 86 inst/doc/Package_summary.html | 860 ++--- man/Cmeasures.Rd | 240 - man/SurvIC.Rd | 110 man/additivePenal.Rd | 442 +-- man/bcos.Rd | 60 man/cluster.Rd | 86 man/dataAdditive.Rd | 74 man/dataMultiv.Rd | 64 man/dataNested.Rd | 72 man/frailtyPenal.Rd | 1228 ++++---- man/frailtypack-package.Rd | 338 +- man/hazard.Rd | 80 man/multivPenal.Rd | 468 +-- man/num.id.Rd | 112 man/plot.Diffepoce.Rd | 60 man/plot.epoce.Rd | 68 man/plot.predFrailty.Rd | 64 man/plot.predJoint.Rd | 68 man/plotAdditive.Rd | 132 man/plotFrailtyPenal.Rd | 152 - man/plotJointNestedPenal.Rd | 146 man/plotJointPenal.Rd | 162 - man/plotNestedPenal.Rd | 128 man/plotTrivPenal.Rd | 154 - man/prediction.Rd | 59 man/print.Cmeasures.Rd | 60 man/printAdditive.Rd | 60 man/printFrailtyPenal.Rd | 64 man/printJointNestedPenal.Rd | 62 man/printJointPenal.Rd | 70 man/printNestedPenal.Rd | 76 man/readmission.Rd | 72 man/slope.Rd | 128 man/subcluster.Rd | 114 man/summaryAdditive.Rd | 106 man/summaryFrailtyPenal.Rd | 136 man/summaryJointNestedPenal.Rd | 110 man/summaryJointPenal.Rd | 122 man/summaryNestedPenal.Rd | 108 man/survival.Rd | 84 man/terminal.Rd | 74 man/timedep.Rd | 166 - src/Aparameters.f90 | 2 src/Makevars | 1 src/aaOptim.f90 | 4 src/additive.f90 | 6 src/ahrmsym.f90 | 2 src/atestWald.f90 |only src/distance.f90 | 13 src/epoce_long.f90 | 8 src/frailtypack.f90 | 4 src/frailtypack.h | 9 src/funcpaasplines.f90 | 9 src/funcpaj_tps.f90 | 4 src/funcpajsplines_fam.f90 | 5 src/funcpassplines_log.f90 | 5 src/init.c | 1 src/joint.f90 | 2 src/nested.f90 | 2 src/predictionfam.f90 |only vignettes/Package_summary.Rmd | 86 134 files changed, 17770 insertions(+), 17648 deletions(-)
Title: Learn from Training Data then Quickly Fill in Missing Data
Description: TrainFastImputation() uses training data to describe a
multivariate normal distribution that the data approximates or
can be transformed into approximating and stores this information
as an object of class 'FastImputationPatterns'. FastImputation()
function uses this 'FastImputationPatterns' object to impute (make
a good guess at) missing data in a single line or a whole data frame
of data. This approximates the process used by 'Amelia'
<http://gking.harvard.edu/amelia/> but is much faster when
filling in values for a single line of data.
Author: Stephen R. Haptonstahl
Maintainer: Stephen R. Haptonstahl <srh@haptonstahl.org>
Diff between FastImputation versions 1.3.1 dated 2016-06-28 and 2.0 dated 2017-03-12
FastImputation-1.3.1/FastImputation/R/LimitToSet.R |only FastImputation-1.3.1/FastImputation/data/FItest.RData |only FastImputation-1.3.1/FastImputation/data/FItrain.RData |only FastImputation-1.3.1/FastImputation/data/FItrue.RData |only FastImputation-1.3.1/FastImputation/man/FItest.Rd |only FastImputation-1.3.1/FastImputation/man/FItrain.Rd |only FastImputation-1.3.1/FastImputation/man/FItrue.Rd |only FastImputation-1.3.1/FastImputation/man/LimitToSet.Rd |only FastImputation-2.0/FastImputation/DESCRIPTION | 21 - FastImputation-2.0/FastImputation/MD5 | 49 +- FastImputation-2.0/FastImputation/NAMESPACE | 1 FastImputation-2.0/FastImputation/R/CovarianceWithMissing.R | 10 FastImputation-2.0/FastImputation/R/FI_test.R |only FastImputation-2.0/FastImputation/R/FI_train.R |only FastImputation-2.0/FastImputation/R/FI_true.R |only FastImputation-2.0/FastImputation/R/FastImputation.R | 208 +++++++--- FastImputation-2.0/FastImputation/R/NormalizeBoundedVariable.R | 5 FastImputation-2.0/FastImputation/R/TrainFastImputation.R | 177 ++++++-- FastImputation-2.0/FastImputation/data/FI_test.RData |only FastImputation-2.0/FastImputation/data/FI_train.RData |only FastImputation-2.0/FastImputation/data/FI_true.RData |only FastImputation-2.0/FastImputation/man/BoundNormalizedVariable.Rd | 1 FastImputation-2.0/FastImputation/man/CovarianceWithMissing.Rd | 7 FastImputation-2.0/FastImputation/man/FI_test.Rd |only FastImputation-2.0/FastImputation/man/FI_train.Rd |only FastImputation-2.0/FastImputation/man/FI_true.Rd |only FastImputation-2.0/FastImputation/man/FastImputation.Rd | 75 ++- FastImputation-2.0/FastImputation/man/NormalizeBoundedVariable.Rd | 1 FastImputation-2.0/FastImputation/man/TrainFastImputation.Rd | 35 - FastImputation-2.0/FastImputation/man/UnfactorColumns.Rd | 1 FastImputation-2.0/FastImputation/tests/testthat.R | 4 FastImputation-2.0/FastImputation/tests/testthat/test_BoundNormalizedVariable.R | 50 +- FastImputation-2.0/FastImputation/tests/testthat/test_CovarianceWithMissing.R | 3 FastImputation-2.0/FastImputation/tests/testthat/test_FastImputation.R |only FastImputation-2.0/FastImputation/tests/testthat/test_TrainFastImputation.R |only 35 files changed, 445 insertions(+), 203 deletions(-)
More information about FastImputation at CRAN
Permanent link
Title: Additional Univariate and Multivariate Distributions
Description: Density, distribution function, quantile function
and random generation for a number of univariate
and multivariate distributions. This package implements the
following distributions: Bernoulli, beta-binomial, beta-negative
binomial, beta prime, Bhattacharjee, Birnbaum-Saunders,
bivariate normal, bivariate Poisson, categorical, Dirichlet,
Dirichlet-multinomial, discrete gamma, discrete Laplace,
discrete normal, discrete uniform, discrete Weibull, Frechet,
gamma-Poisson, generalized extreme value, Gompertz,
generalized Pareto, Gumbel, half-Cauchy, half-normal, half-t,
Huber density, inverse chi-squared, inverse-gamma, Kumaraswamy,
Laplace, logarithmic, Lomax, multivariate hypergeometric,
multinomial, negative hypergeometric, non-standard t,
non-standard beta, normal mixture, Poisson mixture, Pareto,
power, reparametrized beta, Rayleigh, shifted Gompertz, Skellam,
slash, triangular, truncated binomial, truncated normal,
truncated Poisson, Tukey lambda, Wald, zero-inflated binomial,
zero-inflated negative binomial, zero-inflated Poisson.
Author: Tymoteusz Wolodzko
Maintainer: Tymoteusz Wolodzko <twolodzko+extraDistr@gmail.com>
Diff between extraDistr versions 1.8.3 dated 2017-02-04 and 1.8.4 dated 2017-03-12
DESCRIPTION | 11 - MD5 | 250 +++++++++++------------ NAMESPACE | 3 NEWS.md | 15 + R/RcppExports.R | 20 + R/bernoulli-distribution.R | 3 R/beta-binomial-distribution.R | 3 R/beta-negative-binomial-distribution.R | 3 R/beta-prime-distribution.R | 8 R/bhattacharjee-distribution.R | 8 R/birnbaum-saunders-distribution.R | 8 R/bivariate-normal-distribution.R | 21 - R/bivariate-poisson-distribution.R | 3 R/categorical-distribution.R | 64 +++++ R/dirichlet-distribution.R | 3 R/dirichlet-multinomial-distribution.R | 3 R/discrete-gamma-distribution.R | 3 R/discrete-laplace-distribution.R | 3 R/discrete-normal-distribution.R | 3 R/discrete-uniform-distribution.R | 3 R/discrete-weibull-distribution.R | 3 R/extraDistr-package.R | 2 R/frechet-distribution.R | 3 R/gamma-poisson-distribution.R | 3 R/gev-distribution.R | 8 R/gompertz-distribution.R | 8 R/gpd-distribution.R | 8 R/gumbel-distribution.R | 8 R/half-cauchy-distribution.R | 8 R/half-normal-distribution.R | 8 R/half-t-distribution.R | 8 R/huber-distribution.R | 8 R/inverse-chi-squared-distribution.R | 13 - R/inverse-gamma-distribution.R | 8 R/kumaraswamy-distribution.R | 8 R/laplace-distribution.R | 8 R/logarithmic-series-distribution.R | 5 R/lomax-distribution.R | 8 R/mixture-of-normal-distributions.R | 10 R/mixture-of-poisson-distributions.R | 3 R/multinomial-distribution.R | 3 R/multivariate-hypergeometric-distribution.R | 3 R/negative-hypergeometric-distribution.R | 3 R/non-standard-beta-distribution.R | 8 R/non-standard-t-distribution.R | 8 R/pareto-distribution.R | 8 R/power-distribution.R | 8 R/proportion-distribution.R | 73 ++++-- R/rademacher-distribution.R | 3 R/rayleigh-distribution.R | 8 R/shifted-gompertz-distribution.R | 8 R/skellam-distribution.R | 8 R/slash-distribution.R | 8 R/triangular-distribution.R | 8 R/truncated-binomial-distribution.R | 3 R/truncated-normal-distribution.R | 24 +- R/truncated-poisson-distributtion.R | 3 R/tuckey-lambda-distribution.R | 3 R/wald-distribution.R | 8 R/zero-inflated-binomial-distribution.R | 3 R/zero-inflated-negative-binomial-distribution.R | 3 R/zero-inflated-poisson-distribution.R | 3 man/Bernoulli.Rd | 5 man/BetaBinom.Rd | 5 man/BetaNegBinom.Rd | 5 man/BetaPrime.Rd | 10 man/Bhattacharjee.Rd | 10 man/BirnbaumSaunders.Rd | 10 man/BivNormal.Rd | 23 +- man/BivPoiss.Rd | 5 man/Categorical.Rd | 46 ++++ man/DirMnom.Rd | 5 man/Dirichlet.Rd | 5 man/DiscreteGamma.Rd | 5 man/DiscreteLaplace.Rd | 5 man/DiscreteNormal.Rd | 5 man/DiscreteUniform.Rd | 5 man/DiscreteWeibull.Rd | 5 man/Frechet.Rd | 5 man/GEV.Rd | 10 man/GPD.Rd | 10 man/GammaPoiss.Rd | 5 man/Gompertz.Rd | 10 man/Gumbel.Rd | 10 man/HalfCauchy.Rd | 10 man/HalfNormal.Rd | 10 man/HalfT.Rd | 10 man/Huber.Rd | 10 man/InvChiSq.Rd | 15 - man/InvGamma.Rd | 10 man/Kumaraswamy.Rd | 10 man/Laplace.Rd | 10 man/LogSeries.Rd | 6 man/Lomax.Rd | 10 man/MultiHypergeometric.Rd | 5 man/Multinomial.Rd | 5 man/NSBeta.Rd | 10 man/NegHyper.Rd | 5 man/NonStandardT.Rd | 10 man/NormalMix.Rd | 12 - man/Pareto.Rd | 10 man/PoissonMix.Rd | 5 man/PowerDist.Rd | 10 man/PropBeta.Rd | 67 ++++-- man/Rayleigh.Rd | 10 man/ShiftGomp.Rd | 10 man/Skellam.Rd | 9 man/Slash.Rd | 10 man/Triangular.Rd | 10 man/TruncBinom.Rd | 5 man/TruncNormal.Rd | 26 +- man/TruncPoisson.Rd | 5 man/TuckeyLambda.Rd | 5 man/Wald.Rd | 10 man/ZIB.Rd | 5 man/ZINB.Rd | 5 man/ZIP.Rd | 5 src/RcppExports.cpp | 40 ++- src/Rcpp_init_extraDistr.c |only src/beta-binomial-distribution.cpp | 9 src/beta-negative-binomial-distribution.cpp | 9 src/bivariate-poisson-distribution.cpp | 10 src/categorical-distribution-lp.cpp |only src/gamma-poisson-distribution.cpp | 6 src/negative-hypergeometric-distribution.cpp | 36 ++- src/proportion-distribution.cpp | 65 +++-- src/shared.cpp | 2 127 files changed, 1064 insertions(+), 455 deletions(-)
Title: Tools for Ecological Network Analysis
Description: Provides algorithms for the analysis of ecological networks.
Author: M.K. Lau, S.R. Borrett, D.E. Hines, P. Singh
Maintainer: Matthew K. Lau <enaR.maintainer@gmail.com>
Diff between enaR versions 2.9.1 dated 2015-08-07 and 2.10.0 dated 2017-03-12
CHANGELOG |only DESCRIPTION | 15 +- MD5 | 204 +++++++++++++++++--------------- NAMESPACE | 69 ++++++++--- R/EcoNetWeb.R |only R/ShannonDiversity.R |only R/TES.R | 45 +++++++ R/TET.R | 56 ++++++++ R/as.bipartite.R | 41 ++++++ R/as.extended.R | 45 +++++++ R/bal.R | 27 ++++ R/balance.R | 37 ++++- R/bcratio.R | 18 +- R/cycliv.R | 78 +++++++++++- R/eigenCentrality.R | 18 +- R/enaAll.R | 38 ++++++ R/enaAscendency.R | 276 +++++++++++++++++++++++++++++++++++--------- R/enaControl.R | 193 +++++++++++++++++++----------- R/enaCycle.R | 89 +++++++++++++- R/enaEnviron.R | 46 +++++++ R/enaFlow.R | 132 +++++++++++++++++++-- R/enaMTI.R | 103 +++++++++++++++- R/enaR-package.R |only R/enaStorage.R | 125 ++++++++++++++++++- R/enaStructure.R | 46 +++++++ R/enaTroAgg.R | 88 +++++++++++++- R/enaUtility.R | 266 +++++++++++++++++++++++++++++++----------- R/environCentrality.R | 45 +++++++ R/findPathLength.R | 72 +++++++++-- R/force.balance.R | 41 ++++++ R/get.ns.R | 45 ++++++- R/get.orient.R | 25 +++ R/mExp.R | 32 +++++ R/netOrder.R | 43 ++++++ R/pack.R | 25 +++ R/read.EcoNet.R |only R/read.enam.R | 48 +++++-- R/read.nea.R | 31 ++++ R/read.scor.R | 41 ++++++ R/read.wand.R | 29 ++++ R/relationalChange.r |only R/scc.R | 54 ++++++++ R/scifix.R | 22 +++ R/set.orient.R | 51 ++++++++ R/signs.r |only R/ssCheck.R | 41 ++++++ R/structure.statistics.R | 46 ++++++- R/unpack.R | 41 ++++++ R/write.EcoNet.R | 43 ++++-- R/write.nea.R | 31 ++++ build/vignette.rds |binary data/bgcModels.rda |binary data/enaModelInfo.rda |binary data/enaModels.rda |binary data/oyster.rda |binary data/troModels.rda |binary inst/doc/enaR-vignette.pdf |binary man/EcoNetWeb.Rd |only man/ShannonDiversity.Rd |only man/TES.Rd | 74 ++++++----- man/TET.Rd | 101 +++++++++------- man/as.bipartite.Rd | 71 ++++++----- man/as.extended.Rd | 76 ++++++++---- man/bal.Rd | 50 ++++--- man/balance.Rd | 63 ++++------ man/bcratio.Rd | 34 ++--- man/bgcModels.Rd | 18 +- man/cycliv.Rd | 109 ++++++++++------- man/eigenCentrality.Rd | 31 +--- man/enaAll.Rd | 99 ++++++++------- man/enaAscendency.Rd | 148 ++++++++++++++--------- man/enaControl.Rd | 112 ++++++++++------- man/enaCycle.Rd | 117 +++++++++++------- man/enaEnviron.Rd | 90 ++++++++------ man/enaFlow.Rd | 180 +++++++++++++++++----------- man/enaMTI.Rd | 141 +++++++++++----------- man/enaModelInfo.Rd | 19 +-- man/enaModels.Rd | 16 -- man/enaR-package.Rd | 43 ++---- man/enaStorage.Rd | 149 ++++++++++++----------- man/enaStructure.Rd | 80 +++++++----- man/enaTroAgg.Rd | 118 +++++++++++------- man/enaUtility.Rd | 168 ++++++++++++++------------ man/environCentrality.Rd | 85 +++++++------ man/findPathLength.Rd | 83 +++++++------ man/force.balance.Rd | 84 +++++++------ man/get.ns.Rd | 70 ++++++----- man/get.orient.Rd | 77 +++--------- man/m.list.Rd | 16 -- man/mExp.Rd | 62 +++++---- man/netOrder.Rd | 69 ++++++----- man/oyster.Rd | 25 +-- man/pack.Rd | 64 ++++------ man/read.EcoNet.Rd |only man/read.enam.Rd | 62 +++++---- man/read.nea.Rd | 65 ++++++---- man/read.scor.Rd | 88 +++++++------- man/read.wand.Rd | 46 ++++--- man/relationalChange.Rd |only man/scc.Rd | 87 +++++++------ man/scifix.Rd | 43 +++--- man/set.orient.Rd | 89 +++++++------- man/signs.Rd |only man/ssCheck.Rd | 83 +++++++------ man/structure.statistics.Rd | 66 +++++----- man/troModels.Rd | 13 -- man/unpack.Rd | 66 ++++++---- man/write.EcoNet.Rd | 50 +++---- man/write.nea.Rd | 65 +++++----- 109 files changed, 4394 insertions(+), 2032 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 0.2.1 dated 2016-12-19 and 0.2.2 dated 2017-03-12
DESCRIPTION | 14 MD5 | 502 +++++------ NAMESPACE | 9 NEWS.md | 73 + R/bayesdist.R | 2 R/emuR-autobuild.R | 35 R/emuR-autoproc_annots.R | 27 R/emuR-bas_webservices.R |only R/emuR-bas_webservicesDBI.R |only R/emuR-convert_BPFCollection.R | 101 +- R/emuR-convert_txtCollection.R |only R/emuR-create_emuRdemoData.R | 7 R/emuR-create_seglists.R | 10 R/emuR-database.DBconfig.R | 246 ++++- R/emuR-database.R | 2 R/emuR-database.annotJSON.R | 4 R/emuR-database.caching.R | 2 R/emuR-export_BPFCollection.R |only R/emuR-export_TextGridCollection.R | 2 R/emuR-legacy.R | 20 R/emuR-parse_TextGridDBI.R | 2 R/emuR-parser.BPF.R | 64 - R/emuR-parser.common.R | 4 R/emuR-parser.esps.R | 2 R/emuR-query.database.R | 222 ++-- R/emuR-requery.database.R | 14 R/emuR-server.R | 4 inst/doc/EQL.html | 4 inst/doc/emuDB.html | 13 inst/doc/emuR_intro.html | 8 inst/extdata/rawDemoData/annotationFiles/ae_DBconfig.json | 51 + inst/extdata/rawDemoData/txtFiles |only man/AddListRemoveAttrDefLabelGroup.Rd | 1 man/AddListRemoveLabelGroup.Rd | 1 man/AddListRemoveLevelDefinitions.Rd | 11 man/AddListRemoveLinkDefinition.Rd | 8 man/AddListRemovePerspective.Rd | 1 man/AddListRemoveSsffTrackDefinition.Rd | 1 man/AddListRenameRemoveAttributeDefinitions.Rd | 15 man/SetGetRemoveLegalLabels.Rd | 3 man/SetGetSignalCanvasesOrder.Rd | 3 man/SetGetlevelCanvasesOrder.Rd | 3 man/Slope.test.Rd | 1 man/add_files.Rd | 1 man/as.matrix.emusegs.Rd | 1 man/as.spectral.Rd | 7 man/as.trackdata.Rd | 1 man/autobuild_linkFromTimes.Rd | 7 man/bark.Rd | 11 man/bayes.dist.Rd | 1 man/bayes.lab.Rd | 1 man/bayesian.metric.Rd | 1 man/bayesplot.Rd | 1 man/bind.Rd | 1 man/bind.default.Rd | 1 man/bind.trackdata.Rd | 1 man/bridge.Rd | 1 man/buildtrack.Rd | 7 man/by.trackdata.Rd | 13 man/cbind.trackdata.Rd | 11 man/cen.sub.Rd | 1 man/classify.Rd | 1 man/classplot.Rd | 7 man/closest.Rd | 1 man/convert_BPFCollection.Rd | 3 man/convert_TextGridCollection.Rd | 1 man/convert_legacyEmuDB.Rd | 3 man/convert_txtCollection.Rd |only man/coutts.Rd | 1 man/coutts.epg.Rd | 1 man/coutts.l.Rd | 1 man/coutts.rms.Rd | 1 man/coutts.sam.Rd | 1 man/coutts2.Rd | 1 man/coutts2.epg.Rd | 1 man/coutts2.l.Rd | 1 man/coutts2.sam.Rd | 1 man/cr.Rd | 7 man/create_emuDB.Rd | 1 man/create_emuRdemoData.Rd | 1 man/create_emuRtrackdata.Rd | 1 man/crplot.Rd | 7 man/dapply.Rd | 1 man/dbnorm.Rd | 7 man/dbtopower.Rd | 7 man/dct.Rd | 7 man/dcut.Rd | 7 man/ddiff.Rd | 1 man/demo.all.Rd | 1 man/demo.all.f0.Rd | 1 man/demo.all.fm.Rd | 1 man/demo.all.rms.Rd | 1 man/demo.vowels.Rd | 1 man/demo.vowels.f0.Rd | 1 man/demo.vowels.fm.Rd | 1 man/dextract.Rd | 7 man/dextract.lab.Rd | 1 man/dim.trackdata.Rd | 3 man/dimnames.trackdata.Rd | 1 man/dip.Rd | 1 man/dip.fdat.Rd | 1 man/dip.l.Rd | 1 man/dip.spkr.Rd | 1 man/distance.Rd | 1 man/dplot.Rd | 7 man/dsmooth.Rd | 1 man/dtime.Rd | 1 man/duplicate_level.Rd | 1 man/dur.Rd | 1 man/dur.emusegs.Rd | 1 man/dur.trackdata.Rd | 1 man/e.dft.Rd | 1 man/ellipse.Rd | 1 man/emuR-package.Rd | 3 man/emuRsegs.Rd | 3 man/emuRtrackdata.Rd | 2 man/emusegs.database.Rd | 1 man/emusegs.query.Rd | 1 man/emusegs.type.Rd | 1 man/engassim.Rd | 1 man/engassim.epg.Rd | 1 man/engassim.l.Rd | 1 man/engassim.w.Rd | 1 man/epgai.Rd | 7 man/epgcog.Rd | 7 man/epggs.Rd | 7 man/epgplot.Rd | 7 man/epgsum.Rd | 7 man/eplot.Rd | 7 man/euclidean.Rd | 1 man/expand_labels.Rd | 1 man/export_TextGridCollection.Rd | 1 man/fapply.Rd | 12 man/frames.Rd | 7 man/frames.time.Rd | 1 man/freqtoint.Rd | 1 man/fric.Rd | 1 man/fric.dft.Rd | 1 man/fric.l.Rd | 1 man/fric.w.Rd | 1 man/gerst.sub.Rd | 1 man/get.time.element.Rd | 1 man/get.trackkeywrd.Rd | 1 man/get_trackdata.Rd | 3 man/import_mediaFiles.Rd | 1 man/is.seglist.Rd | 1 man/is.spectral.Rd | 7 man/is.trackdata.Rd | 1 man/isol.Rd | 1 man/isol.fdat.Rd | 1 man/isol.l.Rd | 1 man/label.Rd | 9 man/label_convert.Rd | 1 man/label_num.Rd | 1 man/linear.Rd | 1 man/linear.av.Rd | 1 man/list_bundles.Rd | 1 man/list_files.Rd | 1 man/list_sessions.Rd | 1 man/load_emuDB.Rd | 1 man/lob.sub.Rd | 1 man/locus.Rd | 1 man/mahal.Rd | 1 man/mahal.dist.Rd | 1 man/mahalanobis.metric.Rd | 1 man/make.emuRsegs.Rd | 1 man/make.seglist.Rd | 7 man/makelab.Rd | 1 man/matscan.Rd | 1 man/mel.Rd | 9 man/mel.default.Rd | 1 man/modify.seglist.Rd | 7 man/moments.Rd | 7 man/mu.colour.Rd | 7 man/mu.colour.get.Rd | 1 man/mu.legend.Rd | 1 man/mu.linetype.get.Rd | 1 man/muclass.Rd | 1 man/nearey.sub.Rd | 1 man/norm.Rd | 1 man/outliers.Rd | 1 man/palate.Rd | 7 man/perform.Rd | 1 man/plafit.Rd | 7 man/plot.spectral.Rd | 7 man/plot.trackdata.Rd | 7 man/polhom.Rd | 1 man/polhom.epg.Rd | 1 man/polhom.l.Rd | 1 man/polygonplot.Rd | 1 man/print.emuRsegs.Rd | 1 man/print.emusegs.Rd | 1 man/print.trackdata.Rd | 1 man/query.Rd | 5 man/rad.Rd | 7 man/radians.Rd | 1 man/randomise.segs.Rd | 1 man/rbind.trackdata.Rd | 11 man/read.emusegs.Rd | 7 man/rename_emuDB.Rd | 1 man/replace_itemLabels.Rd | 1 man/requery_hier.Rd | 5 man/requery_seq.Rd | 7 man/rescale.gerst.Rd | 1 man/rescale.lob.Rd | 1 man/rescale.nearey.Rd | 1 man/runBASwebservice_all.Rd |only man/runBASwebservice_chunker.Rd |only man/runBASwebservice_g2pForPronunciation.Rd |only man/runBASwebservice_g2pForTokenization.Rd |only man/runBASwebservice_maus.Rd |only man/runBASwebservice_minni.Rd |only man/runBASwebservice_pho2sylCanonical.Rd |only man/runBASwebservice_pho2sylSegmental.Rd |only man/segmentlist.Rd | 3 man/serve.Rd | 1 man/shift.Rd | 7 man/sortmatrix.Rd | 1 man/splitstring.Rd | 1 man/start.emusegs.Rd | 11 man/sub-.EPG.Rd | 1 man/sub-.spectral.Rd | 1 man/sub-.trackdata.Rd | 1 man/summary.emuDBhandle.Rd | 1 man/summary.emusegs.Rd | 1 man/summary.trackdata.Rd | 1 man/track.gradinfo.Rd | 7 man/track.gradinfo.sub.Rd | 1 man/trackdata.Rd | 4 man/trackfreq.Rd | 1 man/tracktimes.Rd | 7 man/train.Rd | 1 man/trapply.Rd | 11 man/vowlax.Rd | 1 man/vowlax.df.Rd | 1 man/vowlax.dft.5.Rd | 1 man/vowlax.fdat.5.Rd | 1 man/vowlax.fdat.Rd | 1 man/vowlax.fund.5.Rd | 1 man/vowlax.fund.Rd | 1 man/vowlax.l.Rd | 1 man/vowlax.left.Rd | 1 man/vowlax.right.Rd | 1 man/vowlax.rms.5.Rd | 1 man/vowlax.rms.Rd | 1 man/vowlax.spkr.Rd | 1 man/vowlax.word.Rd | 1 man/wordlax.l.Rd | 1 man/write.emusegs.Rd | 2 tests/testthat/test_emuR-autobuild.R | 4 tests/testthat/test_emuR-autoproc_annots.R | 4 tests/testthat/test_emuR-bas_webservices.R |only tests/testthat/test_emuR-convert_BPFCollection.R | 63 - tests/testthat/test_emuR-convert_txtCollection.R |only tests/testthat/test_emuR-database.DBconfig.EMUwebAppConfig.R | 8 tests/testthat/test_emuR-database.DBconfig.R | 27 tests/testthat/test_emuR-query.database.R | 7 257 files changed, 1108 insertions(+), 1014 deletions(-)
Title: Tools for Environmental and Ecological Survey Design
Description: Statistical tools for environmental and ecological surveys.
Simulation-based power and precision analysis; detection probabilities from
different survey designs; visual fast count estimation.
Author: Jon Barry and David Maxwell
Maintainer: Jon Barry <jon.barry@cefas.co.uk>
Diff between emon versions 1.3 dated 2016-09-22 and 1.3.2 dated 2017-03-12
DESCRIPTION | 12 - MD5 | 10 - R/baci.r | 434 +++++++++++++++++++++++++--------------------------- R/twogroups.r | 4 man/emon-package.Rd | 4 man/permute.BACI.Rd | 21 +- 6 files changed, 240 insertions(+), 245 deletions(-)
Title: Tools to Analyze the Thermal Reaction Norm of Embryo Growth
Description: Tools to analyze the embryo growth and the sexualisation thermal reaction norms.
Author: Marc Girondot <marc.girondot@u-psud.fr>
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between embryogrowth versions 6.4 dated 2016-10-02 and 6.5 dated 2017-03-12
embryogrowth-6.4/embryogrowth/R/SEforR.R |only embryogrowth-6.4/embryogrowth/R/plotR_hist.R |only embryogrowth-6.4/embryogrowth/R/resultNest_4p.R |only embryogrowth-6.4/embryogrowth/R/resultNest_6p.R |only embryogrowth-6.4/embryogrowth/R/result_mcmc_4p.R |only embryogrowth-6.4/embryogrowth/R/result_mcmc_6p.R |only embryogrowth-6.4/embryogrowth/data/resultNest_4p.rda |only embryogrowth-6.4/embryogrowth/data/resultNest_6p.rda |only embryogrowth-6.4/embryogrowth/data/result_mcmc_4p.rda |only embryogrowth-6.4/embryogrowth/data/result_mcmc_6p.rda |only embryogrowth-6.4/embryogrowth/man/SEforR.Rd |only embryogrowth-6.4/embryogrowth/man/plotR_hist.Rd |only embryogrowth-6.4/embryogrowth/man/resultNest_4p.Rd |only embryogrowth-6.4/embryogrowth/man/resultNest_6p.Rd |only embryogrowth-6.4/embryogrowth/man/result_mcmc_4p.Rd |only embryogrowth-6.4/embryogrowth/man/result_mcmc_6p.Rd |only embryogrowth-6.5/embryogrowth/DESCRIPTION | 14 embryogrowth-6.5/embryogrowth/MD5 | 240 +-- embryogrowth-6.5/embryogrowth/NAMESPACE | 10 embryogrowth-6.5/embryogrowth/NEWS | 79 + embryogrowth-6.5/embryogrowth/R/ChangeSSM.R | 159 +- embryogrowth-6.5/embryogrowth/R/DatabaseNestingArea.R | 1 embryogrowth-6.5/embryogrowth/R/DatabaseTSD.R | 2 embryogrowth-6.5/embryogrowth/R/GRTRN_MHmcmc.R | 62 embryogrowth-6.5/embryogrowth/R/GenerateAnchor.R | 8 embryogrowth-6.5/embryogrowth/R/GenerateTest.R | 6 embryogrowth-6.5/embryogrowth/R/Gompertz.R | 4 embryogrowth-6.5/embryogrowth/R/MovingIncubation.R | 145 + embryogrowth-6.5/embryogrowth/R/P_TRT.R |only embryogrowth-6.5/embryogrowth/R/SSM.R | 101 + embryogrowth-6.5/embryogrowth/R/STRN.R | 31 embryogrowth-6.5/embryogrowth/R/STRN_MHmcmc.R | 11 embryogrowth-6.5/embryogrowth/R/STRN_fit.R | 5 embryogrowth-6.5/embryogrowth/R/TRN_MHmcmc_p.R | 71 embryogrowth-6.5/embryogrowth/R/TestParallel.R | 4 embryogrowth-6.5/embryogrowth/R/embryogrowth-package.R | 44 embryogrowth-6.5/embryogrowth/R/fitSSM.R | 4 embryogrowth-6.5/embryogrowth/R/fonctiontsdMCMC.R | 5 embryogrowth-6.5/embryogrowth/R/hist.Nests.R | 26 embryogrowth-6.5/embryogrowth/R/hist.NestsResult.R | 8 embryogrowth-6.5/embryogrowth/R/info.nests.R | 733 +++++++++ embryogrowth-6.5/embryogrowth/R/likelihoodR.R | 4 embryogrowth-6.5/embryogrowth/R/logLik.NestsResult.R | 6 embryogrowth-6.5/embryogrowth/R/nobs.NestsResult.R |only embryogrowth-6.5/embryogrowth/R/plot.NestsResult.R | 65 embryogrowth-6.5/embryogrowth/R/plot.tsd.R | 250 +-- embryogrowth-6.5/embryogrowth/R/plotR.R | 764 +++++----- embryogrowth-6.5/embryogrowth/R/plot_transition.R | 10 embryogrowth-6.5/embryogrowth/R/predict.tsd.R | 96 - embryogrowth-6.5/embryogrowth/R/resultNest_3p_Weibull.R |only embryogrowth-6.5/embryogrowth/R/resultNest_4p_SSM4p.R |only embryogrowth-6.5/embryogrowth/R/resultNest_4p_normal.R |only embryogrowth-6.5/embryogrowth/R/resultNest_4p_transition.R | 1 embryogrowth-6.5/embryogrowth/R/resultNest_4p_trigo.R |only embryogrowth-6.5/embryogrowth/R/resultNest_4p_weight.R | 1 embryogrowth-6.5/embryogrowth/R/resultNest_6p_SSM6p.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_3p_Weibull.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_4p_SSM4p.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_4p_epsilon.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_4p_normal.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_4p_trigo.R |only embryogrowth-6.5/embryogrowth/R/resultNest_mcmc_6p_SSM6p.R |only embryogrowth-6.5/embryogrowth/R/resultNest_newp.R | 1 embryogrowth-6.5/embryogrowth/R/result_mcmc_4p_weight.R | 9 embryogrowth-6.5/embryogrowth/R/result_mcmc_newp.R | 23 embryogrowth-6.5/embryogrowth/R/searchR.R | 168 +- embryogrowth-6.5/embryogrowth/R/stages.R | 1 embryogrowth-6.5/embryogrowth/R/switch.transition.R | 4 embryogrowth-6.5/embryogrowth/R/tempConst.R | 8 embryogrowth-6.5/embryogrowth/R/tsd.R | 168 -- embryogrowth-6.5/embryogrowth/R/tsd_MHmcmc.R | 44 embryogrowth-6.5/embryogrowth/R/web.tsd.R | 2 embryogrowth-6.5/embryogrowth/data/DatabaseNestingArea.rda |binary embryogrowth-6.5/embryogrowth/data/DatabaseTSD.rda |binary embryogrowth-6.5/embryogrowth/data/TSP.list.rda |binary embryogrowth-6.5/embryogrowth/data/datalist |only embryogrowth-6.5/embryogrowth/data/resultNest_3p_Weibull.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_4p_SSM4p.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_4p_normal.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_4p_trigo.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_6p_SSM6p.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_3p_Weibull.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_4p_SSM4p.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_4p_epsilon.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_4p_normal.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_4p_trigo.rda |only embryogrowth-6.5/embryogrowth/data/resultNest_mcmc_6p_SSM6p.rda |only embryogrowth-6.5/embryogrowth/data/stages.rda |binary embryogrowth-6.5/embryogrowth/inst/shiny/server.R | 21 embryogrowth-6.5/embryogrowth/inst/shiny/ui.R | 6 embryogrowth-6.5/embryogrowth/man/ChangeSSM.Rd | 101 - embryogrowth-6.5/embryogrowth/man/DatabaseNestingArea.Rd | 12 embryogrowth-6.5/embryogrowth/man/DatabaseTSD.Rd | 17 embryogrowth-6.5/embryogrowth/man/FormatNests.Rd | 1 embryogrowth-6.5/embryogrowth/man/GRTRN_MHmcmc.Rd | 49 embryogrowth-6.5/embryogrowth/man/GenerateAnchor.Rd | 9 embryogrowth-6.5/embryogrowth/man/GenerateConstInc.Rd | 1 embryogrowth-6.5/embryogrowth/man/GenerateTest.Rd | 7 embryogrowth-6.5/embryogrowth/man/MovingIncubation.Rd | 31 embryogrowth-6.5/embryogrowth/man/P_TRT.Rd |only embryogrowth-6.5/embryogrowth/man/STRN.Rd | 23 embryogrowth-6.5/embryogrowth/man/STRN_MHmcmc.Rd | 15 embryogrowth-6.5/embryogrowth/man/TRN_MHmcmc_p.Rd | 7 embryogrowth-6.5/embryogrowth/man/TSP.list.Rd | 15 embryogrowth-6.5/embryogrowth/man/TestParallel.Rd | 5 embryogrowth-6.5/embryogrowth/man/dydt.Gompertz.Rd | 5 embryogrowth-6.5/embryogrowth/man/dydt.exponential.Rd | 1 embryogrowth-6.5/embryogrowth/man/dydt.linear.Rd | 1 embryogrowth-6.5/embryogrowth/man/embryogrowth-package.Rd | 51 embryogrowth-6.5/embryogrowth/man/hist.Nests.Rd | 1 embryogrowth-6.5/embryogrowth/man/hist.NestsResult.Rd | 5 embryogrowth-6.5/embryogrowth/man/info.nests.Rd | 40 embryogrowth-6.5/embryogrowth/man/likelihoodR.Rd | 5 embryogrowth-6.5/embryogrowth/man/logLik.NestsResult.Rd | 7 embryogrowth-6.5/embryogrowth/man/logLik.tsd.Rd | 1 embryogrowth-6.5/embryogrowth/man/nest.Rd | 7 embryogrowth-6.5/embryogrowth/man/nobs.NestsResult.Rd |only embryogrowth-6.5/embryogrowth/man/plot.NestsResult.Rd | 38 embryogrowth-6.5/embryogrowth/man/plot.tsd.Rd | 32 embryogrowth-6.5/embryogrowth/man/plotR.Rd | 218 +- embryogrowth-6.5/embryogrowth/man/plot_transition.Rd | 7 embryogrowth-6.5/embryogrowth/man/predict.tsd.Rd | 40 embryogrowth-6.5/embryogrowth/man/resultNest_3p_Weibull.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_4p_SSM4p.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_4p_normal.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_4p_transition.Rd | 8 embryogrowth-6.5/embryogrowth/man/resultNest_4p_trigo.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_4p_weight.Rd | 8 embryogrowth-6.5/embryogrowth/man/resultNest_6p_SSM6p.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_3p_Weibull.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_4p_SSM4p.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_4p_epsilon.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_4p_normal.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_4p_trigo.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_mcmc_6p_SSM6p.Rd |only embryogrowth-6.5/embryogrowth/man/resultNest_newp.Rd | 8 embryogrowth-6.5/embryogrowth/man/result_mcmc_4p_weight.Rd | 16 embryogrowth-6.5/embryogrowth/man/result_mcmc_newp.Rd | 30 embryogrowth-6.5/embryogrowth/man/searchR.Rd | 96 - embryogrowth-6.5/embryogrowth/man/stages.Rd | 16 embryogrowth-6.5/embryogrowth/man/summary.Nests.Rd | 1 embryogrowth-6.5/embryogrowth/man/switch.transition.Rd | 5 embryogrowth-6.5/embryogrowth/man/tempConst.Rd | 15 embryogrowth-6.5/embryogrowth/man/tsd.Rd | 70 embryogrowth-6.5/embryogrowth/man/tsd_MHmcmc.Rd | 55 embryogrowth-6.5/embryogrowth/man/tsd_MHmcmc_p.Rd | 13 embryogrowth-6.5/embryogrowth/man/web.tsd.Rd | 3 embryogrowth-6.5/embryogrowth/man/weightmaxentropy.Rd | 1 148 files changed, 2895 insertions(+), 1627 deletions(-)
Title: Build Error Correction Models
Description: Functions for easy building of error correction models (ECM) for time series regression.
Author: Gaurav Bansal
Maintainer: Gaurav Bansal <gaurbans@gmail.com>
Diff between ecm versions 0.9.0 dated 2017-03-08 and 1.0.0 dated 2017-03-12
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/ecm.R | 49 +++++++++++++++++-------------------------------- R/ecmback.r | 51 ++++++++++++++++++++------------------------------- man/ecm.Rd | 2 ++ man/ecmback.Rd | 3 +++ 6 files changed, 50 insertions(+), 71 deletions(-)
Title: Regularized Estimation of Dynamic Linear Regression in the
Presence of Autocorrelated Residuals (DREGAR)
Description: A penalized/non-penalized implementation for dynamic regression in the presence of autocorrelated residuals (DREGAR) using iterative penalized/ordinary least squares. It applies Mallows CP, AIC, BIC and GCV to select the tuning parameters.
Author: Hamed Haselimashhadi (www.hamedhaseli.webs.com)
Maintainer: Hamed Haselimashhadi <hamedhaseli@gmail.com>
Diff between DREGAR versions 0.1.0.0 dated 2016-06-30 and 0.1.3.0 dated 2017-03-12
DREGAR-0.1.0.0/DREGAR/inst/CITATION |only DREGAR-0.1.3.0/DREGAR/DESCRIPTION | 8 ++++---- DREGAR-0.1.3.0/DREGAR/MD5 | 19 ++++++++++--------- DREGAR-0.1.3.0/DREGAR/NAMESPACE | 6 +++++- DREGAR-0.1.3.0/DREGAR/R/dregar2.R |only DREGAR-0.1.3.0/DREGAR/R/main.R | 2 +- DREGAR-0.1.3.0/DREGAR/R/regarma.R | 11 ++++++----- DREGAR-0.1.3.0/DREGAR/R/sim.dregar.R | 30 +++++++++++++++++++----------- DREGAR-0.1.3.0/DREGAR/man/dregar.Rd | 20 +++++++++++++------- DREGAR-0.1.3.0/DREGAR/man/dregar2.Rd |only DREGAR-0.1.3.0/DREGAR/man/generateAR.Rd | 3 ++- DREGAR-0.1.3.0/DREGAR/man/sim.dregar.Rd | 3 ++- 12 files changed, 62 insertions(+), 40 deletions(-)
Title: Tools for R Markdown to Docx Documents
Description: A set of helper functions for using R Markdown to create documents
in docx format, especially documents for use in a classroom or workshop
setting.
Author: Richard Layton
Maintainer: Richard Layton <graphdoctor@gmail.com>
Diff between docxtools versions 0.1.0 dated 2016-12-28 and 0.1.1 dated 2017-03-12
docxtools-0.1.0/docxtools/README.md |only docxtools-0.1.1/docxtools/DESCRIPTION | 16 ++++-- docxtools-0.1.1/docxtools/MD5 | 34 ++++++++++---- docxtools-0.1.1/docxtools/R/align_pander.R | 32 +++++++++---- docxtools-0.1.1/docxtools/R/docxtools.R |only docxtools-0.1.1/docxtools/R/format_engr.R | 50 ++++++++++++++------ docxtools-0.1.1/docxtools/R/put_axes.R | 62 ++++++++++++++++---------- docxtools-0.1.1/docxtools/R/put_gap.R | 18 ++++--- docxtools-0.1.1/docxtools/build |only docxtools-0.1.1/docxtools/inst |only docxtools-0.1.1/docxtools/man/align_pander.Rd | 18 +++++-- docxtools-0.1.1/docxtools/man/docxtools.Rd |only docxtools-0.1.1/docxtools/man/format_engr.Rd | 41 +++++++++++++---- docxtools-0.1.1/docxtools/man/put_axes.Rd | 17 ++++--- docxtools-0.1.1/docxtools/man/put_gap.Rd | 13 +++-- docxtools-0.1.1/docxtools/vignettes |only 16 files changed, 204 insertions(+), 97 deletions(-)
Title: Discrete Time Survival Analysis
Description: Provides data transformations, estimation utilities,
predictive evaluation measures and simulation functions for discrete time
survival analysis.
Author: Thomas Welchowski <welchow@imbie.meb.uni-bonn.de> and Matthias Schmid <matthias.schmid@imbie.uni-bonn.de>
Maintainer: Thomas Welchowski <welchow@imbie.meb.uni-bonn.de>
Diff between discSurv versions 1.1.5 dated 2017-02-13 and 1.1.6 dated 2017-03-12
DESCRIPTION | 8 +- MD5 | 24 +++---- R/DiscSurvEstimation.R | 22 +++---- R/DiscSurvEvaluation.R | 113 ++++++++++++++++++++---------------- man/brierScore.Rd | 7 +- man/concorIndex.Rd | 7 -- man/discSurv-package.Rd | 4 - man/estMargProb.Rd | 9 +- man/estSurv.Rd | 10 +-- man/fprUnoShort.Rd | 7 -- man/tprUnoShort.Rd | 7 -- tests/UnitTestsDiscSurvEstimation.R | 10 +-- tests/UnitTestsDiscSurvEvaluation.R | 16 ++++- 13 files changed, 133 insertions(+), 111 deletions(-)
Title: Coordinate-Descent Algorithm for Discrete Data
Description: Structure learning of Bayesian network using coordinate-descent
algorithm. This algorithm is designed for discrete network assuming a multinomial data set,
and we use a multi-logit model to do the regression.
The algorithm is described in Gu, Fu and Zhou (2016) <http://arxiv.org/abs/1403.2310>.
Author: Jiaying Gu [aut, cre]
Maintainer: Jiaying Gu <gujy.lola@gmail.com>
Diff between discretecdAlgorithm versions 0.0.2 dated 2016-11-23 and 0.0.3 dated 2017-03-12
DESCRIPTION | 12 MD5 | 45 ++- NAMESPACE | 5 R/CD-main.R | 54 +++- R/RcppExports.R | 10 R/data_gen.R |only R/lambda.R | 7 man/cd.run.Rd | 8 man/coef_gen.Rd |only man/data_gen.Rd |only man/generate_discrete_data.Rd |only man/max_lambda.Rd | 1 src/RcppExports.cpp | 42 ++- src/dBasic.cpp | 354 ++++++++++++--------------- src/dBasic.h | 5 src/dCD.cpp | 4 src/dCD.h | 6 src/wrap.cpp | 108 ++++++++ tests/testthat/test-CD_call.R | 56 ++++ tests/testthat/test-CD_path.R | 99 ++++--- tests/testthat/test-CD_run.R | 2 tests/testthat/test-DatGen_cpp.R |only tests/testthat/test-cd_adaptive_run.R | 23 + tests/testthat/test-coef_gen.R |only tests/testthat/test-datGen_call.R |only tests/testthat/test-data_gen.R |only tests/testthat/test-generate_discrete_data.R |only tests/testthat/test-lambda_call.R | 48 +++ 28 files changed, 589 insertions(+), 300 deletions(-)
More information about discretecdAlgorithm at CRAN
Permanent link
Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed)
Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create
readily interpretable scaled (quantile) residuals for fitted generalized linear mixed
models. Currently supported are generalized linear mixed models from 'lme4'
(classes 'lmerMod', 'glmerMod'), generalized additive models ('gam' from 'mgcv'),
'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and 'lm' model
classes. Alternatively, externally created simulations, e.g. posterior predictive simulations
from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well.
The resulting residuals are standardized to values between 0 and 1 and can be interpreted
as intuitively as residuals from a linear regression. The package also provides a number of
plot and test functions for typical model misspecification problems, such as
over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre]
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>
Diff between DHARMa versions 0.1.4 dated 2017-03-07 and 0.1.5 dated 2017-03-12
DESCRIPTION | 8 +- MD5 | 14 ++-- R/simulateResiduals.R | 7 +- inst/doc/DHARMa.R | 2 inst/doc/DHARMa.Rmd | 4 - inst/doc/DHARMa.html | 124 ++++++++++++++++++++-------------------- tests/testthat/testModelTypes.R | 4 + vignettes/DHARMa.Rmd | 4 - 8 files changed, 86 insertions(+), 81 deletions(-)
Title: A Bayesian Dose-Finding Design using Pharmacokinetics(PK) for
Phase I Clinical Trials
Description: Statistical methods involving PK measures are provided, in the dose allocation process during a Phase I clinical trials. These methods enter pharmacokinetics (PK) in the dose finding designs in different ways, including covariates models, dependent variable or hierarchical models. This package provides functions to generate data from several scenarios and functions to run simulations which their objectives are to determine the maximum tolerated dose (MTD) and to investigate the pharmacokinetics of a drug or a combination of drugs.
Author: Artemis Toumazi <artemis.toumazi@inserm.fr> , Moreno Ursino <moreno.ursino@inserm.fr> and Sarah Zohar <sarah.zohar@inserm.fr>
Maintainer: Artemis Toumazi <artemis.toumazi@inserm.fr>
Diff between dfpk versions 2.0.0 dated 2016-12-15 and 2.1.0 dated 2017-03-12
DESCRIPTION | 10 LICENSE |only MD5 | 52 ++-- R/AUC_estim.R | 16 - R/S4_classes.R | 496 +++++++++++++++++++++++----------------------- R/dfpk-internal.R | 252 +++++++++++------------ R/dtox.R | 56 ++--- R/invlogit.R | 12 - R/nsim.R | 238 +++++++++++----------- R/pk.estim.R | 24 +- R/pkcov.R | 68 +++--- R/pkcrm.R | 64 ++--- R/pklogit.R | 90 ++++---- R/pkpop.R | 82 +++---- R/pktox.R | 86 +++---- R/scenarios.R | 116 +++++----- R/stanmodels.R | 80 +++---- R/zzz.R | 10 README.md | 96 ++++---- exec/logit_cov2.stan | 62 ++--- exec/logit_reg.stan | 48 ++-- exec/logit_reg_dtox.stan | 52 ++-- exec/logit_reg_pkpop.stan | 48 ++-- exec/reg_auc2.stan | 28 +- man/dfpk-package.Rd | 66 +++--- man/show-methods.Rd | 54 ++--- src/include/models.hpp | 18 - src/init.c |only 28 files changed, 1113 insertions(+), 1111 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 0.5-1 dated 2016-09-09 and 0.6 dated 2017-03-12
DBI-0.5-1/DBI/man/DBIspec.Rd |only DBI-0.6/DBI/DESCRIPTION | 13 - DBI-0.6/DBI/MD5 | 156 ++++++++------- DBI-0.6/DBI/NAMESPACE | 1 DBI-0.6/DBI/NEWS.md | 26 ++ DBI-0.6/DBI/R/DBConnection.R | 266 ++++++++++++++++---------- DBI-0.6/DBI/R/DBDriver.R | 90 ++++---- DBI-0.6/DBI/R/DBI-package.R | 21 +- DBI-0.6/DBI/R/DBObject.R | 46 ++-- DBI-0.6/DBI/R/DBResult.R | 159 +++++++++------ DBI-0.6/DBI/R/data-types.R | 2 DBI-0.6/DBI/R/data.R | 12 - DBI-0.6/DBI/R/deprecated.R | 100 ++++----- DBI-0.6/DBI/R/interpolate.R | 57 ++--- DBI-0.6/DBI/R/quote.R | 127 +++++++++--- DBI-0.6/DBI/R/rownames.R | 12 - DBI-0.6/DBI/R/table-create.R | 19 - DBI-0.6/DBI/R/table-insert.R | 17 - DBI-0.6/DBI/R/table.R | 4 DBI-0.6/DBI/R/transactions.R | 163 ++++++++------- DBI-0.6/DBI/R/util.R | 6 DBI-0.6/DBI/build/vignette.rds |binary DBI-0.6/DBI/inst/doc/DBI-proposal.Rmd | 2 DBI-0.6/DBI/inst/doc/DBI-proposal.html | 2 DBI-0.6/DBI/inst/doc/backend.html | 4 DBI-0.6/DBI/inst/doc/spec.R |only DBI-0.6/DBI/inst/doc/spec.Rmd |only DBI-0.6/DBI/inst/doc/spec.html |only DBI-0.6/DBI/man/ANSI.Rd | 1 DBI-0.6/DBI/man/DBI-package.Rd | 76 ++++++- DBI-0.6/DBI/man/DBIConnection-class.Rd | 4 DBI-0.6/DBI/man/DBIDriver-class.Rd | 1 DBI-0.6/DBI/man/DBIObject-class.Rd | 12 - DBI-0.6/DBI/man/DBIResult-class.Rd | 14 - DBI-0.6/DBI/man/SQL.Rd | 47 ---- DBI-0.6/DBI/man/Table.Rd | 3 DBI-0.6/DBI/man/dbBind.Rd | 159 ++++++++++++--- DBI-0.6/DBI/man/dbCallProc.Rd | 9 DBI-0.6/DBI/man/dbClearResult.Rd | 30 ++ DBI-0.6/DBI/man/dbColumnInfo.Rd | 21 +- DBI-0.6/DBI/man/dbConnect.Rd | 52 +++-- DBI-0.6/DBI/man/dbDataType.Rd | 66 +++++- DBI-0.6/DBI/man/dbDisconnect.Rd | 19 + DBI-0.6/DBI/man/dbDriver.Rd | 21 +- DBI-0.6/DBI/man/dbExecute.Rd | 34 ++- DBI-0.6/DBI/man/dbExistsTable.Rd | 44 +++- DBI-0.6/DBI/man/dbFetch.Rd | 101 ++++++++- DBI-0.6/DBI/man/dbGetDBIVersion.Rd | 1 DBI-0.6/DBI/man/dbGetException.Rd | 12 - DBI-0.6/DBI/man/dbGetInfo.Rd | 31 +-- DBI-0.6/DBI/man/dbGetQuery.Rd | 62 ++++-- DBI-0.6/DBI/man/dbGetRowCount.Rd | 37 ++- DBI-0.6/DBI/man/dbGetRowsAffected.Rd | 30 +- DBI-0.6/DBI/man/dbGetStatement.Rd | 23 +- DBI-0.6/DBI/man/dbHasCompleted.Rd | 40 +++ DBI-0.6/DBI/man/dbIsValid.Rd | 36 ++- DBI-0.6/DBI/man/dbListConnections.Rd | 3 DBI-0.6/DBI/man/dbListFields.Rd | 10 DBI-0.6/DBI/man/dbListResults.Rd | 10 DBI-0.6/DBI/man/dbListTables.Rd | 36 ++- DBI-0.6/DBI/man/dbQuoteIdentifier.Rd |only DBI-0.6/DBI/man/dbQuoteString.Rd |only DBI-0.6/DBI/man/dbReadTable.Rd | 91 +++++++- DBI-0.6/DBI/man/dbRemoveTable.Rd | 39 +++ DBI-0.6/DBI/man/dbSendQuery.Rd | 61 +++-- DBI-0.6/DBI/man/dbSendStatement.Rd | 53 +++-- DBI-0.6/DBI/man/dbSetDataMappings.Rd | 3 DBI-0.6/DBI/man/dbWithTransaction.Rd | 119 +++++++---- DBI-0.6/DBI/man/dbWriteTable.Rd |only DBI-0.6/DBI/man/hidden_aliases.Rd | 57 +++-- DBI-0.6/DBI/man/make.db.names.Rd | 33 +-- DBI-0.6/DBI/man/print.list.pairs.Rd | 5 DBI-0.6/DBI/man/rownames.Rd | 17 - DBI-0.6/DBI/man/sqlAppendTable.Rd | 19 - DBI-0.6/DBI/man/sqlCreateTable.Rd | 26 +- DBI-0.6/DBI/man/sqlData.Rd | 25 +- DBI-0.6/DBI/man/sqlInterpolate.Rd | 21 +- DBI-0.6/DBI/man/sqlParseVariables.Rd | 9 DBI-0.6/DBI/man/transactions.Rd | 107 ++++++++-- DBI-0.6/DBI/tests/testthat/test-interpolate.R | 11 + DBI-0.6/DBI/tests/testthat/test-methods.R |only DBI-0.6/DBI/tests/testthat/test-quote.R |only DBI-0.6/DBI/vignettes/DBI-proposal.Rmd | 2 DBI-0.6/DBI/vignettes/spec.Rmd |only 84 files changed, 1957 insertions(+), 1091 deletions(-)
Title: Data Sets and Functions, for Demonstrations with Expression
Arrays and Gene Sequences
Description: Data sets and functions, for the display of gene expression array (microarray) data, and for demonstrations with such data.
Author: John Maindonald
Maintainer: John Maindonald <john.maindonald@anu.edu.au>
Diff between DAAGbio versions 0.63-1 dated 2016-08-18 and 0.63-3 dated 2017-03-12
DAAGbio-0.63-1/DAAGbio/vignettes/marray-notes.pdf |only DAAGbio-0.63-1/DAAGbio/vignettes/marray-notes.synctex.gz |only DAAGbio-0.63-1/DAAGbio/vignettes/marray-notes.tex |only DAAGbio-0.63-3/DAAGbio/DESCRIPTION | 15 +++++----- DAAGbio-0.63-3/DAAGbio/MD5 | 14 ++++----- DAAGbio-0.63-3/DAAGbio/build |only DAAGbio-0.63-3/DAAGbio/inst/doc/marray-notes.R |only DAAGbio-0.63-3/DAAGbio/inst/doc/marray-notes.Rnw |only DAAGbio-0.63-3/DAAGbio/inst/doc/marray-notes.pdf |binary DAAGbio-0.63-3/DAAGbio/vignettes/marray-notes-concordance.tex | 4 +- DAAGbio-0.63-3/DAAGbio/vignettes/marray-notes.Rnw | 3 +- 11 files changed, 19 insertions(+), 17 deletions(-)
More information about CrossScreening at CRAN
Permanent link
Title: Analyze Cricketers Based on ESPN Cricinfo Statsguru
Description: Tools for analyzing performances of cricketers based on stats in
ESPN Cricinfo Statsguru. The toolset can be used for analysis of Tests,ODIs
and Twenty20 matches of both batsmen and bowlers.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between cricketr versions 0.0.13 dated 2016-05-14 and 0.0.14 dated 2017-03-12
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/getPlayerData.R | 15 ++++++++++----- R/getPlayerDataOD.R | 11 ++++++++--- R/getPlayerDataTT.R | 11 ++++++++--- README.md | 10 ++++++++++ man/getPlayerData.Rd | 18 ++++++++++++++++-- man/getPlayerDataOD.Rd | 21 +++++++++++++++++++-- man/getPlayerDataTT.Rd | 20 ++++++++++++++++++-- 9 files changed, 101 insertions(+), 29 deletions(-)
Title: Consonance Analysis Module
Description: Consonance Analysis is a useful numerical and graphical approach
for evaluating the consistency of the measurements and the panel of people
involved in sensory evaluation. It makes use of several uni and multivariate
techniques either graphical or analytical. It shows the implementation of this
procedure in a graphical interface.
Author: Nery Sofia Huerta-Pacheco, Victor Manuel Aguirre-Torres, Teresa Lopez-Alvarez
Maintainer: Nery Sofia Huerta-Pacheco <nehuerta@uv.mx>
Diff between CONS versions 0.1.0 dated 2017-01-17 and 0.1.1 dated 2017-03-12
DESCRIPTION | 16 MD5 | 8 NAMESPACE | 1 R/CONS.R | 1965 +++++++++++++++++++++++++----------------------------------- man/CONS.Rd | 3 5 files changed, 849 insertions(+), 1144 deletions(-)
Title: An Implementation of Parsing and Writing Configuration File
(JSON/INI/YAML/TOML)
Description:
Implements the JSON, INI, YAML and TOML parser for R setting and writing of configuration file. The functionality of this package is similar to that of package 'config'.
Author: Jianfeng Li [aut, cre]
Maintainer: Jianfeng Li <lee_jianfeng@sjtu.edu.cn>
Diff between configr versions 0.1.0 dated 2017-02-14 and 0.2.0 dated 2017-03-12
ChangeLog | 11 +++++ DESCRIPTION | 11 +++-- MD5 | 72 +++++++++++++++++++----------------- NAMESPACE | 2 + R/configr.R | 2 - R/parse.R |only R/read.R | 14 ++++++- R/utils.R | 9 ++-- README.md | 15 ++++++- inst/extdata/config.ini | 3 + inst/extdata/config.json | 5 +- inst/extdata/config.other.yaml |only inst/extdata/config.toml | 3 + inst/extdata/config.yaml | 3 + man/config.list.merge.Rd | 1 man/configr.Rd | 7 +-- man/convert.config.Rd | 1 man/eval.config.Rd | 5 ++ man/eval.config.groups.Rd | 1 man/eval.config.merge.Rd | 1 man/get.config.type.Rd | 1 man/is.config.active.Rd | 1 man/is.configfile.active.Rd | 1 man/is.ini.file.Rd | 1 man/is.json.file.Rd | 1 man/is.toml.file.Rd | 1 man/is.yaml.file.Rd | 1 man/parse.extra.Rd |only man/read.config.Rd | 12 +++++- man/write.config.Rd | 1 tests/testthat/test_a_configtype.R | 47 +++++++++++++---------- tests/testthat/test_b_read.R | 73 +++++++++++++++++++++++++++---------- tests/testthat/test_c_merge.R | 38 +++++++++++-------- tests/testthat/test_d_write.R | 13 ++++-- tests/testthat/test_e_convert.R | 9 ++++ tests/testthat/test_g_parameter.R | 10 ++++- tests/testthat/test_h_show.error.R | 71 +++++++++++++++++++---------------- tests/testthat/test_j_active.R | 10 ++++- tests/testthat/test_k_parse.R |only 39 files changed, 287 insertions(+), 170 deletions(-)
Title: CCDr Algorithm for Learning Sparse Gaussian Bayesian Networks
Description: Implementation of the CCDr (Concave penalized Coordinate Descent with reparametrization) structure learning algorithm as described in Aragam and Zhou (2015) <http://www.jmlr.org/papers/v16/aragam15a.html>. This is a fast, score-based method for learning Bayesian networks that uses sparse regularization and block-cyclic coordinate descent.
Author: Bryon Aragam [aut, cre],
Dacheng Zhang [aut]
Maintainer: Bryon Aragam <sparsebn@gmail.com>
Diff between ccdrAlgorithm versions 0.0.2 dated 2016-11-20 and 0.0.3 dated 2017-03-12
DESCRIPTION | 14 +++++++------- MD5 | 34 +++++++++++++++++++--------------- NAMESPACE | 9 ++++++++- NEWS.md | 11 +++++++++++ R/ccdrAlgorithm-functions.R | 10 +++++++++- R/ccdrAlgorithm-main.R | 26 ++++++++++++++++---------- R/ccdrAlgorithm-messages.R |only R/ccdrAlgorithm-mvn.R |only R/s3-SparseBlockMatrixR.R | 2 +- R/s3-generics.R | 2 +- R/zzz.R | 6 ++++++ man/ccdr.run.Rd | 12 ++++-------- man/ccdrAlgorithm.Rd | 1 - man/generate_mvn_data.Rd |only src/defines.h | 2 +- src/rcpp_wrap.cpp | 7 +++++++ tests/testthat/test-ccdr_call.R | 12 ++++++++++-- tests/testthat/test-ccdr_gridR.R | 2 +- tests/testthat/test-ccdr_ivn.R | 5 +++-- tests/testthat/test-mvn.R |only 20 files changed, 104 insertions(+), 51 deletions(-)
Title: Fast Linear Models for Objects from the 'bigmemory' Package
Description: A reimplementation of the fastLm() functionality of 'RcppEigen' for
big.matrix objects for fast out-of-memory linear model fitting.
Author: Jared Huling [aut, cre],
Douglas Bates [ctb],
Dirk Eddelbuettel [ctb],
Romain Francois [ctb],
Yixuan Qiu [ctb]
Maintainer: Jared Huling <jaredhuling@gmail.com>
Diff between bigFastlm versions 0.0.1 dated 2016-10-06 and 0.0.2 dated 2017-03-12
DESCRIPTION | 21 +++++- MD5 | 16 ++--- NEWS.md |only R/fast_big_lm.R | 34 +++++++++-- README.md | 2 man/bigLm.Rd | 8 ++ man/bigLmPure.Rd | 8 ++ src/big_fast_lm.cpp | 156 ++++++++++++++++++++++++++++++++++++++++++--------- src/big_fast_lm.h | 18 ++--- src/bigfastlm_init.c |only 10 files changed, 208 insertions(+), 55 deletions(-)
Title: Miscellaneous Helper Functions for B. Bischl
Description: Miscellaneous helper functions for and from B. Bischl and
some other guys, mainly for package development.
Author: Bernd Bischl [aut, cre],
Michel Lang [aut],
Jakob Bossek [aut],
Daniel Horn [aut],
Jakob Richter [aut],
Dirk Surmann [aut]
Maintainer: Bernd Bischl <bernd_bischl@gmx.net>
Diff between BBmisc versions 1.10 dated 2016-07-12 and 1.11 dated 2017-03-12
DESCRIPTION | 14 - LICENSE | 5 MD5 | 228 ++++++++++----------- NAMESPACE | 2 NEWS | 15 + R/addClasses.R | 5 R/checkArg.R | 22 -- R/coalesce.R | 20 + R/convertListOfRowsToDataFrame.R | 12 - R/convertToShortString.R | 34 +-- R/ensureVector.R | 22 +- R/getMaxIndex.R | 20 + R/matchDataFrameSubset.R | 4 R/namedList.R | 7 R/printHead.R |only man/addClasses.Rd | 6 man/argsAsNamedList.Rd | 1 man/asMatrixCols.Rd | 1 man/asQuoted.Rd | 1 man/binPack.Rd | 1 man/btwn.Rd | 1 man/cFactor.Rd | 1 man/capitalizeStrings.Rd | 1 man/catf.Rd | 1 man/checkArg.Rd | 21 - man/checkListElementClass.Rd | 1 man/chunk.Rd | 1 man/clipString.Rd | 1 man/coalesce.Rd | 8 man/collapse.Rd | 1 man/collapsef.Rd | 1 man/computeMode.Rd | 1 man/convertDataFrameCols.Rd | 1 man/convertInteger.Rd | 1 man/convertIntegers.Rd | 1 man/convertListOfRowsToDataFrame.Rd | 12 - man/convertMatrixType.Rd | 1 man/convertRowsToList.Rd | 3 man/convertToShortString.Rd | 4 man/dapply.Rd | 1 man/deprecated.Rd | 3 man/do.call2.Rd | 1 man/dropNamed.Rd | 1 man/ensureVector.Rd | 18 + man/explode.Rd | 1 man/extractSubList.Rd | 1 man/filterNull.Rd | 1 man/getAttributeNames.Rd | 1 man/getClass1.Rd | 1 man/getFirst.Rd | 1 man/getMaxIndex.Rd | 17 + man/getMaxIndexOfRows.Rd | 5 man/getOperatingSystem.Rd | 7 man/getRelativePath.Rd | 1 man/getUnixTime.Rd | 1 man/getUsedFactorLevels.Rd | 1 man/hasAttributes.Rd | 1 man/insert.Rd | 1 man/is.error.Rd | 1 man/isDirectory.Rd | 1 man/isEmptyDirectory.Rd | 1 man/isExpensiveExampleOk.Rd | 1 man/isFALSE.Rd | 1 man/isProperlyNamed.Rd | 1 man/isScalarNA.Rd | 1 man/isScalarValue.Rd | 11 - man/isSubset.Rd | 1 man/isSuperset.Rd | 1 man/isValidName.Rd | 1 man/itostr.Rd | 1 man/lib.Rd | 1 man/load2.Rd | 1 man/lsort.Rd | 1 man/makeDataFrame.Rd | 1 man/makeFileCache.Rd | 1 man/makeProgressBar.Rd | 3 man/makeS3Obj.Rd | 1 man/makeSimpleFileLogger.Rd | 3 man/mapValues.Rd | 1 man/messagef.Rd | 1 man/namedList.Rd | 3 man/names2.Rd | 1 man/nin.Rd | 1 man/normalize.Rd | 1 man/optimizeSubInts.Rd | 1 man/pause.Rd | 1 man/printHead.Rd |only man/printStrToChar.Rd | 1 man/printToChar.Rd | 1 man/rangeVal.Rd | 1 man/requirePackages.Rd | 1 man/rowLapply.Rd | 1 man/save2.Rd | 1 man/seq_row.Rd | 3 man/setAttribute.Rd | 1 man/setClasses.Rd | 1 man/setRowNames.Rd | 3 man/setValue.Rd | 1 man/sortByCol.Rd | 1 man/splitPath.Rd | 1 man/splitTime.Rd | 1 man/stopf.Rd | 1 man/strrepeat.Rd | 1 man/suppressAll.Rd | 1 man/symdiff.Rd | 1 man/system3.Rd | 1 man/toRangeStr.Rd | 1 man/vlapply.Rd | 5 man/warningf.Rd | 1 man/which.first.Rd | 1 src/init.c |only tests/testthat/test_convertListOfRowsToDataFrame.R | 24 ++ tests/testthat/test_convertToShortString.R | 5 tests/testthat/test_ensureVector.R | 6 tests/testthat/test_getMaxIndex.R | 48 ++-- tests/testthat/test_namedList.R | 2 tests/testthat/test_printHead.R |only 117 files changed, 354 insertions(+), 352 deletions(-)
Title: Bayesian Network Feature Finder
Description: Provides a full package of posterior inference, model comparison, and graphical illustration of model fitting. A parallel computing algorithm for the Markov chain Monte Carlo (MCMC) based posterior inference and an Expectation-Maximization (EM) based algorithm for posterior approximation are are developed, both of which greatly reduce the computational time for model inference.
Author: Zhuxuan Jin, Zhou Lan, Yize Zhao, Jian Kang, Tianwei Yu
Maintainer: Tianwei Yu <tianwei.yu@emory.edu>
Diff between BANFF versions 1.1 dated 2016-07-12 and 2.0 dated 2017-03-12
BANFF-1.1/BANFF/man/Grid.Adjmatrix.Transfer.Rd |only BANFF-1.1/BANFF/man/HyperPara.Select.Rd |only BANFF-1.1/BANFF/man/LikelihoodHistory.Rd |only BANFF-1.1/BANFF/man/Plot.Subnetwork.Rd |only BANFF-1.1/BANFF/man/Subnetwork.Select.Rd |only BANFF-1.1/BANFF/man/SummaryAccuracy.Rd |only BANFF-1.1/BANFF/man/plot.Networks.Fast.Rd |only BANFF-1.1/BANFF/man/plot.Networks.STD.Rd |only BANFF-1.1/BANFF/man/summary.Networks.Fast.Rd |only BANFF-1.1/BANFF/man/summary.Networks.STD.Rd |only BANFF-2.0/BANFF/DESCRIPTION | 18 - BANFF-2.0/BANFF/MD5 | 103 +++++---- BANFF-2.0/BANFF/NAMESPACE | 58 ++--- BANFF-2.0/BANFF/R/DPM.HODC.R | 29 +- BANFF-2.0/BANFF/R/DPdensitycluster.R | 10 BANFF-2.0/BANFF/R/EM.HODC.R | 15 - BANFF-2.0/BANFF/R/Gibbsfortheta.R | 8 BANFF-2.0/BANFF/R/Grid.Adjmatrix.Transfer.R | 2 BANFF-2.0/BANFF/R/HODCMclust.R | 6 BANFF-2.0/BANFF/R/HyperPara.Select.R | 4 BANFF-2.0/BANFF/R/Initial_mu_var.R | 4 BANFF-2.0/BANFF/R/Inte_Distance.R | 2 BANFF-2.0/BANFF/R/Iteration3_DPdensity.R | 6 BANFF-2.0/BANFF/R/Iteration3_DPdensity_Par.R | 12 - BANFF-2.0/BANFF/R/Iteration3_Mclust.R | 6 BANFF-2.0/BANFF/R/Kmeans.R | 2 BANFF-2.0/BANFF/R/LikelihoodHistory.R | 14 - BANFF-2.0/BANFF/R/Mixture.R | 2 BANFF-2.0/BANFF/R/Networks.Fast.R | 68 +++--- BANFF-2.0/BANFF/R/Networks.STD.R | 30 +- BANFF-2.0/BANFF/R/Pi_rho_selecting.R | 4 BANFF-2.0/BANFF/R/Plot.Subnetwork.R | 4 BANFF-2.0/BANFF/R/Step_2_Update_mu_var.R | 8 BANFF-2.0/BANFF/R/Subnetwork.Select.R | 4 BANFF-2.0/BANFF/R/SummaryAccuracy.R | 14 - BANFF-2.0/BANFF/R/Transfer.R | 2 BANFF-2.0/BANFF/R/bayeslabel.R |only BANFF-2.0/BANFF/R/biGaussian.R | 2 BANFF-2.0/BANFF/R/class.label.R |only BANFF-2.0/BANFF/R/finalZ.R |only BANFF-2.0/BANFF/R/missloc.R |only BANFF-2.0/BANFF/R/net.R |only BANFF-2.0/BANFF/R/simDataGenerator.R |only BANFF-2.0/BANFF/R/test.stat.R |only BANFF-2.0/BANFF/data |only BANFF-2.0/BANFF/man/BANFF2.Rd |only BANFF-2.0/BANFF/man/DPM.HODC.Rd | 135 +++++------- BANFF-2.0/BANFF/man/DPdensCluster.Rd |only BANFF-2.0/BANFF/man/DPdensitySubset.Rd |only BANFF-2.0/BANFF/man/DensityDPOne.Rd |only BANFF-2.0/BANFF/man/EM.HODC.Rd | 79 +++---- BANFF-2.0/BANFF/man/GCut.z.Rd |only BANFF-2.0/BANFF/man/Networks.Fast.Rd | 272 ++++++++++++------------- BANFF-2.0/BANFF/man/Networks.STD.Rd | 193 ++++++++--------- BANFF-2.0/BANFF/man/SWCut.Rd |only BANFF-2.0/BANFF/man/SimulatedDataGenerator.Rd |only BANFF-2.0/BANFF/man/SummaryClassLabel.Rd |only BANFF-2.0/BANFF/man/TransZ.Rd |only BANFF-2.0/BANFF/man/biGaussianNull.Rd |only BANFF-2.0/BANFF/man/class.label.Rd |only BANFF-2.0/BANFF/man/hyperParaDMH.Rd |only BANFF-2.0/BANFF/man/llikDMH.Rd |only BANFF-2.0/BANFF/man/logdensMixNorm.Rd |only BANFF-2.0/BANFF/man/missloc.Rd |only BANFF-2.0/BANFF/man/myKLdivergenece.Rd |only BANFF-2.0/BANFF/man/net.Rd |only BANFF-2.0/BANFF/man/r.BayesImpute.Rd |only BANFF-2.0/BANFF/man/r.knnImpute.Rd |only BANFF-2.0/BANFF/man/test.stat.Rd |only BANFF-2.0/BANFF/man/z.update.Mclustprior.Rd |only BANFF-2.0/BANFF/man/z.update.fastSW.Rd |only 71 files changed, 572 insertions(+), 544 deletions(-)
Title: Aster Models
Description: Aster models are exponential family regression models for life
history analysis. They are like generalized linear models except that
elements of the response vector can have different families (e. g.,
some Bernoulli, some Poisson, some zero-truncated Poisson, some normal)
and can be dependent, the dependence indicated by a graphical structure.
Discrete time survival analysis, zero-inflated Poisson regression, and
generalized linear models that are exponential family (e. g., logistic
regression and Poisson regression with log link) are special cases.
Main use is for data in which there is survival over discrete time periods
and there is additional data about what happens conditional on survival
(e. g., number of offspring). Uses the exponential family canonical
parameterization (aster transform of usual parameterization).
Author: Charles J. Geyer <charlie@stat.umn.edu>.
Maintainer: Charles J. Geyer <charlie@stat.umn.edu>
Diff between aster versions 0.8-31 dated 2015-07-17 and 0.9 dated 2017-03-12
CHANGES | 7 + DESCRIPTION | 11 +- LICENSE | 2 MD5 | 146 ++++++++++++++++++++++------------ NAMESPACE | 2 R/aster.R | 25 ++--- R/famfun.R | 5 - R/families.R | 18 ++-- R/mlogl.R | 30 ++----- R/predict.aster.R | 107 ++++++++++--------------- R/raster.R | 5 - R/rktnb.R | 4 R/rktp.R | 4 R/transform.R | 23 ++--- build/vignette.rds |binary data/aphid.rda |binary data/chamae.rda |binary data/chamae2.rda |binary data/chamae3.rda |binary data/echin2.rda |binary data/oats.rda |binary data/radish.rda |binary data/sim.rda |binary inst/doc/design.pdf |binary inst/doc/ktp.pdf |binary inst/doc/linkingTo.Rnw |only inst/doc/linkingTo.pdf |only inst/doc/re.Rnw | 23 ++--- inst/doc/re.pdf |binary inst/doc/trunc.pdf |binary inst/doc/tutor.pdf |binary inst/include |only src/Makevars | 3 src/astchk.c | 3 src/init.c | 175 +++++++++++------------------------------ src/mlogl.c |only src/mlogl.h |only tests/aster.R | 23 +++-- tests/aster.Rout.save |only tests/aster.rda |only tests/cache.Rout.save |only tests/chk.R | 10 +- tests/chk.Rout.save |only tests/famber.Rout.save |only tests/famnegbin.Rout.save |only tests/famnorloc.Rout.save |only tests/famnzp.Rout.save |only tests/fampoi.Rout.save |only tests/famtnb.Rout.save |only tests/foobar.Rout.save |only tests/formula.R | 17 +++ tests/formula.Rout.save |only tests/formula.rda |only tests/gradmat.R | 42 ++++++--- tests/gradmat.Rout.save |only tests/gradmat.rda |only tests/ktnb.R | 48 ++++++----- tests/ktnb.Rout.save |only tests/ktnb.rda |only tests/ktp.R | 75 ++++++++++------- tests/ktp.Rout.save |only tests/ktp.rda |only tests/matops.R | 8 - tests/matops.Rout.save |only tests/mlogl-c-export.R |only tests/mlogl-c-export.Rout.save |only tests/mlogl-cond.R | 49 +++-------- tests/mlogl-cond.Rout.save |only tests/mlogl-unco.R | 59 ++++--------- tests/mlogl-unco.Rout.save |only tests/newfam.Rout.save |only tests/newpickle.Rout.save |only tests/nzp.R | 28 +++--- tests/nzp.Rout.save |only tests/nzp.rda |only tests/penmlogl.R | 1 tests/penmlogl.Rout.save |only tests/pickle.R | 21 +++- tests/pickle.Rout.save |only tests/pickle.rda |only tests/predict.R | 53 +++++++----- tests/predict.Rout.save |only tests/predict.rda |only tests/quickle.R | 14 ++- tests/quickle.Rout.save |only tests/quickle.rda |only tests/raster.Rout.save |only tests/reaster-warn.Rout.save |only tests/reaster.R | 30 +++++-- tests/reaster.Rout.save |only tests/reaster.rda |only tests/reaster1.R | 17 +++ tests/reaster1.Rout.save |only tests/reaster1.rda |only tests/trans.R | 18 ++-- tests/trans.Rout.save |only vignettes/linkingTo.Rnw |only vignettes/re.Rnw | 23 ++--- 98 files changed, 579 insertions(+), 550 deletions(-)
Title: An Arsenal of 'R' Functions for Large-Scale Statistical
Summaries
Description: An Arsenal of 'R' functions for large-scale statistical summaries,
which are streamlined to work within the latest reporting tools in 'R' and
'RStudio' and which use formulas and versatile summary statistics for summary
tables and models. The primary functions include tableby(), a Table-1-like
summary of multiple variable types 'by' the levels of a categorical
variable; modelsum(), which performs simple model fits on the same endpoint
for many variables (univariate or adjusted for standard covariates);
freqlist(), a powerful frequency table across many categorical variables; and
write2(), a function to output tables to a document.
Author: Ethan Heinzen [aut, cre],
Jason Sinnwell [aut],
Elizabeth Atkinson [aut],
Tina Gunderson [aut],
Gregory Dougherty [aut],
Patrick Votruba [ctb],
Ryan Lennon [ctb],
Krista Goergen [ctb],
Emily Lundt [ctb]
Maintainer: Ethan Heinzen <heinzen.ethan@mayo.edu>
Diff between arsenal versions 0.2.0 dated 2017-01-31 and 0.3.0 dated 2017-03-12
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-11-18 0.2.1
2015-11-13 0.2
2014-09-28 0.1