Title: Write Formatted Tables in Excel Workbooks
Description: Some functions are included in this package for writing tables in Excel format suitable for distribution.
Author: Jesus Maria Rodriguez Rodriguez
Maintainer: Jesus Maria Rodriguez Rodriguez <jesusmro@ono.com>
Diff between tablaxlsx versions 1.0.5 dated 2016-02-15 and 1.0.6 dated 2016-02-23
DESCRIPTION | 6 +++--- MD5 | 10 ++++++---- NAMESPACE | 2 +- R/escribirTabla.R | 3 ++- R/tablaxlsx.estilos.set.r |only man/escribirTabla.Rd | 6 +++--- man/tablaxlsx.estilos.set.Rd |only 7 files changed, 15 insertions(+), 12 deletions(-)
Title: Simultaneous Model-Based Clustering and Imputation via a
Progressive Expectation-Maximization Algorithm
Description: Contains the function CUUimpute() which performs model-based clustering and imputation simultaneously.
Author: Brian C. Franczak, Ryan P. Browne and Paul D. McNicholas
Maintainer: Brian C. Franczak <bfrancza@math.mcmaster.ca>
Diff between sensory versions 1.0 dated 2014-08-21 and 1.1 dated 2016-02-23
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- NAMESPACE | 2 ++ R/sensory.R | 19 +++++++++++++++---- man/CUUimpute.Rd | 4 ++-- man/sensory.Rd | 2 +- 6 files changed, 31 insertions(+), 18 deletions(-)
Title: Respondent-Driven Sampling
Description: Provides functionality for carrying out estimation
with data collected using Respondent-Driven Sampling. This includes
Heckathorn's RDS-I and RDS-II estimators as well as Gile's Sequential
Sampling estimator. The package is part of the "RDS Analyst" suite of
packages for the analysis of respondent-driven sampling data.
Author: Mark S. Handcock [aut, cre],
Krista J. Gile [aut],
Ian E. Fellows [aut],
W. Whipple Neely [aut]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between RDS versions 0.7-4 dated 2015-12-29 and 0.7-5 dated 2016-02-23
DESCRIPTION | 8 MD5 | 128 +++++------ NAMESPACE | 2 R/LRT.trend.R | 316 ++++++++++++++++++---------- man/LRT.trend.test.Rd | 38 ++- man/LRT.value.trend.Rd | 19 + man/RDS.I.estimates.Rd | 5 man/RDS.II.estimates.Rd | 4 man/RDS.Rd | 2 man/RDS.SS.estimates.Rd | 4 man/RDS.bootstrap.intervals.Rd | 20 - man/RDS.compare.proportions.Rd | 16 - man/RDS.compare.two.proportions.Rd | 2 man/as.char.Rd | 2 man/as.rds.data.frame.Rd | 17 - man/assert.valid.rds.data.frame.Rd | 2 man/bottleneck.plot.Rd | 2 man/compute.weights.Rd | 2 man/control.rds.estimates.Rd | 22 - man/convergence.plot.Rd | 2 man/count.transitions.Rd | 2 man/cumulative.estimate.Rd | 2 man/differential.activity.estimates.Rd | 2 man/extract-methods.Rd | 2 man/faux.Rd | 2 man/fauxmadrona.Rd | 2 man/fauxsycamore.Rd | 2 man/get.h.hat.Rd | 2 man/get.id.Rd | 2 man/get.net.size.Rd | 2 man/get.number.of.recruits.Rd | 2 man/get.population.size.Rd | 2 man/get.rid.Rd | 2 man/get.seed.id.Rd | 2 man/get.seed.rid.Rd | 2 man/get.stationary.distribution.Rd | 2 man/get.wave.Rd | 6 man/gile.ss.weights.Rd | 2 man/homophily.estimates.Rd | 6 man/impute.visibility.Rd | 32 +- man/indexing-methods.Rd | 2 man/is.rds.data.frame.Rd | 2 man/is.rds.interval.estimate.Rd | 2 man/is.rds.interval.estimate.list.Rd | 2 man/plot.rds.data.frame.Rd | 2 man/print.differential.activity.estimate.Rd | 2 man/print.pvalue.table.Rd | 2 man/print.rds.data.frame.Rd | 2 man/print.rds.interval.estimate.Rd | 2 man/print.summary.svyglm.RDS.Rd | 10 man/rds.I.weights.Rd | 2 man/rds.interval.estimate.Rd | 6 man/read.rdsat.Rd | 2 man/read.rdsobj.Rd | 2 man/reingold.tilford.plot.Rd | 8 man/rid.from.coupons.Rd | 2 man/set.control.class.Rd | 2 man/show.rds.data.frame.Rd | 2 man/summary.svyglm.RDS.Rd | 10 man/transition.counts.to.Markov.mle.Rd | 2 man/vh.weights.Rd | 2 man/write.graphviz.Rd | 2 man/write.netdraw.Rd | 2 man/write.rdsat.Rd | 2 man/write.rdsobj.Rd | 2 65 files changed, 455 insertions(+), 312 deletions(-)
Title: 'Rcpp' Integration for the 'Eigen' Templated Linear Algebra
Library
Description: R and 'Eigen' integration using 'Rcpp'.
'Eigen' is a C++ template library for linear algebra: matrices,
vectors, numerical solvers and related algorithms. It supports dense
and sparse matrices on integer, floating point and complex numbers,
decompositions of such matrices, and solutions of linear systems. Its
performance on many algorithms is comparable with some of the best
implementations based on 'Lapack' and level-3 'BLAS'.
The 'RcppEigen' package includes the header files from the 'Eigen' C++
template library (currently version 3.2.8). Thus users do not need to
install 'Eigen' itself in order to use 'RcppEigen'.
Since version 3.1.1, 'Eigen' is licensed under the Mozilla Public License
(version 2); earlier version were licensed under the GNU LGPL version 3 or
later. 'RcppEigen' (the 'Rcpp' bindings/bridge to 'Eigen') is licensed under
the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Douglas Bates, Dirk Eddelbuettel, Romain Francois, and Yixuan Qiu;
the authors of Eigen for the included version of Eigen
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppEigen versions 0.3.2.7.0 dated 2016-01-20 and 0.3.2.8.0 dated 2016-02-23
ChangeLog | 18 DESCRIPTION | 12 MD5 | 80 +- README.md | 2 inst/NEWS.Rd | 6 inst/doc/RcppEigen-Introduction.pdf |binary inst/include/Eigen/CholmodSupport | 2 inst/include/Eigen/SPQRSupport | 2 inst/include/Eigen/UmfPackSupport | 2 inst/include/Eigen/src/Core/CwiseUnaryView.h | 2 inst/include/Eigen/src/Core/GeneralProduct.h | 11 inst/include/Eigen/src/Core/MapBase.h | 4 inst/include/Eigen/src/Core/MathFunctions.h | 6 inst/include/Eigen/src/Core/SolveTriangular.h | 8 inst/include/Eigen/src/Core/Visitor.h | 7 inst/include/Eigen/src/Core/arch/SSE/PacketMath.h | 44 - inst/include/Eigen/src/Core/products/GeneralMatrixMatrix.h | 8 inst/include/Eigen/src/Core/products/TriangularSolverMatrix.h | 4 inst/include/Eigen/src/Core/util/Macros.h | 287 +++++++++- inst/include/Eigen/src/Core/util/Memory.h | 10 inst/include/Eigen/src/Core/util/StaticAssert.h | 2 inst/include/Eigen/src/Eigenvalues/ComplexSchur_MKL.h | 1 inst/include/Eigen/src/Eigenvalues/RealSchur_MKL.h | 4 inst/include/Eigen/src/Geometry/AngleAxis.h | 7 inst/include/Eigen/src/Geometry/ParametrizedLine.h | 2 inst/include/Eigen/src/Geometry/Transform.h | 49 + inst/include/Eigen/src/Geometry/Translation.h | 2 inst/include/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h | 2 inst/include/Eigen/src/LU/FullPivLU.h | 2 inst/include/Eigen/src/OrderingMethods/Amd.h | 2 inst/include/Eigen/src/OrderingMethods/Eigen_Colamd.h | 31 - inst/include/Eigen/src/QR/ColPivHouseholderQR_MKL.h | 1 inst/include/Eigen/src/SVD/JacobiSVD.h | 2 inst/include/Eigen/src/SVD/JacobiSVD_MKL.h | 4 inst/include/Eigen/src/SparseCore/CompressedStorage.h | 6 inst/include/Eigen/src/SparseCore/SparseBlock.h | 6 inst/include/Eigen/src/SparseCore/SparseCwiseBinaryOp.h | 5 inst/include/Eigen/src/SparseCore/SparseView.h | 6 inst/include/Eigen/src/StlSupport/StdDeque.h | 18 inst/include/Eigen/src/StlSupport/StdList.h | 18 inst/include/unsupported/Eigen/AlignedVector3 | 2 41 files changed, 481 insertions(+), 206 deletions(-)
Title: Estimating Regional Trends of a Prevalence from a DHS
Description: Spatial estimation of a prevalence surface
or a relative risks surface, using data from a Demographic and Health
Survey (DHS) or an analog survey.
Author: Joseph Larmarange - IRD CEPED
Maintainer: Joseph Larmarange <joseph.larmarange@ird.fr>
Diff between prevR versions 3.1 dated 2015-05-19 and 3.3 dated 2016-02-23
DESCRIPTION | 14 - MD5 | 110 +++++++------- NAMESPACE | 30 +++ R/NA.outside.SpatialPolygons.prevR.r | 32 ++-- R/Noptim.r | 44 ++--- R/as.SpatialGrid.prevR.r | 54 +++--- R/as.data.frame.prevR.r | 10 - R/as.prevR.r | 52 +++--- R/changeproj.prevR.r | 2 R/colors.prevR.r | 2 R/create.boundary.prevR.r | 71 ++++----- R/export.prevR.r | 130 ++++++++-------- R/import.dhs.prevR.r | 52 +++--- R/is.prevR.r | 20 +- R/kde.prevR.r | 198 ++++++++++++------------- R/krige.prevR.r | 175 ++++++++++------------ R/plot.prevR.r | 10 - R/point.in.SpatialPolygons.prevR.r | 30 +-- R/prevR-package.r | 271 +++++++++++++++++------------------ R/print.prevR.r | 4 R/quick.prevR.r | 80 +++++----- R/rings.prevR.r | 64 ++++---- R/setClass.prevR.r | 120 +++++++-------- R/show.prevR.r | 4 R/summary.prevR.r | 10 - R/theme_prevR.r | 30 +-- R/xyz2dataframe.prevR.r | 64 ++++---- data/TMWorldBorders.rda |binary data/fdhs.rda |binary man/NA.outside.SpatialPolygons.Rd | 10 - man/Noptim.Rd | 17 +- man/TMWorldBorders.Rd | 34 ++-- man/as.SpatialGrid.Rd | 25 +-- man/as.data.frame.prevR.Rd | 19 +- man/as.prevR.Rd | 50 +++--- man/changeproj-prevR-method.Rd | 13 - man/create.boundary.Rd | 31 ++-- man/direct.label_prevR.Rd | 2 man/export-prevR-method.Rd | 101 ++++++------- man/fdhs.Rd | 26 +-- man/import.dhs.Rd | 27 +-- man/is.prevR.Rd | 37 ++-- man/kde-prevR-method.Rd | 145 +++++++++--------- man/krige-ANY-prevR-method.Rd | 124 +++++++--------- man/plot-prevR-missing-method.Rd | 13 - man/point.in.SpatialPolygons.Rd | 6 man/prevR-class.Rd | 88 +++++------ man/prevR-package.Rd | 228 ++++++++++++++--------------- man/prevR.colors.Rd | 21 +- man/print-prevR-method.Rd | 9 - man/quick.prevR.Rd | 35 ++-- man/rings-prevR-method.Rd | 70 ++++----- man/show-prevR-method.Rd | 9 - man/summary-prevR-method.Rd | 15 + man/theme_prevR.Rd | 2 man/xyz2dataframe.Rd | 39 ++--- 56 files changed, 1451 insertions(+), 1428 deletions(-)
Title: Dirichlet Process Bayesian Clustering, Profile Regression
Description: Bayesian clustering using a Dirichlet process mixture model. This model is an alternative to regression models, non-parametrically linking a response vector to covariate data through cluster membership. The package allows Bernoulli, Binomial, Poisson, Normal, survival and categorical response, as well as Normal and discrete covariates. It also allows for fixed effects in the response model, where a spatial CAR (conditional autoregressive) term can be also included. Additionally, predictions may be made for the response, and missing values for the covariates are handled. Several samplers and label switching moves are implemented along with diagnostic tools to assess convergence. A number of R functions for post-processing of the output are also provided. In addition to fitting mixtures, it may additionally be of interest to determine which covariates actively drive the mixture components. This is implemented in the package as variable selection.
Author: David I. Hastie <david.hastie@rsimony.com>, Silvia Liverani <liveranis@gmail.com> and Sylvia Richardson <sylvia.richardson@mrc-bsu.cam.ac.uk> with contributions from Aurore J. Lavigne, Lucy Leigh, Lamiae Azizi
Maintainer: Silvia Liverani <liveranis@gmail.com>
Diff between PReMiuM versions 3.1.2 dated 2015-08-26 and 3.1.3 dated 2016-02-23
ChangeLog | 7 +++++++ DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NAMESPACE | 2 +- R/postProcess.R | 6 +++--- man/PReMiuM-package.Rd | 6 +++--- src/include/Math/ars2.h | 16 ++++++++++------ src/include/PReMiuMArs.cpp | 14 +++++++------- src/include/PReMiuMArs.h | 35 +++++++++-------------------------- src/include/PReMiuMModel.h | 3 ++- src/include/PReMiuMProposals.h | 5 ++--- 11 files changed, 58 insertions(+), 64 deletions(-)
Title: Maxwell Boltzmann Bose Einstein Fermi Dirac Distribution and
Destruction Rate Modelling
Description: Distributions that are typically used for exposure rating in
general insurance, in particular to price reinsurance contracts.
The vignettes show code snippets to fit the distribution to
empirical data.
Author: Giorgio Spedicato [aut, cre],
Christophe Dutang [aut],
Markus Gesmann [ctb]
Maintainer: Giorgio Spedicato <spedicato_giorgio@yahoo.it>
Diff between mbbefd versions 0.7 dated 2015-05-05 and 0.8-0 dated 2016-02-23
mbbefd-0.7/mbbefd/R/1infl-beta.R |only mbbefd-0.7/mbbefd/R/1infl-distr.R |only mbbefd-0.7/mbbefd/R/1infl-shftrncPareto.R |only mbbefd-0.7/mbbefd/R/1infl-unif.R |only mbbefd-0.7/mbbefd/R/distributionDefinition.R |only mbbefd-0.7/mbbefd/R/empiricalfunctions.R |only mbbefd-0.7/mbbefd/R/gendilogintegral.R |only mbbefd-0.7/mbbefd/R/internal-test-mean.R |only mbbefd-0.7/mbbefd/R/mbbefdR-1stparam.R |only mbbefd-0.7/mbbefd/R/mbbefdR-2ndparam.R |only mbbefd-0.7/mbbefd/R/shftrncPareto.R |only mbbefd-0.7/mbbefd/R/theo-ecf.R |only mbbefd-0.7/mbbefd/inst/doc/Introduction_to_Exposure_Rating.R |only mbbefd-0.7/mbbefd/inst/doc/Introduction_to_Exposure_Rating.Rmd |only mbbefd-0.7/mbbefd/inst/doc/Introduction_to_Exposure_Rating.pdf |only mbbefd-0.7/mbbefd/inst/doc/mbbefd.R |only mbbefd-0.7/mbbefd/inst/doc/mbbefd.Rnw |only mbbefd-0.7/mbbefd/inst/doc/mbbefd.pdf |only mbbefd-0.7/mbbefd/man/oneinfl-Distribution.Rd |only mbbefd-0.7/mbbefd/man/oneinfl-beta-Distribution.Rd |only mbbefd-0.7/mbbefd/man/oneinfl-stpareto-Distribution.Rd |only mbbefd-0.7/mbbefd/man/oneinfl-unif-Distribution.Rd |only mbbefd-0.7/mbbefd/man/sfttrncParetoDistribution.Rd |only mbbefd-0.7/mbbefd/tests/checkformula.R |only mbbefd-0.7/mbbefd/vignettes/Introduction_to_Exposure_Rating.Rmd |only mbbefd-0.7/mbbefd/vignettes/mbbefd.Rnw |only mbbefd-0.8-0/mbbefd/ChangeLog | 7 mbbefd-0.8-0/mbbefd/DESCRIPTION | 15 mbbefd-0.8-0/mbbefd/MD5 | 144 +-- mbbefd-0.8-0/mbbefd/NAMESPACE | 109 +- mbbefd-0.8-0/mbbefd/NEWS | 24 mbbefd-0.8-0/mbbefd/R/RcppExports.R | 103 +- mbbefd-0.8-0/mbbefd/R/data-documentData-old.R |only mbbefd-0.8-0/mbbefd/R/data-swissrecurves.R |only mbbefd-0.8-0/mbbefd/R/distr-1infl-beta.R |only mbbefd-0.8-0/mbbefd/R/distr-1infl-distrib.R |only mbbefd-0.8-0/mbbefd/R/distr-1infl-genbeta.R |only mbbefd-0.8-0/mbbefd/R/distr-1infl-shftrncPareto.R |only mbbefd-0.8-0/mbbefd/R/distr-1infl-unif.R |only mbbefd-0.8-0/mbbefd/R/distr-GB1.R |only mbbefd-0.8-0/mbbefd/R/distr-mbbefdCpp.R |only mbbefd-0.8-0/mbbefd/R/distr-mbbefdR-1stparam.R |only mbbefd-0.8-0/mbbefd/R/distr-mbbefdR-2ndparam.R |only mbbefd-0.8-0/mbbefd/R/distr-mbbefdR-fromCppfile-old.R |only mbbefd-0.8-0/mbbefd/R/distr-shftrncPareto.R |only mbbefd-0.8-0/mbbefd/R/distr-theo-ecf.R |only mbbefd-0.8-0/mbbefd/R/fitDR-bootstrap.R |only mbbefd-0.8-0/mbbefd/R/fitDR-output.R |only mbbefd-0.8-0/mbbefd/R/fitDR-prefit.R |only mbbefd-0.8-0/mbbefd/R/fitDR.R |only mbbefd-0.8-0/mbbefd/R/graph-eccomp.R |only mbbefd-0.8-0/mbbefd/R/graph-func-old.R |only mbbefd-0.8-0/mbbefd/R/util-CInftransform.R |only mbbefd-0.8-0/mbbefd/R/util-constr-mbbefd.R |only mbbefd-0.8-0/mbbefd/R/util-empiricalfunctions.R |only mbbefd-0.8-0/mbbefd/R/util-gendilogintegral.R |only mbbefd-0.8-0/mbbefd/R/util-internal-test-mean.R |only mbbefd-0.8-0/mbbefd/R/util-loglikfunc.R |only mbbefd-0.8-0/mbbefd/R/zzz.R | 43 mbbefd-0.8-0/mbbefd/README.md | 29 mbbefd-0.8-0/mbbefd/build/vignette.rds |binary mbbefd-0.8-0/mbbefd/data |only mbbefd-0.8-0/mbbefd/demo |only mbbefd-0.8-0/mbbefd/inst/doc/Introduction_to_mbbefd.R |only mbbefd-0.8-0/mbbefd/inst/doc/Introduction_to_mbbefd.Rmd |only mbbefd-0.8-0/mbbefd/inst/doc/Introduction_to_mbbefd.pdf |only mbbefd-0.8-0/mbbefd/man/1infl-Distribution.Rd |only mbbefd-0.8-0/mbbefd/man/1infl-beta.Rd |only mbbefd-0.8-0/mbbefd/man/1infl-genbeta.Rd |only mbbefd-0.8-0/mbbefd/man/1infl-stpareto.Rd |only mbbefd-0.8-0/mbbefd/man/1infl-unif.Rd |only mbbefd-0.8-0/mbbefd/man/asiacomrisk.Rd |only mbbefd-0.8-0/mbbefd/man/beaonre.Rd |only mbbefd-0.8-0/mbbefd/man/bootDR.Rd |only mbbefd-0.8-0/mbbefd/man/distr-genbeta.Rd |only mbbefd-0.8-0/mbbefd/man/distr-sfttrncPareto.Rd |only mbbefd-0.8-0/mbbefd/man/eecf.Rd | 90 - mbbefd-0.8-0/mbbefd/man/etl.Rd | 86 - mbbefd-0.8-0/mbbefd/man/exposureCurve.Rd | 117 +- mbbefd-0.8-0/mbbefd/man/fitDR.Rd |only mbbefd-0.8-0/mbbefd/man/g2a.Rd | 50 - mbbefd-0.8-0/mbbefd/man/graph-eccomp.Rd |only mbbefd-0.8-0/mbbefd/man/lossalae.Rd |only mbbefd-0.8-0/mbbefd/man/mbbefd-package.Rd | 77 - mbbefd-0.8-0/mbbefd/man/mbbefdDistribution.Rd | 231 ++--- mbbefd-0.8-0/mbbefd/man/swissRe.Rd | 74 - mbbefd-0.8-0/mbbefd/src/RcppExports.cpp | 22 mbbefd-0.8-0/mbbefd/src/mbbefdRcppCode.cpp | 146 ++- mbbefd-0.8-0/mbbefd/tests/check-formula-variance.R | 119 +- mbbefd-0.8-0/mbbefd/tests/test-1inf-GB1.R |only mbbefd-0.8-0/mbbefd/tests/test-1inf-beta.R | 88 - mbbefd-0.8-0/mbbefd/tests/test-1inf-mean.R | 95 +- mbbefd-0.8-0/mbbefd/tests/test-1inf-shftrncPareto.R | 88 - mbbefd-0.8-0/mbbefd/tests/test-1inf-unif.R | 88 - mbbefd-0.8-0/mbbefd/tests/test-GB1.R |only mbbefd-0.8-0/mbbefd/tests/test-beaonre.R |only mbbefd-0.8-0/mbbefd/tests/test-eecf.R | 58 - mbbefd-0.8-0/mbbefd/tests/test-fit-MBBEFDgb.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-gbeta.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-mbbefd.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-oibeta.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-oigbeta.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-oistpareto.R |only mbbefd-0.8-0/mbbefd/tests/test-fit-oiunif.R |only mbbefd-0.8-0/mbbefd/tests/test-lossalae.R |only mbbefd-0.8-0/mbbefd/tests/test-mbbefd-1stparam.R | 117 +- mbbefd-0.8-0/mbbefd/tests/test-mbbefd-2ndparam.R | 133 +- mbbefd-0.8-0/mbbefd/tests/test-rng-mbbefd.R |only mbbefd-0.8-0/mbbefd/tests/test-shftrncPareto.R | 66 - mbbefd-0.8-0/mbbefd/tests/testthat.R | 8 mbbefd-0.8-0/mbbefd/tests/testthat/testsDistr.R | 49 - mbbefd-0.8-0/mbbefd/vignettes/Introduction_to_mbbefd.Rmd |only mbbefd-0.8-0/mbbefd/vignettes/mbbefd.bib | 453 +++++++--- 113 files changed, 1620 insertions(+), 1109 deletions(-)
Title: Interactive Heat Maps Using 'htmlwidgets' and 'D3.js'
Description: Create interactive heat maps that are usable from the R console, in
the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover
the mouse pointer over a cell to show details, drag a rectangle to zoom, and
click row/column labels to highlight.
Author: Joe Cheng [aut, cre],
Tal Galili [aut],
RStudio, Inc. [cph],
Michael Bostock [ctb, cph] (D3.js library),
Justin Palmer [ctb, cph] (d3.tip library)
Maintainer: Joe Cheng <joe@rstudio.com>
Diff between d3heatmap versions 0.6.1 dated 2015-07-27 and 0.6.1.1 dated 2016-02-23
d3heatmap-0.6.1.1/d3heatmap/DESCRIPTION | 17 d3heatmap-0.6.1.1/d3heatmap/MD5 | 28 d3heatmap-0.6.1.1/d3heatmap/NAMESPACE | 2 d3heatmap-0.6.1.1/d3heatmap/NEWS | 6 d3heatmap-0.6.1.1/d3heatmap/build/vignette.rds |binary d3heatmap-0.6.1.1/d3heatmap/inst/doc/Introduction.html | 373 d3heatmap-0.6.1.1/d3heatmap/inst/htmlwidgets/d3heatmap.js | 3 d3heatmap-0.6.1.1/d3heatmap/inst/htmlwidgets/d3heatmap.yaml | 4 d3heatmap-0.6.1.1/d3heatmap/inst/htmlwidgets/lib/d3heatmapcore/heatmapcore.css |only d3heatmap-0.6.1.1/d3heatmap/inst/htmlwidgets/lib/d3heatmapcore/heatmapcore.js |only d3heatmap-0.6.1.1/d3heatmap/inst/htmlwidgets/lib/testharness.html | 2254 + d3heatmap-0.6.1.1/d3heatmap/man/d3heatmap.Rd | 18 d3heatmap-0.6.1.1/d3heatmap/man/d3heatmapOutput.Rd | 7 d3heatmap-0.6.1.1/d3heatmap/tests/smoketest.R | 2 d3heatmap-0.6.1.1/d3heatmap/tests/smoketest.Rout.save |13309 ++++------ d3heatmap-0.6.1/d3heatmap/inst/htmlwidgets/lib/d3heatmapcore/heatmap.css |only d3heatmap-0.6.1/d3heatmap/inst/htmlwidgets/lib/d3heatmapcore/heatmap.js |only 17 files changed, 8185 insertions(+), 7838 deletions(-)
More information about benchmarkmeData at CRAN
Permanent link
Title: Applied Latent Semantic Analysis (LSA) Functions
Description: Provides functions that allow for convenient working
with Latent Semantic Analysis. For actually building an LSA space, use the
package 'lsa' or other specialized software.
Author: Fritz Guenther [aut, cre]
Maintainer: Fritz Guenther <fritz.guenther@uni-tuebingen.de>
Diff between LSAfun versions 0.4 dated 2015-05-09 and 0.5 dated 2016-02-23
ChangeLog | 26 ++++++++++++---- DESCRIPTION | 9 +++-- MD5 | 77 +++++++++++++++++++++++++------------------------- NAMESPACE | 11 ++++++- R/Cosine.r | 2 - R/MultipleChoice.r | 2 - R/Predication.r | 2 - R/asym.R | 6 +-- R/choose.target.r | 2 - R/coherence.r | 2 - R/compose.r | 2 - R/conSIM.r | 2 - R/costring.r | 2 - R/distance.r | 2 - R/genericSummary.R | 2 - R/multicos.r | 2 - R/multicostring.r | 2 - R/neighbors.r | 2 - R/pairwise.r |only R/plausibility.r | 9 +++-- R/plot_neighbors.r | 2 - R/plot_wordlist.r | 2 - inst |only man/Cosine.Rd | 2 - man/MultipleChoice.Rd | 2 - man/Predication.Rd | 2 - man/asym.Rd | 2 - man/choose.target.Rd | 2 - man/coherence.Rd | 2 - man/compose.Rd | 2 - man/conSIM.Rd | 2 - man/costring.Rd | 2 - man/distance.Rd | 2 - man/genericSummary.Rd | 2 - man/multicos.Rd | 2 - man/multicostring.Rd | 2 - man/neighbors.Rd | 2 - man/pairwise.Rd |only man/plausibility.Rd | 2 - man/plot_neighbors.Rd | 2 - man/plot_wordlist.Rd | 2 - 41 files changed, 116 insertions(+), 86 deletions(-)
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Description: Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette.
Author: Sinnwell JP, Schaid DJ
Maintainer: Jason P. Sinnwell <sinnwell.jason@mayo.edu>
Diff between haplo.stats versions 1.7.1 dated 2015-08-14 and 1.7.6 dated 2016-02-23
DESCRIPTION | 12 - MD5 | 25 +-- R/summary.haplo.em.q | 14 + R/summary.haplo.glm.q | 3 build |only inst/NEWS.Rd | 10 + inst/doc/manualHaploStats.pdf |binary inst/doc/manualHaploStats.pdf.asis |only src/groupsum.c | 2 src/haplo_em_pin.c | 3 src/louis_info.c | 2 tests/snapFUN.s | 6 tests/test.haplo.em.R | 13 - tests/test.haplo.em.Rout.save | 307 ++++++++++++++++++------------------- vignettes |only 15 files changed, 209 insertions(+), 188 deletions(-)
Title: Manage, Analyse and Simulate Hyperspectral Data
Description: Transformation of reflectance spectra, calculation of vegetation indices and red edge parameters, spectral resampling for hyperspectral remote sensing, simulation of reflectance and transmittance using the leaf reflectance model PROSPECT and the canopy reflectance model PROSAIL.
Author: Lukas W. Lehnert [cre, aut],
Hanna Meyer [aut],
Joerg Bendix [aut]
Maintainer: Lukas W. Lehnert <lukaslehnert@googlemail.com>
Diff between hsdar versions 0.4.0 dated 2016-01-12 and 0.4.1 dated 2016-02-23
hsdar-0.4.0/hsdar/inst/doc/hsdar-intro.Rnw |only hsdar-0.4.0/hsdar/inst/doc/hsdar-intro.pdf |only hsdar-0.4.0/hsdar/man/integrateToSensor.Rd |only hsdar-0.4.0/hsdar/vignettes/Makefile |only hsdar-0.4.0/hsdar/vignettes/References.tex |only hsdar-0.4.0/hsdar/vignettes/hsdar-intro.Rnw |only hsdar-0.4.0/hsdar/vignettes/hsdar-intro.tex |only hsdar-0.4.1/hsdar/.Rinstignore | 1 hsdar-0.4.1/hsdar/ChangeLog | 10 hsdar-0.4.1/hsdar/DESCRIPTION | 10 hsdar-0.4.1/hsdar/MD5 | 149 +++++----- hsdar-0.4.1/hsdar/R/AAAClasses.R | 8 hsdar-0.4.1/hsdar/R/PROSAIL.R | 27 + hsdar-0.4.1/hsdar/R/PROSPECTinvert.R |only hsdar-0.4.1/hsdar/R/caret_gafs.R | 20 + hsdar-0.4.1/hsdar/R/caret_parameters.R | 9 hsdar-0.4.1/hsdar/R/caret_rfe.R | 18 + hsdar-0.4.1/hsdar/R/caret_safs.R | 24 + hsdar-0.4.1/hsdar/R/caret_sbf.R | 15 + hsdar-0.4.1/hsdar/R/caret_train.R | 7 hsdar-0.4.1/hsdar/R/caret_utils.R | 2 hsdar-0.4.1/hsdar/R/continuum_clman.R | 91 +++++- hsdar-0.4.1/hsdar/R/continuum_features.R | 76 +++++ hsdar-0.4.1/hsdar/R/continuum_features_properties.R | 6 hsdar-0.4.1/hsdar/R/continuum_transform.R | 4 hsdar-0.4.1/hsdar/R/nri.R | 2 hsdar-0.4.1/hsdar/R/nri_methods.R | 13 hsdar-0.4.1/hsdar/R/nri_print.R | 1 hsdar-0.4.1/hsdar/R/smgm.R | 2 hsdar-0.4.1/hsdar/R/soilindex.R | 10 hsdar-0.4.1/hsdar/R/speclib_print.R | 17 - hsdar-0.4.1/hsdar/R/spectral_resampling.R | 15 - hsdar-0.4.1/hsdar/build/hsdar.pdf |binary hsdar-0.4.1/hsdar/build/vignette.rds |binary hsdar-0.4.1/hsdar/data/cancer_spectra.RData |only hsdar-0.4.1/hsdar/inst/doc/Hsdar-intro.R |only hsdar-0.4.1/hsdar/inst/doc/Hsdar-intro.Rnw |only hsdar-0.4.1/hsdar/inst/doc/Hsdar-intro.pdf |only hsdar-0.4.1/hsdar/inst/doc/References.pdf |binary hsdar-0.4.1/hsdar/man/Clman-class.Rd | 2 hsdar-0.4.1/hsdar/man/Clman-methods.Rd | 4 hsdar-0.4.1/hsdar/man/Nri-class.Rd | 1 hsdar-0.4.1/hsdar/man/PROSAIL2R.Rd | 11 hsdar-0.4.1/hsdar/man/PROSPECT2R.Rd | 25 + hsdar-0.4.1/hsdar/man/Speclib-class.Rd | 2 hsdar-0.4.1/hsdar/man/addcp.Rd | 4 hsdar-0.4.1/hsdar/man/applyDistMat3D.Rd | 4 hsdar-0.4.1/hsdar/man/bdri.Rd | 8 hsdar-0.4.1/hsdar/man/cancer_spectra.Rd |only hsdar-0.4.1/hsdar/man/caret_gafs.Rd | 16 - hsdar-0.4.1/hsdar/man/caret_rfe.Rd | 16 - hsdar-0.4.1/hsdar/man/caret_safs.Rd | 16 - hsdar-0.4.1/hsdar/man/caret_sfb.Rd | 16 - hsdar-0.4.1/hsdar/man/checkhull.Rd | 4 hsdar-0.4.1/hsdar/man/clman.Rd | 12 hsdar-0.4.1/hsdar/man/cor.test.normalized.ratio.index.Rd | 4 hsdar-0.4.1/hsdar/man/cut.specfeat.Rd | 4 hsdar-0.4.1/hsdar/man/define.features.Rd | 6 hsdar-0.4.1/hsdar/man/deletecp.Rd | 4 hsdar-0.4.1/hsdar/man/feature_properties.Rd | 6 hsdar-0.4.1/hsdar/man/figures/classes.pdf |binary hsdar-0.4.1/hsdar/man/figures/classes.png |binary hsdar-0.4.1/hsdar/man/figures/classes.svg | 19 - hsdar-0.4.1/hsdar/man/getNRI.Rd | 4 hsdar-0.4.1/hsdar/man/getcp.Rd | 4 hsdar-0.4.1/hsdar/man/glm.normalized.ratio.index.Rd | 4 hsdar-0.4.1/hsdar/man/hsdar-package.Rd | 5 hsdar-0.4.1/hsdar/man/makehull.Rd | 6 hsdar-0.4.1/hsdar/man/normalized.ratio.index-methods.Rd | 4 hsdar-0.4.1/hsdar/man/normalized.ratio.index.Rd | 4 hsdar-0.4.1/hsdar/man/normalized.ratio.index.best.perfomance.Rd | 4 hsdar-0.4.1/hsdar/man/plot.glm.normalized.ratio.index.Rd | 8 hsdar-0.4.1/hsdar/man/plot.speclib.Rd | 7 hsdar-0.4.1/hsdar/man/sensorCharacteristics.Rd | 2 hsdar-0.4.1/hsdar/man/smgm.Rd | 2 hsdar-0.4.1/hsdar/man/soilindex.Rd | 2 hsdar-0.4.1/hsdar/man/specfeat.Rd | 2 hsdar-0.4.1/hsdar/man/spectralResampling.Rd |only hsdar-0.4.1/hsdar/man/t.test.nri.Rd | 4 hsdar-0.4.1/hsdar/man/transform.Rd | 11 hsdar-0.4.1/hsdar/man/unmix.Rd | 6 hsdar-0.4.1/hsdar/man/updatecl.Rd | 8 hsdar-0.4.1/hsdar/src/main_PROSAIL.f90 | 14 hsdar-0.4.1/hsdar/vignettes/Hsdar-intro.Rnw |only 84 files changed, 570 insertions(+), 252 deletions(-)
Title: Utilities from "Seminar fuer Statistik" ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, quite a few related to graphics; many ported from S-plus times.
Author: Martin Maechler et al.
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between sfsmisc versions 1.0-29 dated 2016-01-22 and 1.1-0 dated 2016-02-23
DESCRIPTION | 8 +++---- MD5 | 18 ++++++++-------- NAMESPACE | 3 +- R/misc-goodies.R | 56 +++++++++++++++++++++++++++++++++++++++------------ R/prime-numbers-fn.R | 19 ++++++++++++++--- R/tkdensity.R | 8 +++---- inst/NEWS.Rd | 23 +++++++++++++++++++- man/QUnif.Rd | 6 +++-- man/primes.Rd | 40 ++++++++++++++++++++++++++++++++++-- man/xy.unique.x.Rd | 16 ++++++++++---- 10 files changed, 152 insertions(+), 45 deletions(-)
Title: Wrapper for MUMPS Library
Description: Exported class can be used for storing sparse matrix
and solving corresponding linear system with one or many right
hand sides. There is a possibility to do separately symbolic analysis,
LU factorization and system solving.
Author: Serguei Sokol
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.0.1.7 dated 2016-01-21 and 5.0.1.8 dated 2016-02-23
rmumps-5.0.1.7/rmumps/R/WorldClass.R |only rmumps-5.0.1.8/rmumps/DESCRIPTION | 10 rmumps-5.0.1.8/rmumps/MD5 | 25 +- rmumps-5.0.1.8/rmumps/NAMESPACE | 6 rmumps-5.0.1.8/rmumps/NEWS | 9 rmumps-5.0.1.8/rmumps/R/methods.R |only rmumps-5.0.1.8/rmumps/README.md |only rmumps-5.0.1.8/rmumps/inst/examples/err.txt |only rmumps-5.0.1.8/rmumps/inst/examples/random_matrix.R | 1 rmumps-5.0.1.8/rmumps/inst/examples/res.txt |only rmumps-5.0.1.8/rmumps/inst/examples/res_err.txt |only rmumps-5.0.1.8/rmumps/inst/examples/valgrind.R |only rmumps-5.0.1.8/rmumps/man/Rmumps.Rd | 21 + rmumps-5.0.1.8/rmumps/man/rmumps-package.Rd | 6 rmumps-5.0.1.8/rmumps/src/rmumps_module.cpp | 237 ++++++++++++++++---- rmumps-5.0.1.8/rmumps/tests/testthat.R | 1 rmumps-5.0.1.8/rmumps/tests/testthat/test_rmumps.R | 32 ++ 17 files changed, 283 insertions(+), 65 deletions(-)
Title: Permutation-Based Gene Expression Pathway Analyses
Description: Can be used to carry out permutation-based gene expression pathway analyses. This work was supported by a National Institute of Allergy and Infectious Disease/National Institutes of Health contract (No. HHSN272200900059C).
Author: Ivo D. Shterev [aut, cre],
Kouros Owzar [aut],
Gregory D. Sempowski [aut],
Kenneth Wilder [ctb, cph] (wrote original version of ranker.h)
Maintainer: Ivo D. Shterev <i.shterev@duke.edu>
Diff between permPATH versions 0.2 dated 2016-02-18 and 0.5 dated 2016-02-23
DESCRIPTION | 14 +++++++------- MD5 | 9 +++++---- NEWS |only inst/doc/permPATHmanual.pdf |binary src/permPATH.cpp | 40 ++++++++++++++++++++-------------------- src/ranker.h | 4 ++-- 6 files changed, 34 insertions(+), 33 deletions(-)
Title: Deriving Expressions of Joint Interventional Distributions and
Transport Formulas in Causal Models
Description: Functions for identification and transportation of causal effects. Provides a conditional causal effect identification algorithm (IDC) by Ilya Shpitser and Judea Pearl, and algorithms for z-identifiability, transportability, z-transportability and meta-transportability of causal effects by Elias Bareinboim and Judea Pearl. All of the previously mentioned algorithms are based on a causal effect identification algorithm by Jin Tian.
Author: Santtu Tikka
Maintainer: Santtu Tikka <santtuth@gmail.com>
Diff between causaleffect versions 1.2.3 dated 2016-02-01 and 1.2.4 dated 2016-02-23
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NEWS | 3 +++ R/causal.effect.R | 2 +- R/parse.expression.R | 8 +++++--- R/simplify.R | 17 +++++++++-------- R/zero.children.R |only inst/doc/causaleffect.pdf |binary 8 files changed, 29 insertions(+), 22 deletions(-)
Title: Bootstrap Functions (Originally by Angelo Canty for S)
Description: Functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Application" by A. C. Davison and
D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.
Author: Angelo Canty [aut],
Brian Ripley [aut, trl, cre] (author of parallel support)
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between boot versions 1.3-17 dated 2015-06-29 and 1.3-18 dated 2016-02-23
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Bootstrapped Differences of Time Series
Description: Analyze differences among time series curves with p-value adjustment for multiple comparisons introduced in Oleson et al (2015) <DOI:10.1177/0962280215607411>.
Author: Michael Seedorff, Jacob Oleson, Grant Brown, Joseph Cavanaugh, and Bob McMurray
Maintainer: Michael Seedorff <michael-seedorff@uiowa.edu>
Diff between bdots versions 0.1.4 dated 2016-01-26 and 0.1.7 dated 2016-02-23
DESCRIPTION | 10 +++++----- MD5 | 12 +++++++----- NAMESPACE | 5 +++-- R/subsPlot.r | 17 ++++++++++++++--- R/writeCSV.r |only inst/doc/bdots.pdf |binary man/writeCSV.Rd |only vignettes/bdots.bib | 4 ++-- 8 files changed, 31 insertions(+), 17 deletions(-)
Title: Access Vegetation Databases and Treat Taxonomy
Description: Handling of vegetation data from Turboveg (<http://www.synbiosys.alterra.nl/turboveg/>) and other sources (<http://www.vegetweb.de>). Taxonomic harmonization given appropriate taxonomic lists (e.g. the German taxonomical standard list "GermanSL", <http://www.botanik.uni-greifswald.de/GermanSL.html>).
Author: Florian Jansen <jansen@uni-greifswald.de>
Maintainer: Florian Jansen <jansen@uni-greifswald.de>
Diff between vegdata versions 0.8.6 dated 2015-11-20 and 0.8.7 dated 2016-02-23
DESCRIPTION | 8 +++--- MD5 | 42 ++++++++++++++++++------------------ NAMESPACE | 9 ++++--- R/internal.r | 10 ++++++-- R/reflist.r | 12 ++++++---- R/tax_add.r | 41 +++++++++++++++++++++++++++++++---- R/taxval.r | 4 +-- R/tv.coverperc.r | 4 +-- R/tv.metainfo.r | 4 +-- R/tv.obs.r | 13 +++++------ R/tv.write.r | 8 +++--- build/vignette.rds |binary inst/ChangeLog | 3 ++ inst/doc/vegdata.R | 24 +++++++++++++------- inst/doc/vegdata.Rnw | 30 ++++++++++++++++--------- inst/doc/vegdata.pdf |binary inst/tvdata/Data/elbaue/tvwin.dbf |only inst/tvdata/Data/taxatest/tvwin.dbf |only man/isc.Rd | 2 + man/tv.metadata.Rd | 2 - man/vegetweb.Rd | 3 -- tests/testthat/test.R | 4 +-- vignettes/vegdata.Rnw | 30 ++++++++++++++++--------- 23 files changed, 161 insertions(+), 92 deletions(-)
Title: Weaning Age Reconstruction with Nitrogen Isotope Analysis
Description: This estimates precise weaning ages
for a given skeletal population
by analyzing the stable nitrogen isotope ratios of them.
Bone collagen turnover rates estimated anew and
the approximate Bayesian computation (ABC)
were adopted in this package.
Author: Takumi Tsutaya
Maintainer: Takumi Tsutaya <tsutayatakumi@gmail.com>
Diff between WARN versions 1.1 dated 2014-11-04 and 1.2-0 dated 2016-02-23
ChangeLog |only DESCRIPTION | 13 +-- MD5 | 28 ++++--- NAMESPACE | 26 ++++-- NEWS |only R/warn.R | 187 +++++++++++++++++++++++++++++++++++++++++++++++- R/warn_s3.R | 120 +++++++++++++++++++++++++++++- man/WARN-package.Rd | 12 +-- man/plot.warn.Rd | 2 man/plot.warnCI.Rd |only man/plot.warnProb.Rd | 2 man/summary.warn.Rd | 2 man/summary.warnProb.Rd | 2 man/warn.Rd | 6 - man/warnCI.Rd |only man/warnOptim.Rd | 2 man/warnProb.Rd | 4 - 17 files changed, 356 insertions(+), 50 deletions(-)
Title: Tree-Based Varying Coefficient Regression for Generalized Linear
and Ordinal Mixed Models
Description: Recursive partitioning for varying coefficient generalized linear models and ordinal linear mixed models. Special features are coefficient-wise partitioning, non-varying coefficients and partitioning of time-varying variables in longitudinal regression.
Author: Reto Buergin [aut, cre, cph],
Gilbert Ritschard [ctb, ths]
Maintainer: Reto Buergin <rbuergin@gmx.ch>
Diff between vcrpart versions 0.3-3 dated 2015-03-17 and 0.4-1 dated 2016-02-23
DESCRIPTION | 12 MD5 | 56 +-- NAMESPACE | 44 +-- NEWS | 49 +++ R/AllGeneric.R | 6 R/fvcm.R | 58 ++-- R/import.R | 5 R/olmm-methods.R | 28 + R/olmm-utils.R | 12 R/olmm.R | 46 ++- R/otsplot.R | 11 R/tvcm-cv.R | 24 - R/tvcm-methods.R | 38 +- R/tvcm-plot.R | 308 +++++++++++---------- R/tvcm-utils.R | 700 ++++++++++++++++++++++++++++--------------------- R/tvcm.R | 64 ++-- R/utils.R | 55 ++- ToDo | 7 man/fvcm-methods.Rd | 3 man/olmm-methods.Rd | 3 man/olmm.Rd | 2 man/tvcglm.Rd | 20 - man/tvcm-control.Rd | 10 man/tvcm-methods.Rd | 3 man/tvcm-plot.Rd | 19 - man/tvcm.Rd | 6 man/tvcolmm.Rd | 6 man/vcrpart-formula.Rd | 68 ++-- src/olmm.c | 121 +++----- 29 files changed, 1056 insertions(+), 728 deletions(-)
Title: Using GPUs in Statistical Genomics
Description: Can be used to carry out
permutation resampling inference in the context of RNA
microarray studies.
Author: Ivo D. Shterev [aut, cre],
Kouros Owzar [aut],
Sin-Ho Jung [aut],
Stephen L. George [aut],
Brian J. Smith [ctb, cph] (wrote original version of configure.ac file),
Kenneth Wilder [ctb, cph] (wrote ranker.h),
Romain Francois [ctb, cph] (wrote original version of cleanup file),
Dirk Eddelbuettel [ctb, cph] (wrote original version of cleanup file)
Maintainer: Ivo D. Shterev <i.shterev@duke.edu>
Diff between permGPU versions 0.14.8 dated 2016-01-31 and 0.14.9 dated 2016-02-23
DESCRIPTION | 31 +++++++++++++++++++++++-------- MD5 | 2 +- 2 files changed, 24 insertions(+), 9 deletions(-)
Title: Network Dynamic Temporal Visualizations
Description: Renders dynamic network data from 'networkDynamic' objects as movies, interactive animations, or other representations of changing relational structures and attributes.
Author: Skye Bender-deMoll [cre, aut],
Martina Morris [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between ndtv versions 0.8.0 dated 2015-12-02 and 0.9.0 dated 2016-02-23
ChangeLog | 5 +++++ DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- R/installers.R | 6 +++--- R/timecube.R | 2 +- R/transmissionTimeline.R | 5 ++++- build/vignette.rds |binary inst/doc/ndtv.pdf |binary inst/htmlwidgets/ndtvAnimationWidget.js | 23 ++++++++++++++--------- man/network.layout.animate.Rd | 4 ++-- man/stergm.sim.1.Rd | 2 +- man/transmissionTimeline.Rd | 10 +++++++--- 12 files changed, 53 insertions(+), 36 deletions(-)
Title: Self Contained Units of Source Code
Description: Provides modules as an organizational unit for source code. Modules
enforce to be more rigorous when defining dependencies and have
a local search path. They can be used as a sub unit within packages
or in scripts.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>
Diff between modules versions 0.2.0 dated 2016-01-06 and 0.3.0 dated 2016-02-23
DESCRIPTION | 16 - LICENSE | 26 - MD5 | 42 +- NAMESPACE | 3 NEWS | 27 + R/NAMESPACE.R | 10 R/getSearchPath.R | 38 +- R/modfun.R | 106 +++--- R/module-class.R | 81 +++-- R/module-coercion.R | 70 ++-- R/module-helper.R | 159 +++++----- R/module.R | 304 ++++++++++--------- inst/doc/modulesInR.R | 57 +++ inst/doc/modulesInR.Rmd | 117 +++++++ inst/doc/modulesInR.html | 202 +++++++++---- man/module.Rd | 35 +- man/modulecoerce.Rd | 20 + tests/testthat.R | 8 tests/testthat/test-model-coercion.R | 97 +++--- tests/testthat/test-modfun.R | 140 ++++----- tests/testthat/test-module.R | 539 +++++++++++++++++++---------------- vignettes/modulesInR.Rmd | 117 +++++++ 22 files changed, 1409 insertions(+), 805 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 1.1-1 dated 2016-02-21 and 1.1-2 dated 2016-02-23
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- inst/NEWS.Rd | 13 +++++++++++-- inst/doc/gstat.pdf |binary inst/doc/prs.pdf |binary inst/doc/spatio-temporal-kriging.pdf |binary inst/doc/st.pdf |binary src/data.c | 4 ++-- src/data.h | 1 + src/mtrx.c | 4 ++++ src/s.c | 1 + src/vario.c | 2 ++ 12 files changed, 35 insertions(+), 18 deletions(-)
Title: Meta-Analysis via a Unified Framework of Confidence Distribution
Description: An implementation of an all-in-one function for a wide range of meta-analysis problems. It contains a single function gmeta() that unifies all standard meta-analysis methods and also several newly developed ones under a framework of combining confidence distributions (CDs). Specifically, the package can perform classical p-value combination methods (such as methods of Fisher, Stouffer, Tippett, etc.), fit meta-analysis fixed-effect and random-effects models, and synthesizes 2x2 tables. Furthermore, it can perform robust meta-analysis, which provides protection against model-misspecifications, and limits the impact of any unknown outlying studies. In addition, the package implements two exact meta-analysis methods from synthesizing 2x2 tables with rare events (e.g., zero total event). A plot function to visualize individual and combined CDs through extended forest plots is also available.
Author: Guang Yang <gyang.rutgers@gmail.com>, Jerry Q. Cheng <jcheng1@rwjms.rutgers.edu>,
and Minge Xie <mxie@stat.rutgers.edu>
Maintainer: Guang Yang <gyang.rutgers@gmail.com>
Diff between gmeta versions 2.2-4 dated 2016-02-05 and 2.2-6 dated 2016-02-23
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- man/gmeta.Rd | 8 ++++---- man/plot.gmeta.Rd | 4 ++++ src/pvaluecombine.c | 12 ++++++------ 5 files changed, 23 insertions(+), 19 deletions(-)
Title: Lasso and Elastic-Net Regularized Generalized Linear Models
Description: Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models, Poisson regression and the Cox model. Two recent additions are the multiple-response Gaussian, and the grouped multinomial. The algorithm uses cyclical coordinate descent in a path-wise fashion, as described in the paper linked to via the URL below.
Author: Jerome Friedman, Trevor Hastie, Noah Simon, Rob Tibshirani
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between glmnet versions 2.0-2 dated 2015-04-11 and 2.0-3 dated 2016-02-23
ChangeLog | 2 DESCRIPTION | 9 +- MD5 | 30 ++++----- NAMESPACE | 6 + R/coef.glmnet.R | 2 R/predict.coxnet.R | 2 R/predict.glmnet.R | 5 - R/predict.multnet.R | 3 build/vignette.rds |binary inst/doc/Coxnet.pdf |binary inst/doc/glmnet_beta.R | 22 +++---- inst/doc/glmnet_beta.Rmd | 4 - inst/doc/glmnet_beta.html | 144 +++++++++++++++++++++++----------------------- man/predict.glmnet.Rd | 32 ++++++---- src/glmnet5.f90 | 5 + vignettes/glmnet_beta.Rmd | 4 - 16 files changed, 146 insertions(+), 124 deletions(-)
Title: Bayesian Additive Regression Trees
Description: This is an implementation of BART:Bayesian Additive Regression Trees,
by Chipman, George, McCulloch (2010).
Author: Hugh Chipman <hugh.chipman@gmail.com>, Robert McCulloch
<robert.e.mcculloch@gmail.com>
Maintainer: Robert McCulloch <robert.e.mcculloch@gmail.com>
Diff between BayesTree versions 0.3-1.2 dated 2014-11-03 and 0.3-1.3 dated 2016-02-23
DESCRIPTION | 12 ++++++------ MD5 | 34 +++++++++++++++++----------------- NAMESPACE | 2 ++ man/pdbart.Rd | 19 +++++-------------- src/BirthDeath.cpp | 16 ++++++++++------ src/ChangeRule.cpp | 16 ++++++++++------ src/Funs.cpp | 6 +++--- src/Lib.cpp | 4 ++-- src/Lib.h | 4 ++-- src/List.cpp | 12 ++++++++---- src/MuS.cpp | 4 ++-- src/Node.cpp | 13 ++++++++----- src/Prior.cpp | 4 ++-- src/Rlob.cpp | 13 ++++++++----- src/Rlob.h | 13 ++++++++----- src/Sdev.h | 2 +- src/Swap.cpp | 16 ++++++++++------ src/mbart.cpp | 4 ++-- 18 files changed, 106 insertions(+), 88 deletions(-)