Title: A Dependency Management System for Projects and their R Package
Dependencies
Diff between packrat versions 0.4.2-1 dated 2014-12-16 and 0.4.3 dated 2015-01-28
Description: A tool for managing the R packages your project depends
on in an isolated, portable, and reproducible way.
Author: Kevin Ushey, Jonathan McPherson, Joe Cheng, JJ Allaire
Maintainer: Kevin Ushey
DESCRIPTION | 8 +--
MD5 | 70 ++++++++++++++---------------
NAMESPACE | 2
R/available-updates.R | 2
R/dependencies.R | 4 -
R/install.R | 4 -
R/migrate-library.R | 2
R/migrate-packrat.R | 4 -
R/options.R | 4 -
R/packrat.R | 17 ++++++-
R/snapshot.R | 23 ++++++++-
R/status.R | 98 +++++++++++++++++++++--------------------
README.md | 25 +++++++---
inst/resources/init-rprofile.R | 2
inst/resources/init.R | 12 ++++-
man/appDependencies.Rd | 3 -
man/bundle.Rd | 3 -
man/clean.Rd | 3 -
man/disable.Rd | 3 -
man/init.Rd | 3 -
man/install.Rd | 3 -
man/install_github.Rd | 3 -
man/install_local.Rd | 3 -
man/migrate.Rd | 3 -
man/packify.Rd | 3 -
man/packrat-external.Rd | 3 -
man/packrat-mode.Rd | 3 -
man/packrat-options.Rd | 7 +-
man/packrat.Rd | 3 -
man/restore.Rd | 3 -
man/search_path.Rd | 3 -
man/snapshot.Rd | 8 +--
man/snapshotImpl.Rd | 11 ++--
man/status.Rd | 3 -
man/unbundle.Rd | 3 -
man/unused_packages.Rd | 3 -
36 files changed, 216 insertions(+), 141 deletions(-)
Title: Meta-analysis for MicroArrays
Diff between metaMA versions 3.1.1 dated 2015-01-26 and 3.1.2 dated 2015-01-28
Description: Combines either p-values or modified effect sizes from different
studies to find differentially expressed genes
Author: Guillemette Marot
Maintainer: Guillemette Marot
DESCRIPTION | 10 +-
MD5 | 14 +--
inst/NEWS | 4
inst/doc/metaMA.R | 214 +++++++++++++++++++++++++-------------------------
inst/doc/metaMA.Rnw | 74 ++++++++---------
inst/doc/metaMA.pdf |binary
man/metaMA-package.Rd | 4
vignettes/metaMA.Rnw | 74 ++++++++---------
8 files changed, 198 insertions(+), 196 deletions(-)
Title: Import, Plot and Analyze Bathymetric and Topographic Data
Diff between marmap versions 0.9.1 dated 2014-12-16 and 0.9.2 dated 2015-01-28
Description: Import xyz data from the NOAA, GEBCO and other sources, plot xyz data to prepare publication-ready figures, analyze xyz data to extract transects, get depth / altitude based on geographical coordinates, or calculate z-constrained least-cost paths.
Author: Eric Pante, Benoit Simon-Bouhet, and Jean-Olivier Irisson
Maintainer: Eric Pante
DESCRIPTION | 14 ++++++------
MD5 | 44 ++++++++++++++++++++++-----------------
NAMESPACE | 2 +
R/autoplot.bathy.R |only
R/fortify.bathy.R |only
R/palette.etopo.R |only
R/readGEBCO.bathy.R | 44 +++++++++++++++++++--------------------
R/scaleBathy.R | 4 +--
build/vignette.rds |binary
data/aleutians.rda |binary
data/celt.rda |binary
data/florida.rda |binary
data/hawaii.rda |binary
data/hawaii.sites.rda |binary
data/metallo.rda |binary
data/nw.atlantic.coast.rda |binary
data/nw.atlantic.rda |binary
inst/doc/marmap-ImportExport.pdf |binary
man/autoplot.bathy.Rd |only
man/etopo.Rd |only
man/fortify.bathy.Rd |only
man/marmap.Rd | 4 +--
man/nw.atlantic.coast.Rd | 4 +--
man/plot.bathy.Rd | 3 --
man/readGEBCO.bathy.Rd | 14 ++++--------
man/scaleBathy.Rd | 5 +++-
26 files changed, 72 insertions(+), 66 deletions(-)
Title: Generate Functions to Get or Set Global Options
Diff between GlobalOptions versions 0.0.5 dated 2014-12-24 and 0.0.6 dated 2015-01-28
Description: It provides more controls on the option values such as validation
and filtering on the values, making options invisible or private.
Author: Zuguang Gu
Maintainer: Zuguang Gu
GlobalOptions-0.0.5/GlobalOptions/inst/tests/package1 |only
GlobalOptions-0.0.5/GlobalOptions/inst/tests/package2 |only
GlobalOptions-0.0.6/GlobalOptions/DESCRIPTION | 9
GlobalOptions-0.0.6/GlobalOptions/MD5 | 23
GlobalOptions-0.0.6/GlobalOptions/NAMESPACE | 1
GlobalOptions-0.0.6/GlobalOptions/NEWS | 8
GlobalOptions-0.0.6/GlobalOptions/R/class.R |only
GlobalOptions-0.0.6/GlobalOptions/R/setGlobalOptions.R | 355 ++--------
GlobalOptions-0.0.6/GlobalOptions/inst/doc/GlobalOptions.R | 8
GlobalOptions-0.0.6/GlobalOptions/inst/doc/GlobalOptions.Rnw | 28
GlobalOptions-0.0.6/GlobalOptions/inst/doc/GlobalOptions.pdf |binary
GlobalOptions-0.0.6/GlobalOptions/inst/tests/test.R | 95 --
GlobalOptions-0.0.6/GlobalOptions/man/setGlobalOptions.rd | 3
GlobalOptions-0.0.6/GlobalOptions/vignettes/GlobalOptions.Rnw | 28
14 files changed, 170 insertions(+), 388 deletions(-)
Title: Statistical Methods for Visual Fields
Diff between visualFields versions 0.4 dated 2014-03-03 and 0.4.2 dated 2015-01-28
Description: A collection of tools for analyzing the field of vision. It provides a framework for development and use of innovative methods for visualization, statistical analysis, and clinical interpretation of visual-field loss and its change over time. It is intended to be a tool for collaborative research.
Author: Ivan Marin-Franch
Maintainer: Ivan Marin-Franch
DESCRIPTION | 12 ++---
MD5 | 106 +++++++++++++++++++++++------------------------
NAMESPACE | 9 ++-
R/ageLinearModel.R | 2
R/agecalc.R | 15 +++---
R/bebie.R | 7 +--
R/colormapgraph.R | 2
R/getnv.R | 2
R/ghpostd.R | 2
R/ghranktd.R | 4 -
R/gloperc.R | 2
R/lidLensArtifact.R | 2
R/loadvfcsv.R | 4 -
R/loadvfxml.R | 13 +++++
R/locperc.R | 2
R/pdpmap.R | 18 +++----
R/pdpmapghr.R | 18 +++----
R/pdval.R | 4 -
R/pdvalghr.R | 4 -
R/poplr.R | 2
R/poplr_pstat.R | 2
R/quad2Dfit.R | 4 -
R/sdnv.R | 2
R/sdnvghr.R | 2
R/setnv.R | 2
R/tdpmap.R | 18 +++----
R/tdrank.R | 6 +-
R/tdrankadjperc.R | 9 ++-
R/tdranknv.R | 2
R/tdrankperc.R | 2
R/tdval.R | 4 -
R/vfcolormap.R | 2
R/vfdemographics.R | 2
R/vfindex.R | 16 +++----
R/vfindexpmap.R | 20 ++++----
R/vfiperc.R | 2
R/vflayout.R | 22 ++++-----
R/vflayout_legoplot.R | 25 ++++-------
R/vflayout_poplr.R | 32 ++++++--------
R/vflayoutghr.R | 18 +++----
R/vfplot.R | 16 +++----
R/vfplot_poplr.R | 8 +--
R/vfstats.R | 10 ++--
R/vfstatspmap.R | 32 +++++++-------
inst/news.txt | 13 +++++
man/colormapgraph.Rd | 4 +
man/quad2Dfit.Rd | 4 -
man/tdrankadjperc.Rd | 5 +-
man/vfcolormap.Rd | 2
man/vfindex.Rd | 2
man/vflayout.Rd | 6 +-
man/vflayout_legoplot.Rd | 6 +-
man/vflayout_poplr.Rd | 6 +-
man/vfplot.Rd | 2
54 files changed, 284 insertions(+), 254 deletions(-)
Title: Fitting Univariate Censored Regression Model Under the Family of
Scale Mixture of Normal Distributions
Diff between SMNCensReg versions 2.4 dated 2014-07-17 and 3.0 dated 2015-01-28
Description: Fit univariate right, left or interval censored regression model under the scale mixture of normal distributions
Author: Aldo M. Garay
Maintainer: Aldo M. Garay
DESCRIPTION | 20 -
MD5 | 14
NAMESPACE | 3
R/CensRegSMN.r | 174 ++++-----
R/EM_SMN.r | 971 ++++++++++++++++++++++++++---------------------------
R/Utilitarios.r | 881 +++++++++++++++++++-----------------------------
man/CensReg.SMN.Rd | 47 +-
man/wage.rates.Rd | 14
8 files changed, 972 insertions(+), 1152 deletions(-)
Title: Visualization of Spatial and Spatio-temporal Objects in Google
Earth
Diff between plotKML versions 0.4-8 dated 2014-12-09 and 0.5-0 dated 2015-01-28
Description: Writes sp-class, spacetime-class, raster-class and similar spatial and spatio-temporal objects to KML following some basic cartographic rules.
Author: Tomislav Hengl [cre, aut],
Pierre Roudier [ctb],
Dylan Beaudette [ctb],
Edzer Pebesma [ctb],
Michael Blaschek [ctb]
Maintainer: Tomislav Hengl
DESCRIPTION | 12 +--
MD5 | 66 +++++++++++----------
NAMESPACE | 1
R/AAAA.R | 20 +++---
R/geopath.R | 68 +++++++++++-----------
R/getWikiMedia.ImageInfo.R | 7 +-
R/grid2poly.R | 8 +-
R/layer.Raster.R | 9 ++
R/layer.SoilProfileCollection.R | 12 +--
R/layer.SpatialPixels.R | 7 +-
R/plotKML.GDALobj.R |only
R/reproject.R | 8 +-
R/spMetadata.R | 14 ++--
R/spPhoto.R | 17 ++---
R/vect2rast.R | 89 ++++++++++++++++-------------
build/vignette.rds |binary
inst/CITATION | 38 +++++++-----
inst/doc/jss1079.Rnw | 8 +-
inst/doc/jss1079.pdf |binary
man/LST.Rd | 4 -
man/geopath.rd | 1
man/layer.SoilProfileCollection.Rd | 1
man/plotKML-package.Rd | 1
man/plotKML.GDALobj.Rd |only
man/plotKML.env.Rd | 1
man/readKML.GBIFdensity.Rd | 2
man/reproject.Rd | 3
man/spMetadata.Rd | 5 +
man/vect2rast.Rd | 2
man/worldgrids_pal.Rd | 10 +--
vignettes/Fig_SpatialPredictions_meuse.jpg |binary
vignettes/Fig_bubble_plot.jpg |binary
vignettes/Fig_fmd_google_earth_2.jpg |binary
vignettes/Fig_fmd_google_earth_3.jpg |binary
vignettes/jss1079.Rnw | 8 +-
35 files changed, 235 insertions(+), 187 deletions(-)
Title: Statistical Significance of the Markowitz Portfolio
Diff between MarkowitzR versions 0.1402 dated 2014-02-12 and 0.1502 dated 2015-01-28
Description: a collection of tools for analyzing significance of
Markowitz portfolios.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav
MarkowitzR-0.1402/MarkowitzR/ChangeLog |only
MarkowitzR-0.1502/MarkowitzR/DESCRIPTION | 15 -
MarkowitzR-0.1502/MarkowitzR/MD5 | 35 +-
MarkowitzR-0.1502/MarkowitzR/NAMESPACE | 2
MarkowitzR-0.1502/MarkowitzR/R/MarkowitzR.r | 12
MarkowitzR-0.1502/MarkowitzR/R/portinf.r | 8
MarkowitzR-0.1502/MarkowitzR/README.md | 9
MarkowitzR-0.1502/MarkowitzR/build/vignette.rds |binary
MarkowitzR-0.1502/MarkowitzR/inst/doc/AsymptoticMarkowitz.R | 4
MarkowitzR-0.1502/MarkowitzR/inst/doc/AsymptoticMarkowitz.pdf |binary
MarkowitzR-0.1502/MarkowitzR/inst/doc/MarkowitzR.R | 56 +--
MarkowitzR-0.1502/MarkowitzR/inst/doc/MarkowitzR.pdf |binary
MarkowitzR-0.1502/MarkowitzR/inst/extdata/ff_data.rda |binary
MarkowitzR-0.1502/MarkowitzR/inst/tests |only
MarkowitzR-0.1502/MarkowitzR/man/MarkowitzR.Rd | 84 ++---
MarkowitzR-0.1502/MarkowitzR/man/NEWS.Rd | 20 +
MarkowitzR-0.1502/MarkowitzR/man/itheta_vcov.Rd | 79 ++---
MarkowitzR-0.1502/MarkowitzR/man/mp_vcov.Rd | 147 ++++------
MarkowitzR-0.1502/MarkowitzR/man/theta_vcov.Rd | 64 ++--
MarkowitzR-0.1502/MarkowitzR/tests |only
20 files changed, 268 insertions(+), 267 deletions(-)
Title: Fast access to large ASCII files
Diff between LaF versions 0.6.1 dated 2014-04-21 and 0.6.2 dated 2015-01-28
Description: Methods for fast access to large ASCII files. Currently the
following file formats are supported: comma separated format (csv) and fixed
width format. It is assumed that the files are too large to fit into memory,
although the package can also be used to efficiently access files that do
fit into memory. Methods are provided to access and process files blockwise.
Furthermore, an opened file can be accessed as one would an ordinary
data.frame. The LaF vignette gives an overview of the functionality
provided.
Author: Jan van der Laan
Maintainer: Jan van der Laan
DESCRIPTION | 10 +++++-----
MD5 | 18 +++++++++---------
NEWS | 4 ++++
R/meta.R | 8 ++++----
R/open.R | 2 +-
build/vignette.rds |binary
inst/doc/LaF-benchmark.pdf |binary
inst/doc/LaF-manual.pdf |binary
src/csvreader.cpp | 2 +-
src/fwfreader.cpp | 2 ++
10 files changed, 26 insertions(+), 20 deletions(-)
Title: Kalman Filter, Smoother and Disturbance Smoother
Diff between KFKSDS versions 1.5 dated 2014-07-27 and 1.6 dated 2015-01-28
Description: Naive implementation of the Kalman filter, smoother and disturbance
smoother for state space models.
Author: Javier López-de-Lacalle
Maintainer: Javier López-de-Lacalle
KFKSDS-1.5/KFKSDS/inst/NEWS |only
KFKSDS-1.6/KFKSDS/DESCRIPTION | 14 ++--
KFKSDS-1.6/KFKSDS/MD5 | 30 ++++-----
KFKSDS-1.6/KFKSDS/NEWS |only
KFKSDS-1.6/KFKSDS/R/KF-interfaces.R | 85 ++++++++++++++------------
KFKSDS-1.6/KFKSDS/R/KF.R | 1
KFKSDS-1.6/KFKSDS/inst/tests/DS-derivatives.R | 10 +--
KFKSDS-1.6/KFKSDS/inst/tests/KF-deriv-xreg.R | 10 +--
KFKSDS-1.6/KFKSDS/inst/tests/KF-derivatives.R | 10 +--
KFKSDS-1.6/KFKSDS/inst/tests/KS-derivatives.R | 10 +--
KFKSDS-1.6/KFKSDS/man/DS.Rd | 10 +--
KFKSDS-1.6/KFKSDS/man/KF-interfaces.Rd | 21 ++----
KFKSDS-1.6/KFKSDS/man/KF.Rd | 14 ++--
KFKSDS-1.6/KFKSDS/man/KFKSDS-package.Rd | 6 +
KFKSDS-1.6/KFKSDS/man/KFKSDS.Rd | 6 -
KFKSDS-1.6/KFKSDS/man/KS.Rd | 10 +--
KFKSDS-1.6/KFKSDS/man/predict-stsmSS.Rd | 13 ++-
17 files changed, 130 insertions(+), 120 deletions(-)
Title: Association Between Methylation and a Phenotype of Interest
Diff between CpGassoc versions 2.11 dated 2014-01-10 and 2.50 dated 2015-01-28
Description: Is designed to test for association between methylation at CpG sites across the genome and a phenotype of interest,
adjusting for any relevant covariates. The package can perform standard analyses of large datasets very quickly with no
need to impute the data. It can also handle mixed effects models with chip or batch entering the model as a random intercept.
Also includes tools to apply quality control filters, perform permutation tests, and create QQ plots, manhattan plots,
and scatterplots for individual CpG sites.
Author: Barfield, R., Conneely, K., Kilaru,V
Maintainer: R Barfield
DESCRIPTION | 16 ++---
MD5 | 35 ++++++-----
NAMESPACE | 1
R/cpg.GC.R | 10 ++-
R/cpg.combine.R | 9 +-
R/cpg.perm.R | 4 -
R/cpg.qc.R | 144 ++++++++++++++++++++---------------------------
R/cpg.work.R | 9 +-
R/manhattan.R | 16 +++--
R/manhattan.reflect.R |only
R/plot.cpg.R | 9 +-
R/plot.cpg.perm.R | 9 +-
build |only
data/annotation.rda |binary
data/samplecpg.rda |binary
data/samplepheno.rda |binary
inst/doc/CpGassoc.pdf |binary
man/CpGassoc-package.Rd | 10 +--
man/manhattan.Rd | 6 +
man/manhattan.reflect.Rd |only
20 files changed, 147 insertions(+), 131 deletions(-)
Title: Efficient Bayesian Inference for Stochastic Volatility (SV)
Models
Diff between stochvol versions 0.9-1 dated 2014-12-27 and 1.0.0 dated 2015-01-28
Description: Efficient algorithms for fully Bayesian estimation of stochastic volatility (SV) models via Markov chain Monte Carlo (MCMC) methods.
Author: Gregor Kastner [aut, cre]
Maintainer: Gregor Kastner
DESCRIPTION | 8 -
MD5 | 28 +++---
NEWS | 11 ++
R/utilities_svdraws.R | 2
build/vignette.rds |binary
inst/CITATION | 19 +++-
inst/doc/article.R | 159 +++++++++++++++-------------------
inst/doc/article.Rnw | 220 ++++++++++++++++++++++++------------------------
inst/doc/article.pdf |binary
man/stochvol-package.Rd | 2
man/svsample.Rd | 4
man/svsample2.Rd | 6 -
man/svsim.Rd | 4
vignettes/article.Rnw | 220 ++++++++++++++++++++++++------------------------
vignettes/mybib.bib | 15 ++-
15 files changed, 361 insertions(+), 337 deletions(-)
Title: Kernel Estimator and Bandwidth Selection for Density and its
Derivatives
Diff between kedd versions 1.0.1 dated 2014-08-18 and 1.0.2 dated 2015-01-28
Description: Smoothing techniques and computing bandwidth selectors of the nth derivative of a probability density for one-dimensional data.
Author: Arsalane Chouaib Guidoum
Maintainer: Arsalane Chouaib Guidoum
DESCRIPTION | 10 ++---
MD5 | 44 ++++++++++++------------
NEWS | 2 +
R/AMISE.R | 4 +-
R/BCV.R | 4 +-
R/CCV.R | 4 +-
R/MCV.R | 4 +-
R/MLCV.R | 4 +-
R/TCV.R | 4 +-
R/UCV.R | 4 +-
R/dkde.R | 4 +-
R/kernel.R | 4 +-
R/utils.R | 4 +-
build/vignette.rds |binary
inst/CITATION | 11 ++----
inst/doc/intro.Rnw | 6 +--
inst/doc/intro.pdf |binary
inst/doc/kedd.R | 94 ++++++++++++++++++++++++++--------------------------
inst/doc/kedd.Rnw | 26 +++++++-------
inst/doc/kedd.pdf |binary
man/kedd-package.Rd | 4 +-
vignettes/intro.Rnw | 6 +--
vignettes/kedd.Rnw | 26 +++++++-------
23 files changed, 135 insertions(+), 134 deletions(-)
Title: Statistical Inference of Vine Copulas
Diff between VineCopula versions 1.3 dated 2014-04-22 and 1.4 dated 2015-01-28
Description: Tools for bivariate exploratory data analysis, bivariate copula selection and (vine) tree construction are provided. Vine copula models can be estimated either sequentially or by joint maximum likelihood estimation. Sampling algorithms and plotting methods are included. Data is assumed to lie in the unit hypercube (so-called copula data). For C- and D-vines links to the package CDVine are provided.
Author: Ulf Schepsmeier, Jakob Stoeber, Eike Christian Brechmann, Benedikt Graeler
Maintainer: Tobias Erhardt
DESCRIPTION | 16
MD5 | 162 +-
NAMESPACE | 6
R/BiCopCDF.r | 118 -
R/BiCopChiPlot.r | 14
R/BiCopEst.r | 1504 +++++++++----------
R/BiCopMetaContour.r | 93 -
R/BiCopPar2Tau.r | 449 +++--
R/BiCopSelect.r | 351 ++--
R/BiCopTau2Par.r | 56
R/RVineStructureSelect.r | 968 ++++++------
R/gof_PIT.r | 9
R/gof_White.r | 4
inst/ChangeLog | 38
man/BB1Copula-class.Rd | 150 -
man/BB1Copula.Rd | 10
man/BB6Copula.Rd | 12
man/BB7Copula.Rd | 12
man/BB8Copula.Rd | 12
man/BetaMatrix.Rd | 86 -
man/BiCopCDF.Rd | 16
man/BiCopChiPlot.Rd | 30
man/BiCopDeriv.Rd | 12
man/BiCopDeriv2.Rd | 12
man/BiCopEst.Rd | 45
man/BiCopGofTest.Rd | 27
man/BiCopHfunc.Rd | 11
man/BiCopHfuncDeriv.Rd | 14
man/BiCopHfuncDeriv2.Rd | 14
man/BiCopIndTest.Rd | 20
man/BiCopKPlot.Rd | 31
man/BiCopLambda.Rd | 52
man/BiCopMetaContour.Rd | 47
man/BiCopName.Rd | 8
man/BiCopPDF.Rd | 14
man/BiCopPar2Beta.Rd | 6
man/BiCopPar2TailDep.Rd | 8
man/BiCopPar2Tau.Rd | 141 +
man/BiCopSelect.Rd | 36
man/BiCopSim.Rd | 6
man/BiCopTau2Par.Rd | 74
man/BiCopVuongClarke.Rd | 15
man/C2RVine.Rd | 26
man/D2RVine.Rd | 26
man/RVineAICBIC.Rd | 44
man/RVineClarkeTest.Rd | 18
man/RVineCopSelect.Rd | 43
man/RVineCor2pcor.Rd | 49
man/RVineGofTest.Rd | 69
man/RVineGrad.Rd | 45
man/RVineHessian.Rd | 42
man/RVineLogLik.Rd | 69
man/RVineMLE.Rd | 50
man/RVineMatrix.Rd | 46
man/RVineMatrixNormalize.Rd | 30
man/RVinePIT.Rd | 19
man/RVinePar2Beta.Rd | 36
man/RVinePar2Tau.Rd | 114 -
man/RVineSeqEst.Rd | 49
man/RVineSim.Rd | 133 -
man/RVineStdError.rd | 42
man/RVineStructureSelect.Rd | 31
man/RVineTreePlot.Rd | 53
man/RVineVuongTest.Rd | 10
man/RvineMatrixCheck.Rd | 44
man/TauMatrix.Rd | 8
man/VineCopula-package.Rd | 27
man/copulaFromFamilyIndex.Rd | 6
man/dduCopula.Rd | 8
man/joeBiCopula.Rd | 8
man/pobs.Rd |only
man/surClaytonCopula.Rd | 11
man/surGumbelCopula.Rd | 11
man/tawnT1Copula.Rd | 10
man/tawnT2Copula.Rd | 10
man/vineCopula.Rd | 8
src/gof.c | 38
src/hfunc.c | 86 -
src/incompleteBeta.c | 8
tests/Examples/VineCopula-Ex.Rout.save | 2444 +++++++++++++++++++++----------
tests/TRUEadditonalExampleRuns.Rout.save |only
tests/additonalExampleRuns.R | 229 +-
tests/additonalExampleRuns.Rout.save | 235 +-
83 files changed, 5149 insertions(+), 3795 deletions(-)
Title: C++ Classes to Embed R in C++ Applications
Diff between RInside versions 0.2.11 dated 2014-02-12 and 0.2.12 dated 2015-01-28
Description: C++ classes to embed R in C++ applications
The RInside packages makes it easier to have 'R inside' your C++ application
by providing a C++ wrapper class providing the R interpreter.
As R itself is embedded into your application, a shared library build of R
is required. This works on Linux, OS X and even on Windows provided you use
the same tools used to build R itself.
Numerous examples are provided in the eight subdirectories of the examples/
directory of the installed package: standard, mpi (for parallel computing)
qt (showing how to embed RInside inside a Qt GUI application), wt (showing
how to build a 'web-application' using the Wt toolkit), armadillo (for
RInside use with RcppArmadillo) and eigen (for RInside use with RcppEigen).
The example use GNUmakefile(s) with GNU extensions, so a GNU make is required
(and will use the GNUmakefile automatically).
Doxygen-generated documentation of the C++ classes is available at the
RInside website as well.
Author: Dirk Eddelbuettel and Romain Francois
Maintainer: Dirk Eddelbuettel
RInside-0.2.11/RInside/inst/examples/armadillo/Makefile |only
RInside-0.2.11/RInside/inst/examples/eigen/Makefile |only
RInside-0.2.11/RInside/inst/examples/mpi/Makefile |only
RInside-0.2.11/RInside/inst/examples/standard/Makefile |only
RInside-0.2.11/RInside/inst/examples/threads/Makefile |only
RInside-0.2.11/RInside/inst/examples/wt/Makefile |only
RInside-0.2.12/RInside/ChangeLog | 58 ++++++++++
RInside-0.2.12/RInside/DESCRIPTION | 14 +-
RInside-0.2.12/RInside/MD5 | 54 ++++++---
RInside-0.2.12/RInside/inst/NEWS.Rd | 26 ++++
RInside-0.2.12/RInside/inst/examples/armadillo/GNUmakefile |only
RInside-0.2.12/RInside/inst/examples/eigen/GNUmakefile |only
RInside-0.2.12/RInside/inst/examples/mpi/GNUmakefile |only
RInside-0.2.12/RInside/inst/examples/sandboxed_server |only
RInside-0.2.12/RInside/inst/examples/standard/GNUmakefile |only
RInside-0.2.12/RInside/inst/examples/standard/rinside_callbacks1.cpp |only
RInside-0.2.12/RInside/inst/examples/standard/rinside_module_sample0.cpp | 10 -
RInside-0.2.12/RInside/inst/examples/standard/rinside_sample15.cpp |only
RInside-0.2.12/RInside/inst/examples/standard/rinside_sample16.cpp |only
RInside-0.2.12/RInside/inst/examples/standard/rinside_sample17.cpp |only
RInside-0.2.12/RInside/inst/examples/standard/rinside_sample9.cpp | 13 --
RInside-0.2.12/RInside/inst/examples/threads/GNUmakefile |only
RInside-0.2.12/RInside/inst/examples/wt/GNUmakefile |only
RInside-0.2.12/RInside/src/Makevars | 2
RInside-0.2.12/RInside/src/Makevars.win | 4
RInside-0.2.12/RInside/src/RInside.cpp | 4
26 files changed, 145 insertions(+), 40 deletions(-)
Title: Multivariate Normality Tests
Diff between MVN versions 3.7 dated 2014-11-16 and 3.8 dated 2015-01-28
Description: Performs multivariate normality tests and graphical approaches and implements multivariate outlier detection and univariate normality of marginal distributions through plots and tests.
Author: Selcuk Korkmaz [aut, cre], Dincer Goksuluk [aut], Gokmen Zararsiz [aut]
Maintainer: Selcuk Korkmaz
DESCRIPTION | 16 -
MD5 | 28 +-
NAMESPACE | 2
R/classes.R | 16 -
R/uniNorm.R | 70 ++++--
R/uniPlot.R | 10
build/vignette.rds |binary
inst/CITATION |only
inst/doc/MVN.R | 214 +++++++++----------
inst/doc/MVN.Rnw | 572 ++++++++++++++++++++++++++++++++++++-----------------
inst/doc/MVN.pdf |binary
man/MVN-package.Rd | 2
man/uniNorm.Rd | 6
man/uniPlot.Rd | 2
vignettes/MVN.Rnw | 572 ++++++++++++++++++++++++++++++++++++-----------------
vignettes/MVN.bib |only
16 files changed, 982 insertions(+), 528 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-29 1.0.5
2014-07-28 1.0.2
2013-12-10 1.0.1
2013-09-25 1.0.0
Title: Maximin-Distance (Sliced) Latin Hypercube Designs
Diff between SLHD versions 1.2-1 dated 2013-05-14 and 2.1-1 dated 2015-01-28
Description: Generate the optimal Latin Hypercube Designs (LHDs) for computer experiments with quantitative factors and the optimal Sliced Latin Hypercube Designs (SLHDs) for computer experiments with both quantitative and qualitative factors. Details of the algorithm can be found in Ba, S., Brenneman, W. A. and Myers, W. R. (2015), "Optimal Sliced Latin Hypercube Designs," Technometrics. Important function in this package is "maximinSLHD".
Author: Shan Ba
Maintainer: Shan Ba
DESCRIPTION | 16 ++-----
MD5 | 12 ++---
NAMESPACE | 2
R/maximinSLHD.R | 19 +++-----
man/SLHD-package.Rd | 8 +--
man/maximinSLHD.Rd | 24 +++++------
src/SLHD.cpp | 112 +++++++++++++++++++++++-----------------------------
7 files changed, 85 insertions(+), 108 deletions(-)
Title: R-values for Ranking in High-Dimensional Settings
Diff between rvalues versions 0.2 dated 2014-07-24 and 0.3 dated 2015-01-28
Description: A collection of functions for computing "r-values" from various kinds of user input such as MCMC output or a list of effect size estimates and associated standard errors. Given a large collection of measurement units, the r-value, r, of a particular unit is a reported percentile that may be interpreted as the smallest percentile at which the unit should be placed in the top r-fraction of units.
Author: Nicholas Henderson and Michael Newton
Maintainer: Nicholas Henderson
DESCRIPTION | 14 +++++-----
MD5 | 34 ++++++++++++++------------
NAMESPACE | 1
R/HyperEstimate.R | 42 ++++++++++++++++++++++++++++++--
R/ThetaQuantiles.R | 10 ++++---
R/TopList.R | 30 +++++++----------------
R/Vplot.R |only
R/agrid_fns.R | 63 ++++++++++++++++++++++++++++++++++++++++++++++--
R/mroot.R |only
R/rvalueGuts.R | 69 +++++++++++++++++++++++++++++++----------------------
R/rvalues.R | 8 ++++++
R/rvaluesMCMC.R | 2 -
man/MakeGrid.Rd | 4 +--
man/TopList.Rd | 4 +--
man/Valpha.Rd | 2 -
man/bcwest.Rd | 1
man/hiv.Rd | 3 --
man/mroot.Rd |only
man/npmixapply.Rd | 6 +++-
src/zeroin.c |only
20 files changed, 203 insertions(+), 90 deletions(-)
Title: Simulation and Analysis of Random Fields
Diff between RandomFields versions 3.0.59 dated 2015-01-27 and 3.0.60 dated 2015-01-28
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging; maximum likelihood estimation
Author: Martin Schlather [aut, cre], Alexander Malinowski [aut], Marco Oesting [aut], Daphne Boecker [aut], Kirstin Strokorb [aut], Sebastian Engelke [aut], Johannes Martini [aut], Felix Ballani [aut], Peter Menck [ctr], Sebastian Gross [ctr], Ulrike Ober [ctb], Katharina Burmeister [ctb], Juliane Manitz [ctb], Paulo Ribeiro [ctb], Richard Singleton [ctb], Ben Pfaff [ctb], R Core Team [ctb]
Maintainer: Martin Schlather
DESCRIPTION | 6 +-
MD5 | 74 ++++++++++++-------------
R/Crossvalidation.R | 10 ++-
R/Methods-aux.R | 3 -
R/RMmodelsSpecial.R | 8 +-
R/basic.fctns.R | 6 +-
R/fitgauss.R | 2
R/kriging.R | 15 ++---
man/CoordinateSystems.Rd | 6 --
man/RFgetModelNames.Rd | 2
man/RMtrend.Rd | 23 ++++++-
src/Coordinate_systems.cc | 136 +++++++++++++++++++++++-----------------------
src/Coordinate_systems.h | 68 +++++++++++------------
src/Gneiting.cc | 10 +--
src/Huetchen.cc | 18 +++---
src/InternalCov.cc | 4 -
src/KeyInfo.cc | 6 +-
src/Operator.h | 16 ++---
src/Primitive.cc | 78 +++++++++++++-------------
src/RF.h | 12 ++--
src/auxiliary.cc | 14 ++--
src/auxiliary.h | 2
src/basic.h | 4 -
src/circulant.cc | 8 +-
src/extremes.cc | 18 +++---
src/families.cc | 4 -
src/fft.cc | 8 +-
src/getNset.cc | 44 ++++++++------
src/initNerror.cc | 12 ++--
src/kriging.cc | 97 ++++++++++++++++++--------------
src/operator.cc | 34 +++++------
src/plusmalS.cc | 86 +++++++++++++++--------------
src/primitive.h | 28 ++++-----
src/rf_interfaces.cc | 11 +--
src/shape_processes.h | 30 +++++-----
src/startGetNset.cc | 4 -
src/variogramAndCo.cc | 55 +++++++++++-------
src/variogramAndCo.h | 2
38 files changed, 506 insertions(+), 458 deletions(-)
Title: Number-theoretic Functions
Diff between numbers versions 0.4-5 dated 2014-01-08 and 0.5-2 dated 2015-01-28
Description:
Provides some number-theoretic functions for R.
Author: Hans Werner Borchers
Maintainer: Hans W. Borchers
DESCRIPTION | 12 ++++----
MD5 | 26 ++++++++++--------
NAMESPACE | 2 +
NEWS | 37 ++++++++++++++++++++------
R/agm.R | 21 ++++++++-------
R/egyptian.R | 19 +++++++++----
R/fibonacci.R | 41 +++++++++++++++++++----------
R/ordpn.R |only
R/qresidues.R | 2 -
R/rabin.R |only
man/agm.Rd | 18 +++++--------
man/egyptian_complete.Rd | 12 +++++---
man/fibonacci.Rd | 65 ++++++++++++++++++++++++++++-------------------
man/ordpn.Rd |only
man/rabin.Rd |only
man/zeck.Rd | 4 +-
16 files changed, 162 insertions(+), 97 deletions(-)
Title: Visualization and Analysis Tools for Neural Networks
Diff between NeuralNetTools versions 1.0.0 dated 2014-12-16 and 1.0.1 dated 2015-01-28
More information about NeuralNetTools at CRAN
Description: Visualization and analysis tools to aid in the interpretation of
neural network models. Functions are available for plotting,
quantifying variable importance, conducting a sensitivity analysis, and
obtaining a simple list of model weights.
Author: Marcus W. Beck [aut, cre]
Maintainer: Marcus W. Beck
DESCRIPTION | 10 +++++-----
MD5 | 26 +++++++++++++-------------
NAMESPACE | 38 +++++++++++++++++++-------------------
R/NeuralNetTools_gar.R | 22 +++++++++++-----------
R/NeuralNetTools_lek.R | 18 +++++++++++-------
R/NeuralNetTools_plot.R | 46 +++++++++++++++++++++++-----------------------
R/NeuralNetTools_utils.R | 18 ++++++++++--------
README.md | 2 +-
man/garson.Rd | 3 ++-
man/lekprofile.Rd | 3 ++-
man/neuraldat.Rd | 3 ++-
man/neuralweights.Rd | 3 ++-
man/plotnet.Rd | 3 ++-
man/pred_sens.Rd | 3 ++-
14 files changed, 105 insertions(+), 93 deletions(-)
Permanent link
Title: Visualisation of Sequential Probability Distributions Using Fan
Charts
Diff between fanplot versions 3.3 dated 2014-08-01 and 3.4.0 dated 2015-01-28
Description: Visualise sequential distributions using a range of plotting
styles. Sequential distribution data can be input as either simulations or
values corresponding to percentiles over time. Plots are added to
existing graphic devices using the fan function. Users can choose from four
different styles, including fan chart type plots, where a set of coloured
polygon, with shadings corresponding to the percentile values are layered
to represent different uncertainty levels.
Author: Guy J. Abel
Maintainer: "Guy J. Abel"
fanplot-3.3/fanplot/R/fan.fill.R |only
fanplot-3.3/fanplot/R/fan.txt.R |only
fanplot-3.3/fanplot/R/fanplot-internal.R |only
fanplot-3.3/fanplot/R/head.pn.R |only
fanplot-3.3/fanplot/R/pn.R |only
fanplot-3.3/fanplot/data/boe.rda |only
fanplot-3.3/fanplot/data/cpi.rda |only
fanplot-3.3/fanplot/data/ips.rda |only
fanplot-3.3/fanplot/data/th.mcmc.rda |only
fanplot-3.3/fanplot/inst/model/my1.txt |only
fanplot-3.3/fanplot/man/fan.fill.Rd |only
fanplot-3.3/fanplot/man/fan.txt.Rd |only
fanplot-3.3/fanplot/man/fan0.Rd |only
fanplot-3.3/fanplot/man/fanplot-package.Rd |only
fanplot-3.3/fanplot/man/head.pn.Rd |only
fanplot-3.3/fanplot/man/pn.Rd |only
fanplot-3.4.0/fanplot/DESCRIPTION | 24 -
fanplot-3.4.0/fanplot/MD5 | 53 --
fanplot-3.4.0/fanplot/R/dsplitnorm.R | 16
fanplot-3.4.0/fanplot/R/fan.R | 550 ++++++++++++--------------
fanplot-3.4.0/fanplot/R/fan0.R | 68 +--
fanplot-3.4.0/fanplot/R/psplitnorm.R | 16
fanplot-3.4.0/fanplot/R/qsplitnorm.R | 14
fanplot-3.4.0/fanplot/R/rsplitnorm.R | 10
fanplot-3.4.0/fanplot/data/boe.RData |only
fanplot-3.4.0/fanplot/data/cpi.RData |only
fanplot-3.4.0/fanplot/data/datalist | 2
fanplot-3.4.0/fanplot/data/ips.RData |only
fanplot-3.4.0/fanplot/data/thmcmc.RData |only
fanplot-3.4.0/fanplot/demo/net_elicit.R | 6
fanplot-3.4.0/fanplot/demo/sv_fan.R | 2
fanplot-3.4.0/fanplot/inst/model/my1.R |only
fanplot-3.4.0/fanplot/inst/netelicit/server.R | 120 +----
fanplot-3.4.0/fanplot/inst/netelicit/ui.R | 25 -
fanplot-3.4.0/fanplot/man/boe.Rd | 8
fanplot-3.4.0/fanplot/man/dsplitnorm.Rd | 30 -
fanplot-3.4.0/fanplot/man/fan.Rd | 91 +++-
fanplot-3.4.0/fanplot/man/th.mcmc.Rd | 6
38 files changed, 496 insertions(+), 545 deletions(-)