Fri, 20 Feb 2015

Package clusthaplo (with last version 1.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2013-07-05 1.2
2013-03-19 1.1
2012-11-06 1.0

Permanent link
Package synthpop updated to version 1.1-0 with previous version 1.0-0 dated 2014-08-18

Title: Generating Synthetic Versions of Sensitive Microdata for Statistical Disclosure Control
Description: A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data.
Author: Beata Nowok, Gillian M Raab and Chris Dibben
Maintainer: Beata Nowok

Diff between synthpop versions 1.0-0 dated 2014-08-18 and 1.1-0 dated 2015-02-20

 synthpop-1.0-0/synthpop/vignettes/Zcompare.pdf      |only
 synthpop-1.0-0/synthpop/vignettes/income.pdf        |only
 synthpop-1.0-0/synthpop/vignettes/incomeNA.pdf      |only
 synthpop-1.0-0/synthpop/vignettes/ls.pdf            |only
 synthpop-1.1-0/synthpop/DESCRIPTION                 |   18 
 synthpop-1.1-0/synthpop/MD5                         |   72 +--
 synthpop-1.1-0/synthpop/NAMESPACE                   |   20 
 synthpop-1.1-0/synthpop/NEWS                        |only
 synthpop-1.1-0/synthpop/R/IO.r                      |only
 synthpop-1.1-0/synthpop/R/compare.syn.r             |  438 +++++++++-----------
 synthpop-1.1-0/synthpop/R/functions.syn.r           |   25 -
 synthpop-1.1-0/synthpop/R/methods.syn.r             |   78 ++-
 synthpop-1.1-0/synthpop/R/padMis.syn.r              |   47 +-
 synthpop-1.1-0/synthpop/R/padModel.syn.r            |   60 +-
 synthpop-1.1-0/synthpop/R/sampler.syn.r             |   30 -
 synthpop-1.1-0/synthpop/R/syn.r                     |  296 +++++++------
 synthpop-1.1-0/synthpop/build/vignette.rds          |binary
 synthpop-1.1-0/synthpop/inst/doc/synthpop.R         |  157 +++----
 synthpop-1.1-0/synthpop/inst/doc/synthpop.Rnw       |  238 +++++-----
 synthpop-1.1-0/synthpop/inst/doc/synthpop.pdf       |binary
 synthpop-1.1-0/synthpop/man/compare.fit.synds.Rd    |   71 ++-
 synthpop-1.1-0/synthpop/man/compare.synds.Rd        |   34 +
 synthpop-1.1-0/synthpop/man/glm.synds.Rd            |   28 -
 synthpop-1.1-0/synthpop/man/read.obs.Rd             |only
 synthpop-1.1-0/synthpop/man/replicated.uniques.Rd   |only
 synthpop-1.1-0/synthpop/man/sdc.Rd                  |only
 synthpop-1.1-0/synthpop/man/summary.fit.synds.Rd    |   62 +-
 synthpop-1.1-0/synthpop/man/summary.synds.Rd        |    4 
 synthpop-1.1-0/synthpop/man/syn.Rd                  |  183 ++++----
 synthpop-1.1-0/synthpop/man/syn.cart.Rd             |    1 
 synthpop-1.1-0/synthpop/man/syn.lognorm.Rd          |only
 synthpop-1.1-0/synthpop/man/syn.norm.Rd             |    6 
 synthpop-1.1-0/synthpop/man/syn.normrank.Rd         |    4 
 synthpop-1.1-0/synthpop/man/syn.pmm.Rd              |    2 
 synthpop-1.1-0/synthpop/man/syn.polr.Rd             |    4 
 synthpop-1.1-0/synthpop/man/syn.sample.Rd           |    2 
 synthpop-1.1-0/synthpop/man/syn.surv.ctree.Rd       |    2 
 synthpop-1.1-0/synthpop/man/synthpop-package.Rd     |   20 
 synthpop-1.1-0/synthpop/man/write.syn.Rd            |only
 synthpop-1.1-0/synthpop/vignettes/Figure1ls.pdf     |only
 synthpop-1.1-0/synthpop/vignettes/Figure2income.pdf |only
 synthpop-1.1-0/synthpop/vignettes/Figure3Z.pdf      |only
 synthpop-1.1-0/synthpop/vignettes/synthpop.Rnw      |  238 +++++-----
 synthpop-1.1-0/synthpop/vignettes/synthpop.bib      |  435 +++++++++++++------
 44 files changed, 1425 insertions(+), 1150 deletions(-)

More information about synthpop at CRAN
Permanent link

Package soilDB updated to version 1.5 with previous version 1.3-2 dated 2014-04-30

Title: Soil Database Interface
Description: A collection of functions for reading data from USDA-NCSS soil databases.
Author: D.E. Beaudette and J.M. Skovlin
Maintainer: D.E. Beaudette

Diff between soilDB versions 1.3-2 dated 2014-04-30 and 1.5 dated 2015-02-20

 DESCRIPTION                            |   19 ++---
 MD5                                    |   95 ++++++++++++++--------------
 NAMESPACE                              |   28 ++++++--
 NEWS                                   |   28 +++++++-
 R/MUKEYS_by_ll_bbox.R                  |    9 +-
 R/SDA_query.R                          |   14 ++--
 R/SSURGO_spatial_query.R               |only
 R/fetchHenry.R                         |only
 R/fetchKSSL.R                          |    4 -
 R/fetchNASIS.R                         |   85 +++++++++++++++++++------
 R/fetchNASISLabData.R                  |    7 +-
 R/fetchOSD.R                           |    3 
 R/fetchPedonPC.R                       |   11 +++
 R/fetchRaCA.R                          |   14 ++--
 R/fetchSCAN.R                          |    3 
 R/get_colors_from_NASIS_db.R           |   44 ++++++++-----
 R/get_colors_from_pedon_db.R           |   10 ++-
 R/get_extended_data_from_NASIS_db.R    |   86 ++++++++++++++------------
 R/get_extended_data_from_pedon_db.R    |   20 +++---
 R/get_hz_data_from_NASIS_db.R          |   12 ++-
 R/get_hz_data_from_pedon_db.R          |   12 ++-
 R/get_lablayer_data_from_NASIS_db.R    |   11 ++-
 R/get_labpedon_data_from_NASIS_db.R    |   11 ++-
 R/get_site_data_from_NASIS_db.R        |   12 ++-
 R/get_site_data_from_pedon_db.R        |   11 ++-
 R/get_text_notes_from_NASIS_db.R       |   19 +++--
 R/get_veg_from_AK_Site.R               |   10 ++-
 R/get_veg_from_MT_veg_db.R             |    9 +-
 R/get_veg_from_NPS_PLOTS_db.R          |   11 ++-
 R/get_veg_other_from_MT_veg_db.R       |   10 ++-
 R/get_veg_species_from_MT_veg_db.R     |   11 ++-
 R/mapunit_geom_by_ll_bbox.R            |   11 +--
 R/mix_and_clean_colors.R               |   54 +++++++++-------
 R/nasis_component_data.R               |   37 +++++++----
 R/seriesExtent.R                       |   61 +++++++++---------
 R/utils.R                              |  109 ++++++++++++++++++++++++++++++++-
 data/andic.subset.rda                  |binary
 data/cisne.rda                         |binary
 data/gSSURGO.chunk.rda                 |binary
 data/gopheridge.rda                    |binary
 data/loafercreek.rda                   |binary
 man/MUKEYS_by_ll_bbox.Rd               |    6 -
 man/SSURGO_spatial_query.Rd            |only
 man/fetchNASIS.Rd                      |    4 -
 man/fetchOSD.Rd                        |    2 
 man/fetchRaCA.Rd                       |    7 +-
 man/fetchSCAN.Rd                       |    1 
 man/gSSURGO.chunk.Rd                   |    2 
 man/get_extended_data_from_pedon_db.Rd |    2 
 man/seriesExtent.Rd                    |    6 -
 50 files changed, 615 insertions(+), 306 deletions(-)

More information about soilDB at CRAN
Permanent link

Package pacman updated to version 0.3.0 with previous version 0.2.0 dated 2015-02-15

Title: Package Management Tool
Description: Tools to more conveniently perform tasks associated with add-on packages. pacman conveniently wraps library and package related functions and names them in an intuitive and consistent fashion. It seeks to combine functionality from lower level functions which can speed up workflow.
Author: Tyler Rinker [aut, cre, ctb], Dason Kurkiewicz [aut, ctb]
Maintainer: Tyler Rinker

Diff between pacman versions 0.2.0 dated 2015-02-15 and 0.3.0 dated 2015-02-20

 DESCRIPTION                          |   10 +++++-----
 MD5                                  |   10 +++++-----
 NEWS                                 |   12 ++++++++++++
 README.md                            |    2 +-
 inst/CITATION                        |    4 ++--
 inst/doc/Introduction_to_pacman.html |   16 ++++++++--------
 6 files changed, 33 insertions(+), 21 deletions(-)

More information about pacman at CRAN
Permanent link

Package lmeNBBayes updated to version 1.3.1 with previous version 1.3 dated 2015-01-20

Title: Compute the Personalized Activity Index Based on a Flexible Bayesian Negative Binomial Model
Description: The functions in this package implement the safety monitoring procedures proposed in the paper titled "A flexible mixed effect negative binomial regression model for detecting unusual increases in MRI lesion counts in individual multiple sclerosis patients" by Kondo, Y., Zhao, Y. and Petkau, A.J. The procedure first models longitudinally collected count variables with a negative binomial mixed-effect regression model. To account for the correlation among repeated measures from the same patient, the model has subject-specific random intercept, which is modelled with the infinite mixture of Beta distributions, very flexible distribution that theoretically allows any form. The package also has the option of a single beta distribution for random effects. These mixed-effect models could be useful beyond the application of the safety monitoring. The inference is based on MCMC samples and this package contains a Gibbs sampler to sample from the posterior distribution of the negative binomial mixed-effect regression model. Based on the fitted model, the personalized activity index is computed for each patient. Lastly, this package is companion to R package lmeNB, which contains the functions to compute the Personalized Activity Index in the frequentist framework.
Author: Yumi Kondo
Maintainer: Yumi Kondo

Diff between lmeNBBayes versions 1.3 dated 2015-01-20 and 1.3.1 dated 2015-02-20

 DESCRIPTION              |   12 ++++++------
 MD5                      |   16 ++++++++--------
 NAMESPACE                |    7 +++++++
 R/nbinDPmix_C.R          |    2 +-
 man/dqmix.Rd             |    3 +--
 man/getDIC.Rd            |    5 ++---
 man/getS.StatInMed.Rd    |    3 +--
 man/index_batch_Bayes.Rd |    3 +--
 man/lmeNBBayes.Rd        |    3 +--
 9 files changed, 28 insertions(+), 26 deletions(-)

More information about lmeNBBayes at CRAN
Permanent link

Package dataRetrieval updated to version 2.1.2 with previous version 2.1.1 dated 2015-01-30

Title: Retrieval Functions for USGS and EPA Hydrologic and Water Quality Data
Description: Collection of functions to help retrieve U.S. Geological Survey (USGS) and U.S. Environmental Protection Agency (EPA) water quality and hydrology data from web services. USGS web services are discovered from the National Water Information System (NWIS) tools. Both EPA and USGS water quality data are obtained from the Water Quality Portal.
Author: Robert Hirsch [aut], Laura DeCicco [aut, cre], David Lorenz [aut]
Maintainer: Laura DeCicco

Diff between dataRetrieval versions 2.1.1 dated 2015-01-30 and 2.1.2 dated 2015-02-20

 dataRetrieval-2.1.1/dataRetrieval/inst/tests                                    |only
 dataRetrieval-2.1.2/dataRetrieval/DESCRIPTION                                   |   13 
 dataRetrieval-2.1.2/dataRetrieval/MD5                                           |   75 +-
 dataRetrieval-2.1.2/dataRetrieval/NAMESPACE                                     |    2 
 dataRetrieval-2.1.2/dataRetrieval/NEWS                                          |    1 
 dataRetrieval-2.1.2/dataRetrieval/R/getWebServiceData.R                         |    2 
 dataRetrieval-2.1.2/dataRetrieval/R/importWQP.R                                 |   22 
 dataRetrieval-2.1.2/dataRetrieval/R/importWaterML1.r                            |    3 
 dataRetrieval-2.1.2/dataRetrieval/R/readNWISdata.r                              |   45 +
 dataRetrieval-2.1.2/dataRetrieval/R/readNWISdv.r                                |    5 
 dataRetrieval-2.1.2/dataRetrieval/R/readNWISpCode.r                             |    4 
 dataRetrieval-2.1.2/dataRetrieval/R/readNWISqw.r                                |  103 ++-
 dataRetrieval-2.1.2/dataRetrieval/R/readNWISunit.r                              |   10 
 dataRetrieval-2.1.2/dataRetrieval/R/readWQPdata.R                               |    3 
 dataRetrieval-2.1.2/dataRetrieval/R/renameColumns.R                             |    2 
 dataRetrieval-2.1.2/dataRetrieval/R/tabbedDataRetrievals.R                      |   58 ++
 dataRetrieval-2.1.2/dataRetrieval/R/whatNWISsites.R                             |    5 
 dataRetrieval-2.1.2/dataRetrieval/inst/doc/dataRetrieval.R                      |  274 ++++------
 dataRetrieval-2.1.2/dataRetrieval/inst/doc/dataRetrieval.Rnw                    |  110 +---
 dataRetrieval-2.1.2/dataRetrieval/inst/doc/dataRetrieval.pdf                    |binary
 dataRetrieval-2.1.2/dataRetrieval/inst/extdata/temperatureAndFlow.RData         |only
 dataRetrieval-2.1.2/dataRetrieval/man/dataRetrieval-package.Rd                  |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/pCodeToName.Rd                            |only
 dataRetrieval-2.1.2/dataRetrieval/man/parameterCdFile.Rd                        |only
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISdata.Rd                           |   10 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISdv.Rd                             |    5 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISgwl.Rd                            |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISmeas.Rd                           |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISpCode.Rd                          |    4 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISpeak.Rd                           |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISqw.Rd                             |   36 +
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISrating.Rd                         |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/readNWISuv.Rd                             |    2 
 dataRetrieval-2.1.2/dataRetrieval/man/renameNWISColumns.Rd                      |    2 
 dataRetrieval-2.1.2/dataRetrieval/tests                                         |only
 dataRetrieval-2.1.2/dataRetrieval/vignettes/dataRetrieval-concordance.tex       |   13 
 dataRetrieval-2.1.2/dataRetrieval/vignettes/dataRetrieval.Rnw                   |  110 +---
 dataRetrieval-2.1.2/dataRetrieval/vignettes/figure/getNWIStemperaturePlot-1.pdf |binary
 38 files changed, 526 insertions(+), 403 deletions(-)

More information about dataRetrieval at CRAN
Permanent link

Package RSurvey updated to version 0.8-3 with previous version 0.8-2 dated 2014-09-24

Title: Analysis of Spatially Distributed Data
Description: A processing program for spatially distributed data. It features graphing tools, query building, and polygon clipping. A graphical user interface is provided.
Author: Jason C. Fisher
Maintainer: Jason C. Fisher

Diff between RSurvey versions 0.8-2 dated 2014-09-24 and 0.8-3 dated 2015-02-20

 DESCRIPTION              |   14 +++---
 MD5                      |   82 ++++++++++++++++++-------------------
 NEWS                     |    7 +++
 R/BuildPackage.R         |    3 -
 R/Data.R                 |    2 
 R/LoadPackages.R         |  104 ++++++++++++++++++++++++++++++++---------------
 R/ManageVariables.R      |    5 +-
 R/SetSortOrder.R         |    4 -
 README.md                |   18 ++++----
 data/ex.project.RData    |binary
 man/Autocrop.Rd          |    2 
 man/AutocropRegion.Rd    |    2 
 man/BuildHistogram.Rd    |    2 
 man/ChooseColor.Rd       |    2 
 man/ChoosePch.Rd         |    2 
 man/EditData.Rd          |    2 
 man/EditFunction.Rd      |    2 
 man/EditText.Rd          |    2 
 man/ExportData.Rd        |    2 
 man/Format.Rd            |    2 
 man/FormatDateTime.Rd    |    2 
 man/GetBitmapImage.Rd    |    2 
 man/GetFile.Rd           |    2 
 man/ImportPackage.Rd     |    2 
 man/ImportSpreadsheet.Rd |    2 
 man/ImportText.Rd        |    2 
 man/LoadPackages.Rd      |    2 
 man/ManagePolygons.Rd    |    2 
 man/ManageVariables.Rd   |    2 
 man/OpenRSurvey.Rd       |    2 
 man/Plot3d.Rd            |    2 
 man/ProgressBar.Rd       |    2 
 man/RSurvey-package.Rd   |    2 
 man/Rename.Rd            |    2 
 man/Search.Rd            |    2 
 man/SetAxesLimits.Rd     |    2 
 man/SetConfiguration.Rd  |    2 
 man/SetInterpolation.Rd  |    2 
 man/SetPolygonLimits.Rd  |    2 
 man/SetSortOrder.Rd      |    2 
 man/ex.data.Rd           |    2 
 man/ex.project.Rd        |    2 
 42 files changed, 175 insertions(+), 128 deletions(-)

More information about RSurvey at CRAN
Permanent link

New package pullword with initial version 0.1
Package: pullword
Title: R Interface to Pullword Service
Description: R interface to pullword service for Natural Language Processing in Chinese. It enables users to extract valuable words from text by deep learning models. For more details please visit the official site (in Chinese) http://pullword.com/.
Version: 0.1
Author: Tong He
Maintainer: Tong He
BugReports: https://github.com/hetong007/pullword/issues
Depends: R (>= 3.0.2),RCurl
License: LGPL
LazyData: true
Packaged: 2015-02-20 21:59:24 UTC; hetongh
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-02-20 23:41:39

More information about pullword at CRAN
Permanent link

Package poweRlaw updated to version 0.30.0 with previous version 0.20.5 dated 2014-06-12

Title: Analysis of Heavy Tailed Distributions
Description: An implementation of maximum likelihood estimators for a variety of heavy tailed distributions, including both the discrete and continuous power law distributions. Additionally, a goodness-of-fit based approach is used to estimate the lower cut-off for the scaling region.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie

Diff between poweRlaw versions 0.20.5 dated 2014-06-12 and 0.30.0 dated 2015-02-20

 poweRlaw-0.20.5/poweRlaw/tests                               |only
 poweRlaw-0.20.5/poweRlaw/vignettes/plpva.r                   |only
 poweRlaw-0.30.0/poweRlaw/DESCRIPTION                         |   20 -
 poweRlaw-0.30.0/poweRlaw/MD5                                 |  134 +++++------
 poweRlaw-0.30.0/poweRlaw/NAMESPACE                           |    5 
 poweRlaw-0.30.0/poweRlaw/NEWS                                |   22 +
 poweRlaw-0.30.0/poweRlaw/R/AllGenerics.R                     |   30 +-
 poweRlaw-0.30.0/poweRlaw/R/bootstrap.R                       |   34 +-
 poweRlaw-0.30.0/poweRlaw/R/bootstrap_p.R                     |   38 +--
 poweRlaw-0.30.0/poweRlaw/R/checks.R                          |    6 
 poweRlaw-0.30.0/poweRlaw/R/data_help_files.R                 |   26 +-
 poweRlaw-0.30.0/poweRlaw/R/def_conexp.R                      |   48 +++
 poweRlaw-0.30.0/poweRlaw/R/def_conlorm.R                     |   49 +++-
 poweRlaw-0.30.0/poweRlaw/R/def_conpl.R                       |   32 +-
 poweRlaw-0.30.0/poweRlaw/R/def_disexp.R                      |   24 +
 poweRlaw-0.30.0/poweRlaw/R/def_dislnorm.R                    |   32 +-
 poweRlaw-0.30.0/poweRlaw/R/def_displ.R                       |   42 ++-
 poweRlaw-0.30.0/poweRlaw/R/def_dispois.R                     |   29 +-
 poweRlaw-0.30.0/poweRlaw/R/dist_data_cdf_methods.R           |   65 ++---
 poweRlaw-0.30.0/poweRlaw/R/estimate_xmin.R                   |  118 ++++++---
 poweRlaw-0.30.0/poweRlaw/R/lines_methods.R                   |    2 
 poweRlaw-0.30.0/poweRlaw/build/vignette.rds                  |binary
 poweRlaw-0.30.0/poweRlaw/data/bootstrap_moby.RData           |binary
 poweRlaw-0.30.0/poweRlaw/data/bootstrap_p_moby.RData         |binary
 poweRlaw-0.30.0/poweRlaw/demo/moby.R                         |    4 
 poweRlaw-0.30.0/poweRlaw/inst/CITATION                       |   29 +-
 poweRlaw-0.30.0/poweRlaw/inst/doc/compare_distributions.Rnw  |    2 
 poweRlaw-0.30.0/poweRlaw/inst/doc/compare_distributions.pdf  |binary
 poweRlaw-0.30.0/poweRlaw/inst/doc/examples.R                 |   92 ++++---
 poweRlaw-0.30.0/poweRlaw/inst/doc/examples.Rnw               |  123 +++++-----
 poweRlaw-0.30.0/poweRlaw/inst/doc/examples.pdf               |binary
 poweRlaw-0.30.0/poweRlaw/inst/doc/poweRlaw.R                 |   36 +-
 poweRlaw-0.30.0/poweRlaw/inst/doc/poweRlaw.Rnw               |   48 +--
 poweRlaw-0.30.0/poweRlaw/inst/doc/poweRlaw.pdf               |binary
 poweRlaw-0.30.0/poweRlaw/inst/doc/v61i10.Rnw                 |only
 poweRlaw-0.30.0/poweRlaw/inst/doc/v61i10.pdf                 |only
 poweRlaw-0.30.0/poweRlaw/man/bootstrap_moby.Rd               |   26 +-
 poweRlaw-0.30.0/poweRlaw/man/compare_distributions.Rd        |    3 
 poweRlaw-0.30.0/poweRlaw/man/displ.Rd                        |    3 
 poweRlaw-0.30.0/poweRlaw/man/dist_cdf-methods.Rd             |   53 ++--
 poweRlaw-0.30.0/poweRlaw/man/dist_data_cdf-methods.Rd        |   30 +-
 poweRlaw-0.30.0/poweRlaw/man/dist_ll-methods.Rd              |    3 
 poweRlaw-0.30.0/poweRlaw/man/dist_pdf-methods.Rd             |    3 
 poweRlaw-0.30.0/poweRlaw/man/dist_rand-methods.Rd            |    9 
 poweRlaw-0.30.0/poweRlaw/man/dplcon.Rd                       |    3 
 poweRlaw-0.30.0/poweRlaw/man/dpldis.Rd                       |    3 
 poweRlaw-0.30.0/poweRlaw/man/estimate_pars.Rd                |    3 
 poweRlaw-0.30.0/poweRlaw/man/estimate_xmin.Rd                |   54 ++--
 poweRlaw-0.30.0/poweRlaw/man/moby.Rd                         |    6 
 poweRlaw-0.30.0/poweRlaw/man/native_american.Rd              |    3 
 poweRlaw-0.30.0/poweRlaw/man/plot-distribution-ANY-method.Rd |   17 -
 poweRlaw-0.30.0/poweRlaw/man/plot.bs_xmin.Rd                 |    3 
 poweRlaw-0.30.0/poweRlaw/man/population.Rd                   |    3 
 poweRlaw-0.30.0/poweRlaw/man/poweRlaw-package.Rd             |    3 
 poweRlaw-0.30.0/poweRlaw/man/show-distribution-method.Rd     |    3 
 poweRlaw-0.30.0/poweRlaw/man/swiss_prot.Rd                   |    3 
 poweRlaw-0.30.0/poweRlaw/vignettes/compare_distributions.Rnw |    2 
 poweRlaw-0.30.0/poweRlaw/vignettes/examples.Rnw              |  123 +++++-----
 poweRlaw-0.30.0/poweRlaw/vignettes/examples1.rds             |only
 poweRlaw-0.30.0/poweRlaw/vignettes/figure1.pdf               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/figure2.pdf               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/figure3.pdf               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/figure4.pdf               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/figure5.pdf               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/jsslogo.jpg               |only
 poweRlaw-0.30.0/poweRlaw/vignettes/plfit_res.rds             |only
 poweRlaw-0.30.0/poweRlaw/vignettes/poweRlaw.Rnw              |   48 +--
 poweRlaw-0.30.0/poweRlaw/vignettes/poweRlaw.bib              |   46 +--
 poweRlaw-0.30.0/poweRlaw/vignettes/v61i10.Rnw                |only
 poweRlaw-0.30.0/poweRlaw/vignettes/v61i10.bib                |only
 70 files changed, 917 insertions(+), 626 deletions(-)

More information about poweRlaw at CRAN
Permanent link

Package outbreaker updated to version 1.1-5 with previous version 1.1-4 dated 2014-12-05

Title: Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data
Description: Bayesian reconstruction of disease outbreaks using epidemiological and genetic information.
Author: Thibaut Jombart , Anne Cori, Joel Hellewell
Maintainer: Thibaut Jombart

Diff between outbreaker versions 1.1-4 dated 2014-12-05 and 1.1-5 dated 2015-02-20

 ChangeLog               |   14 ++++++++++++--
 DESCRIPTION             |   14 +++++++-------
 MD5                     |   14 +++++++-------
 NAMESPACE               |   15 +++++++++++----
 data/fakeOutbreak.RData |binary
 src/likelihood.c        |   19 ++++++++++++++++---
 src/likelihood.h        |    3 +++
 src/outbreaker.c        |   12 ++++++------
 8 files changed, 62 insertions(+), 29 deletions(-)

More information about outbreaker at CRAN
Permanent link

Package maxstat updated to version 0.7-22 with previous version 0.7-21 dated 2015-01-19

Title: Maximally Selected Rank Statistics
Description: Maximally selected rank statistics with several p-value approximations.
Author: Torsten Hothorn
Maintainer: Torsten Hothorn

Diff between maxstat versions 0.7-21 dated 2015-01-19 and 0.7-22 dated 2015-02-20

 DESCRIPTION          |    8 ++++----
 MD5                  |    8 ++++----
 NAMESPACE            |    2 ++
 inst/NEWS            |    4 ++++
 inst/doc/maxstat.pdf |binary
 5 files changed, 14 insertions(+), 8 deletions(-)

More information about maxstat at CRAN
Permanent link

Package Grid2Polygons updated to version 0.1-5 with previous version 0.1-4 dated 2013-08-31

Title: Convert Spatial Grids to Polygons
Description: Converts a spatial object from class SpatialGridDataFrame to SpatialPolygonsDataFrame.
Author: Jason C. Fisher
Maintainer: Jason C. Fisher

Diff between Grid2Polygons versions 0.1-4 dated 2013-08-31 and 0.1-5 dated 2015-02-20

 Grid2Polygons-0.1-4/Grid2Polygons/README.md         |only
 Grid2Polygons-0.1-5/Grid2Polygons/DESCRIPTION       |   12 ++++++------
 Grid2Polygons-0.1-5/Grid2Polygons/MD5               |    9 ++++-----
 Grid2Polygons-0.1-5/Grid2Polygons/NAMESPACE         |    7 +++++++
 Grid2Polygons-0.1-5/Grid2Polygons/NEWS              |    4 ++++
 Grid2Polygons-0.1-5/Grid2Polygons/R/Grid2Polygons.R |    2 +-
 6 files changed, 22 insertions(+), 12 deletions(-)

More information about Grid2Polygons at CRAN
Permanent link

Package frmhet updated to version 1.1.2 with previous version 1.0 dated 2014-11-20

Title: Regression Analysis of Fractional Responses Under Unobserved Heterogeneity
Description: Estimation and specification analysis of fractional regression models with neglected heterogeneity and/or endogenous covariates.
Author: Joaquim J.S. Ramalho
Maintainer: Joaquim J.S. Ramalho

Diff between frmhet versions 1.0 dated 2014-11-20 and 1.1.2 dated 2015-02-20

 DESCRIPTION           |    8 +--
 MD5                   |   12 ++---
 R/frmhet.R            |  119 +++++++++++++++++++++++++++++++-------------------
 man/frmhet-package.Rd |    4 -
 man/frmhet.Rd         |   27 ++++++++++-
 man/frmhet.pe.Rd      |   22 ++++++++-
 man/frmhet.reset.Rd   |   19 +++++++
 7 files changed, 149 insertions(+), 62 deletions(-)

More information about frmhet at CRAN
Permanent link

Package frm updated to version 1.2.2 with previous version 1.2 dated 2014-05-27

Title: Regression Analysis of Fractional Responses
Description: Estimation and specification analysis of one- and two-part fractional regression models and calculation of partial effects.
Author: Joaquim J.S. Ramalho
Maintainer: Joaquim J.S. Ramalho

Diff between frm versions 1.2 dated 2014-05-27 and 1.2.2 dated 2015-02-20

 DESCRIPTION        |   16 ++++++++--------
 MD5                |   16 ++++++++--------
 R/frm.R            |   16 ++++++++++------
 man/frm-package.Rd |    8 ++++----
 man/frm.Rd         |   35 ++++++++++++++++++++++++++++++++---
 man/frm.ggoff.Rd   |   25 +++++++++++++++++++++++--
 man/frm.pe.Rd      |   38 ++++++++++++++++++++++++++++++++------
 man/frm.ptest.Rd   |   22 ++++++++++++++++++++++
 man/frm.reset.Rd   |   24 +++++++++++++++++++++++-
 9 files changed, 162 insertions(+), 38 deletions(-)

More information about frm at CRAN
Permanent link

Package exactRankTests updated to version 0.8-28 with previous version 0.8-27 dated 2013-09-24

Title: Exact Distributions for Rank and Permutation Tests
Description: Computes exact conditional p-values and quantiles using an implementation of the Shift-Algorithm by Streitberg & Roehmel.
Author: Torsten Hothorn [aut, cre], Kurt Hornik [aut]
Maintainer: Torsten Hothorn

Diff between exactRankTests versions 0.8-27 dated 2013-09-24 and 0.8-28 dated 2015-02-20

 DESCRIPTION         |   10 +++++-----
 MD5                 |   26 +++++++++++++-------------
 NAMESPACE           |    9 +++++++++
 data/ASAT.rda       |binary
 data/bloodp.rda     |binary
 data/ears.rda       |binary
 data/glioma.rda     |binary
 data/globulin.rda   |binary
 data/lungcancer.rda |binary
 data/neuropathy.rda |binary
 data/ocarcinoma.rda |binary
 data/rotarod.rda    |binary
 data/sal.rda        |binary
 inst/NEWS           |    4 ++++
 14 files changed, 31 insertions(+), 18 deletions(-)

More information about exactRankTests at CRAN
Permanent link

New package fastpseudo with initial version 0.1
Package: fastpseudo
Title: Fast Pseudo Observations
Version: 0.1
Authors@R: c(person("Dayne", "Batten", email = "dbatten@bandwidth.com", role = c("aut", "cre")), person(c("Maja", "Pohar", "Perme"), role="ctb", email="maja.pohar@mf.uni-lj.si"), person("Mette", "Gerster", role = "ctb", email="mgerster@health.sdu.dk"))
Description: Computes pseudo-observations for survival analysis on right-censored data based on restricted mean survival time.
Depends: R (>= 3.1.1)
Suggests: geepack
License: GPL-2
LazyData: true
Packaged: 2015-02-20 14:52:40 UTC; dbatten
Author: Dayne Batten [aut, cre], Maja Pohar Perme [ctb], Mette Gerster [ctb]
Maintainer: Dayne Batten
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 23:55:47

More information about fastpseudo at CRAN
Permanent link

Package CaDENCE updated to version 1.2.2 with previous version 1.2.1 dated 2013-06-28

Title: Conditional Density Estimation Network Construction and Evaluation
Description: Parameters of a user-specified probability distribution are modelled by a multi-layer perceptron artificial neural network. This framework can be used to implement probabilistic nonlinear models including mixture density networks, heteroscedastic regression models, zero-inflated models, and the like.
Author: Alex J. Cannon
Maintainer: Alex J. Cannon

Diff between CaDENCE versions 1.2.1 dated 2013-06-28 and 1.2.2 dated 2015-02-20

 DESCRIPTION            |   11 +++++------
 MD5                    |   10 +++++-----
 NAMESPACE              |    4 +---
 R/cadence.fit.R        |   27 ++++++++++-----------------
 man/CaDENCE-package.Rd |    8 ++++----
 man/cadence.fit.Rd     |   10 +++++++---
 6 files changed, 32 insertions(+), 38 deletions(-)

More information about CaDENCE at CRAN
Permanent link

Package aqp updated to version 1.8 with previous version 1.7-7 dated 2014-11-13

Title: Algorithms for Quantitative Pedology
Description: A collection of algorithms related to modeling of soil resources, soil classification, soil profile aggregation, and visualization.
Author: Dylan Beaudette , Pierre Roudier
Maintainer: Dylan Beaudette

Diff between aqp versions 1.7-7 dated 2014-11-13 and 1.8 dated 2015-02-20

 DESCRIPTION                         |   13 +-
 MD5                                 |   50 +++++-----
 NEWS                                |   13 ++
 R/SoilProfileCollection-methods.R   |   43 ++++++++-
 R/SoilProfileCollection-spatial.R   |    4 
 R/evalGenHz.R                       |  106 +++++++++++-----------
 R/get.ml.hz.R                       |    2 
 R/panel.depth_function.R            |   17 +--
 R/profile_plot.R                    |   38 ++++----
 R/setters.R                         |   48 +++++++++-
 R/texture-low-rv-high.R             |  168 +++++++++++++++++++-----------------
 data/amarillo.rda                   |binary
 data/ca630.rda                      |binary
 data/munsell.rda                    |binary
 data/rruff.sample.rda               |binary
 data/sp1.rda                        |binary
 data/sp2.rda                        |binary
 data/sp3.rda                        |binary
 data/sp4.rda                        |binary
 data/sp5.rda                        |binary
 man/SPC-plotting.Rd                 |    1 
 man/SoilProfileCollection-class.Rd  |   13 ++
 man/addBracket.Rd                   |    7 +
 man/hzDistinctnessCodeToOffset.Rd   |    2 
 man/random_profile.Rd               |    2 
 man/texture.triangle.low.rv.high.Rd |   31 ++++--
 26 files changed, 341 insertions(+), 217 deletions(-)

More information about aqp at CRAN
Permanent link

Package tseries updated to version 0.10-34 with previous version 0.10-33 dated 2015-02-10

Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut], Kurt Hornik [aut, cre], Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik

Diff between tseries versions 0.10-33 dated 2015-02-10 and 0.10-34 dated 2015-02-20

 ChangeLog   |    7 +++++++
 DESCRIPTION |    6 +++---
 MD5         |    6 +++---
 R/finance.R |   11 +++++++----
 4 files changed, 20 insertions(+), 10 deletions(-)

More information about tseries at CRAN
Permanent link

Package SIMMS (with last version 1.0.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2015-02-16 1.0.0
2013-06-11 0.0.1

Permanent link
Package rtkpp updated to version 0.8.5 with previous version 0.8.4 dated 2014-11-18

Title: STK++ 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. Some functionalities of the Clustering project provided by the library are available in the R environment as R functions. The rtkpp package includes the header files from the STK++ library (currently version 0.8.5). Thus users do not need to install STK++ itself in order to use it. STK++ is licensed under the GNU LGPL version 2 or later. rtkpp (the stkpp integration into R) is licensed under the GNU GPL version 2 or later.
Author: Serge Iovleff [aut, cre], Vincent Kubicki [ctb], Quentin Grimonprez [ctb], Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff

Diff between rtkpp versions 0.8.4 dated 2014-11-18 and 0.8.5 dated 2015-02-20

 rtkpp-0.8.4/rtkpp/inst/AUTHORS                                                                          |only
 rtkpp-0.8.4/rtkpp/inst/COPYRIGHTS                                                                       |only
 rtkpp-0.8.4/rtkpp/inst/projects/Analysis/include/STK_Funct_util.h                                       |only
 rtkpp-0.8.4/rtkpp/inst/projects/Arrays/include/STK_ITContainer2D.h                                      |only
 rtkpp-0.8.4/rtkpp/inst/projects/Arrays/include/STK_Wrappers.h                                           |only
 rtkpp-0.8.4/rtkpp/inst/projects/Arrays/include/operators/STK_SliceOperators.h                           |only
 rtkpp-0.8.4/rtkpp/inst/projects/Arrays/include/products/STK_GeneralByGeneralProduct.h                   |only
 rtkpp-0.8.4/rtkpp/inst/projects/Arrays/include/products/STK_GeneralByVectorProduct.h                    |only
 rtkpp-0.8.4/rtkpp/inst/projects/Clustering/include/STK_MixtureComponent.h                               |only
 rtkpp-0.8.4/rtkpp/inst/projects/Clustering/src/STK_IDataManager.cpp                                     |only
 rtkpp-0.8.4/rtkpp/inst/projects/Regress/src/STK_BSplineCoefficients.cpp                                 |only
 rtkpp-0.8.4/rtkpp/inst/projects/Rtkpp/include/STK_RcppMatrix.h                                          |only
 rtkpp-0.8.4/rtkpp/inst/projects/Rtkpp/include/STK_RcppVector.h                                          |only
 rtkpp-0.8.5/rtkpp/DESCRIPTION                                                                           |   19 
 rtkpp-0.8.5/rtkpp/MD5                                                                                   |  533 ++--
 rtkpp-0.8.5/rtkpp/NAMESPACE                                                                             |   17 
 rtkpp-0.8.5/rtkpp/R/ClusterCategorical.R                                                                |   14 
 rtkpp-0.8.5/rtkpp/R/ClusterGamma.R                                                                      |    7 
 rtkpp-0.8.5/rtkpp/R/ClusterInit.R                                                                       |   90 
 rtkpp-0.8.5/rtkpp/R/ClusterModelNames.R                                                                 |   86 
 rtkpp-0.8.5/rtkpp/R/ClusterPlot.R                                                                       |    4 
 rtkpp-0.8.5/rtkpp/R/ClusterPoisson.R                                                                    |only
 rtkpp-0.8.5/rtkpp/R/ClusterStrategy.R                                                                   |    8 
 rtkpp-0.8.5/rtkpp/R/rtkpp.R                                                                             |   37 
 rtkpp-0.8.5/rtkpp/R/rtkppFlags.R                                                                        |   14 
 rtkpp-0.8.5/rtkpp/build                                                                                 |only
 rtkpp-0.8.5/rtkpp/cleanup                                                                               |    2 
 rtkpp-0.8.5/rtkpp/data/DebTrivedi.rda                                                                   |only
 rtkpp-0.8.5/rtkpp/data/HeartDisease.cat.rda                                                             |binary
 rtkpp-0.8.5/rtkpp/data/HeartDisease.cont.rda                                                            |binary
 rtkpp-0.8.5/rtkpp/data/HeartDisease.target.rda                                                          |binary
 rtkpp-0.8.5/rtkpp/data/birds.rda                                                                        |binary
 rtkpp-0.8.5/rtkpp/data/car.rda                                                                          |binary
 rtkpp-0.8.5/rtkpp/data/geyser.rda                                                                       |binary
 rtkpp-0.8.5/rtkpp/data/titanic.rda                                                                      |binary
 rtkpp-0.8.5/rtkpp/inst/NEWS.Rd                                                                          |    8 
 rtkpp-0.8.5/rtkpp/inst/doc                                                                              |only
 rtkpp-0.8.5/rtkpp/inst/include/Algebra.h                                                                |    8 
 rtkpp-0.8.5/rtkpp/inst/include/Analysis.h                                                               |    2 
 rtkpp-0.8.5/rtkpp/inst/include/Arrays.h                                                                 |    8 
 rtkpp-0.8.5/rtkpp/inst/include/Clustering.h                                                             |    3 
 rtkpp-0.8.5/rtkpp/inst/include/RTKpp.h                                                                  |    7 
 rtkpp-0.8.5/rtkpp/inst/include/RTKppForward.h                                                           |   43 
 rtkpp-0.8.5/rtkpp/inst/include/STKpp.h                                                                  |  130 -
 rtkpp-0.8.5/rtkpp/inst/include/STatistiK.h                                                              |    1 
 rtkpp-0.8.5/rtkpp/inst/include/StatModels.h                                                             |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/include/STK_GaussianAAModel.h                                  |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/include/STK_IAAModel.h                                         |   42 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/include/STK_LinearAAModel.h                                    |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/src/STK_GaussianAAModel.cpp                                    |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/src/STK_IAAModel.cpp                                           |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/src/STK_LinearAAModel.cpp                                      |   20 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/src/makefile                                                   |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/AAModels/src/makevars.local                                             |only
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_Givens.h                                            |   10 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_Householder.h                                       |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_IQr.h                                               |   27 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_ISymEigen.h                                         |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_Qr.h                                                |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_Svd.h                                               |   42 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_SymEigen.h                                          |    8 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_lapack_Qr.h                                         |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/include/STK_lapack_SymEigen.h                                   |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/src/STK_Qr.cpp                                                  |    3 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/src/STK_Svd.cpp                                                 |   14 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/src/STK_SymEigen.cpp                                            |    6 
 rtkpp-0.8.5/rtkpp/inst/projects/Algebra/src/makefile                                                    |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/include/STK_Funct_Util.h                                       |only
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/include/STK_Funct_raw.h                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/include/STK_IFunction.h                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_betaRatio.cpp                                    |    6 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_dev0.cpp                                         |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_expm1.cpp                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_g0.cpp                                           |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_gamma.cpp                                        |   10 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_gammaRatio.cpp                                   |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_log1p.cpp                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_poisson_raw.cpp                                  |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/STK_Funct_psi_raw.cpp                                      |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Analysis/src/makefile                                                   |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_AllocatorBase.h                                      |   11 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array1D.h                                            |    6 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2D.h                                            |   62 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DDiagonal.h                                    |   28 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DLowerTriangular.h                             |   29 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DPoint.h                                       |   31 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DSquare.h                                      |   32 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DUpperTriangular.h                             |   34 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2DVector.h                                      |   27 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Array2D_Functors.h                                   |   65 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ArrayBase.h                                          |  143 -
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ArrayBaseApplier.h                                   |   86 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ArrayBaseAssign.h                                    |   68 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ArrayBaseInitializer.h                               |   25 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Arrays_Util.h                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CAllocator.h                                         | 1153 ++++++----
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CArray.h                                             |  120 -
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CArrayNumber.h                                       |   49 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CArrayPoint.h                                        |   68 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CArraySquare.h                                       |   78 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_CArrayVector.h                                       |   56 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_Const_Arrays.h                                       |  107 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ExprBase.h                                           |  174 +
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ExprBaseFunctors.h                                   |  213 +
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ExprBaseProduct.h                                    |   22 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ExprBaseVisitor.h                                    |  246 +-
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_IArray2D.h                                           |  561 +++-
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_IArray2DBase.h                                       |  408 ++-
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ICAllocator.h                                        |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ICArray.h                                            |  101 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/STK_ITContainer.h                                        |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_BinaryOperators.h                          |   88 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_DiagOperator.h                             |   37 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_DotOperators.h                             |   10 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_SlicingOperators.h                         |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_TransposeOperator.h                        |   10 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/operators/STK_UnaryOperators.h                           |   11 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/products/STK_ArrayByArrayProduct.h                       |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/products/STK_ArrayByVectorProduct.h                      |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/products/STK_ProductImpl.h                               |  127 -
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/products/STK_ProductOperators.h                          |  245 +-
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/visitors/STK_SlicingVisitors.h                           |only
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/visitors/STK_VisitorSelector.h                           |  246 --
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/visitors/STK_Visitors.h                                  |  210 +
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/include/visitors/STK_VisitorsImpl.h                              |  469 ++--
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/src/STK_Arrays_Util.cpp                                          |    8 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/src/makefile                                                     |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Arrays/src/makevars.local                                               |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/CategoricalMixtureModels/STK_CategoricalBase.h       |   32 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/CategoricalMixtureModels/STK_CategoricalParameters.h |  102 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/CategoricalMixtureModels/STK_Categorical_pjk.h       |   26 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/CategoricalMixtureModels/STK_Categorical_pk.h        |   19 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/ExponentialMixtureModels/STK_ExponentialBase.h       |   36 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/ExponentialMixtureModels/STK_ExponentialParameters.h |   66 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/ExponentialMixtureModels/STK_Exponential_bjk.h       |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/ExponentialMixtureModels/STK_Exponential_bk.h        |   17 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_GammaBase.h                   |   59 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_GammaParameters.h             |  595 +++--
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_a_bjk.h                 |   38 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_a_bk.h                  |   42 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_aj_bjk.h                |   37 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_aj_bk.h                 |   37 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ajk_b.h                 |   35 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ajk_bj.h                |   39 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ajk_bjk.h               |   13 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ajk_bk.h                |   11 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ak_b.h                  |   37 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ak_bj.h                 |   39 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ak_bjk.h                |   11 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GammaMixtureModels/STK_Gamma_ak_bk.h                 |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_DiagGaussianBase.h         |   78 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_DiagGaussianParameters.h   |  153 -
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_Gaussian_s.h               |   36 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_Gaussian_sj.h              |   34 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_Gaussian_sjk.h             |   22 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/GaussianMixtureModels/STK_Gaussian_sk.h              |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/MixturesBridges/STK_IMixtureBridge.h                 |   33 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/MixturesBridges/STK_MixtureBridge.h                  |   91 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/PoissonMixtureModels                                 |only
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_Clust_Util.h                                     |   13 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_IMixture.h                                       |   95 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_IMixtureComposer.h                               |   61 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_IMixtureManager.h                                |    5 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_IMixtureModel.h                                  |  113 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_IMixtureModelBase.h                              |   37 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_MixtureComposer.h                                |   32 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_MixtureManager.h                                 |  170 +
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/include/STK_MixtureParamStat.h                               |only
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_Clust_Util.cpp                                       |   34 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_IMixture.cpp                                         |   28 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_IMixtureComposer.cpp                                 |  111 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_IMixtureData.cpp                                     |only
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_IMixtureModelBase.cpp                                |   34 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_MixtureAlgo.cpp                                      |  105 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_MixtureComposer.cpp                                  |   28 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_MixtureFacade.cpp                                    |    8 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_MixtureInit.cpp                                      |   60 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/STK_MixtureStrategy.cpp                                  |   62 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/makefile                                                 |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Clustering/src/makevars.local                                           |    1 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/include/STK_CsvToArray.h                                       |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/include/STK_DataFrame.h                                        |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/include/STK_ExportToCsv.h                                      |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/include/STK_IVariable.h                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/include/STK_Variable.h                                         |   44 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/src/STK_DataFrame.cpp                                          |   28 
 rtkpp-0.8.5/rtkpp/inst/projects/DManager/src/makefile                                                   |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/include/STK_ILinearReduct.h                                      |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/include/STK_IReduct.h                                            |   14 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/include/STK_LocalVariance.h                                      |   20 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/include/STK_ProjectedVariance.h                                  |    8 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/src/STK_ILinearReduct.cpp                                        |    6 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/src/STK_IReduct.cpp                                              |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/src/STK_LocalVariance.cpp                                        |   21 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/src/STK_ProjectedVariance.cpp                                    |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/Reduct/src/makefile                                                     |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_AdditiveBSplineCoefficients.h                       |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_AdditiveBSplineRegression.h                         |   22 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_BSplineCoefficients.h                               |  364 +++
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_BSplineRegression.h                                 |   34 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_IRegression.h                                       |   81 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/include/STK_MultidimRegression.h                                |   14 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/src/STK_AdditiveBSplineRegression.cpp                           |   27 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/src/STK_BSplineRegression.cpp                                   |   22 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/src/STK_MultidimRegression.cpp                                  |   27 
 rtkpp-0.8.5/rtkpp/inst/projects/Regress/src/makefile                                                    |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/Rcpp_as.h                                                 |    6 
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/Rcpp_wrap.h                                               |   54 
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/STK_ClusterLauncher.h                                     |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/STK_RDataHandler.h                                        |   19 
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/STK_RMatrix.h                                             |only
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/STK_RVector.h                                             |only
 rtkpp-0.8.5/rtkpp/inst/projects/Rtkpp/include/STK_wrap.h                                                |only
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/include/STK_Arithmetic.h                                       |   25 
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/include/STK_Constants.h                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/include/STK_Functors.h                                         |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/include/STK_Range.h                                            |    8 
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/src/STK_Real.cpp                                               |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/STKernel/src/makefile                                                   |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/MersenneTwister.h                                     |   23 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Bernoulli.h                                   |    1 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Beta.h                                        |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Categorical.h                                 |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Cauchy.h                                      |    1 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Gamma.h                                       |   22 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_IUnivLaw.h                                    |   13 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_MultiNormal.h                                 |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Normal.h                                      |    1 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Law_Poisson.h                                     |only
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_RandBase.h                                        |  120 -
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Stat_Functors.h                                   |  400 +--
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Stat_MultivariateReal.h                           |   35 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/include/STK_Stat_UnivariateReal.h                             |   18 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Beta.cpp                                          |   26 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Categorical.cpp                                   |   13 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Cauchy.cpp                                        |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Exponential.cpp                                   |   12 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Gamma.cpp                                         |   28 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Normal.cpp                                        |   98 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Poisson.cpp                                       |only
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/STK_Law_Uniform.cpp                                       |   15 
 rtkpp-0.8.5/rtkpp/inst/projects/STatistiK/src/makefile                                                  |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/Sdk/include/STK_MetaTemplate.h                                          |   67 
 rtkpp-0.8.5/rtkpp/inst/projects/Sdk/include/STK_StaticAssert.h                                          |    7 
 rtkpp-0.8.5/rtkpp/inst/projects/Sdk/src/makefile                                                        |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_Gaussian2BlocksModel.h                           |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_GaussianModel.h                                  |   14 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_IGaussianModel.h                                 |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_IMultiParameters.h                               |    5 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_IMultiStatModel.h                                |    4 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_IStatModelBase.h                                 |    7 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_JointBernoulliModel.h                            |    9 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_JointGammaParameters.h                           |   19 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/include/STK_JointGaussianModel.h                             |   11 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/src/STK_Gaussian2BlocksModel.cpp                             |   16 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/src/STK_GaussianModel.cpp                                    |   10 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/src/STK_IGaussianModel.cpp                                   |    2 
 rtkpp-0.8.5/rtkpp/inst/projects/StatModels/src/makefile                                                 |    2 
 rtkpp-0.8.5/rtkpp/inst/unitTests/runit.wrap.R                                                           |    6 
 rtkpp-0.8.5/rtkpp/man/ClusterInit-class.Rd                                                              |    4 
 rtkpp-0.8.5/rtkpp/man/ClusterPoisson-class.Rd                                                           |only
 rtkpp-0.8.5/rtkpp/man/DebTrivedi.Rd                                                                     |only
 rtkpp-0.8.5/rtkpp/man/IClusterComponent-class.Rd                                                        |   11 
 rtkpp-0.8.5/rtkpp/man/clusterDiagGaussianNames.Rd                                                       |    7 
 rtkpp-0.8.5/rtkpp/man/clusterGamma.Rd                                                                   |    2 
 rtkpp-0.8.5/rtkpp/man/clusterInit.Rd                                                                    |   10 
 rtkpp-0.8.5/rtkpp/man/clusterPoisson.Rd                                                                 |only
 rtkpp-0.8.5/rtkpp/man/clusterPoissonNames.Rd                                                            |only
 rtkpp-0.8.5/rtkpp/man/clusterStrategy.Rd                                                                |    4 
 rtkpp-0.8.5/rtkpp/man/extract-methods.Rd                                                                |    3 
 rtkpp-0.8.5/rtkpp/man/initialize-methods.Rd                                                             |   18 
 rtkpp-0.8.5/rtkpp/man/missingValues-methods.Rd                                                          |    6 
 rtkpp-0.8.5/rtkpp/man/plot-ClusterGamma-method.Rd                                                       |    3 
 rtkpp-0.8.5/rtkpp/man/plot-ClusterPoisson-method.Rd                                                     |only
 rtkpp-0.8.5/rtkpp/man/print-methods.Rd                                                                  |    6 
 rtkpp-0.8.5/rtkpp/man/rtkppFlags.Rd                                                                     |    5 
 rtkpp-0.8.5/rtkpp/man/show-methods.Rd                                                                   |    8 
 rtkpp-0.8.5/rtkpp/man/summary-methods.Rd                                                                |    3 
 rtkpp-0.8.5/rtkpp/src/Makevars                                                                          |   12 
 rtkpp-0.8.5/rtkpp/src/STK_ClusterFacade.cpp                                                             |    4 
 rtkpp-0.8.5/rtkpp/src/STK_ClusterLauncher.cpp                                                           |   50 
 rtkpp-0.8.5/rtkpp/src/STK_RDataHandler.cpp                                                              |    4 
 rtkpp-0.8.5/rtkpp/tests/clusterGammaLikelihood.R                                                        |    4 
 rtkpp-0.8.5/rtkpp/vignettes                                                                             |only
 284 files changed, 6964 insertions(+), 4795 deletions(-)

More information about rtkpp at CRAN
Permanent link

New package mmpp with initial version 0.1
Package: mmpp
Type: Package
Title: Various Similarity and Distance Metrics for Marked Point Processes
Version: 0.1
Date: 2015-02-20
Author: Hideitsu Hino, Ken Takano, Yuki Yoshikawa, and Noboru Murata
Maintainer: Hideitsu Hino
Description: Compute similarities and distances between marked point processes.
License: GPL-2
Packaged: 2015-02-20 11:58:51 UTC; hino
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 13:40:19

More information about mmpp at CRAN
Permanent link

New package lodGWAS with initial version 1.0-3
Package: lodGWAS
Type: Package
Title: Genome-Wide Association Analysis of a Biomarker Accounting for Limit of Detection
Version: 1.0-3
Date: 2015-02-19
Author: Ahmad Vaez, Ilja M. Nolte, Peter J. van der Most
Maintainer: Ilja M. Nolte
Depends: R (>= 3.0.0)
Imports: survival, rms
Description: Genome-wide association (GWAS) analyses of a biomarker that account for the limit of detection.
License: GPL (>= 3)
Packaged: 2015-02-19 14:26:00 UTC; mostPJ
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 11:58:28

More information about lodGWAS at CRAN
Permanent link

Package ForeCA updated to version 0.2.0 with previous version 0.1 dated 2014-03-02

Title: Forecastable Component Analysis
Description: Forecastable Component Analysis (ForeCA) is a novel dimension reduction (DR) technique for temporally dependent signals. Contrary to other popular DR methods, such as PCA or ICA, ForeCA takes time dependency explicitly into account and searches for the most ''forecastable'' signal. The measure of forecastability is based on the Shannon entropy of the spectral density of the transformed signal. This R package provides the main algorithms and auxiliary function (summary, plotting, etc.) to apply ForeCA to multivariate time series data.
Author: Georg M. Goerg
Maintainer: Georg M. Goerg

Diff between ForeCA versions 0.1 dated 2014-03-02 and 0.2.0 dated 2015-02-20

 ForeCA-0.1/ForeCA/R/foreca.EM.R                          |only
 ForeCA-0.1/ForeCA/man/foreca.EM.Rd                       |only
 ForeCA-0.2.0/ForeCA/DESCRIPTION                          |   28 
 ForeCA-0.2.0/ForeCA/MD5                                  |   94 +-
 ForeCA-0.2.0/ForeCA/NAMESPACE                            |   27 
 ForeCA-0.2.0/ForeCA/NEWS                                 |   82 ++
 ForeCA-0.2.0/ForeCA/R/ForeCA-package.R                   |   66 +
 ForeCA-0.2.0/ForeCA/R/Omega.R                            |  196 ++---
 ForeCA-0.2.0/ForeCA/R/SDF2mvspectrum.R                   |   75 +-
 ForeCA-0.2.0/ForeCA/R/common-arguments.R                 |only
 ForeCA-0.2.0/ForeCA/R/complete_controls.R                |only
 ForeCA-0.2.0/ForeCA/R/continuous_entropy.R               |  146 ++--
 ForeCA-0.2.0/ForeCA/R/discrete_entropy.R                 |  158 ++--
 ForeCA-0.2.0/ForeCA/R/foreca-utils.R                     |  240 +++----
 ForeCA-0.2.0/ForeCA/R/foreca.EM-aux.R                    |  399 ++++++-----
 ForeCA-0.2.0/ForeCA/R/foreca.EM.one_weightvector.R       |only
 ForeCA-0.2.0/ForeCA/R/foreca.R                           |  503 ++++++++++++++-
 ForeCA-0.2.0/ForeCA/R/foreca.one_weightvector-utils.R    |only
 ForeCA-0.2.0/ForeCA/R/initialize_weightvector.R          |  163 ++--
 ForeCA-0.2.0/ForeCA/R/mvspec2mvspectrum.R                |   56 -
 ForeCA-0.2.0/ForeCA/R/mvspectrum.R                       |  383 ++++++++---
 ForeCA-0.2.0/ForeCA/R/mvspectrum2wcov.R                  |  240 ++++---
 ForeCA-0.2.0/ForeCA/R/quadratic_form.R                   |   86 +-
 ForeCA-0.2.0/ForeCA/R/sfa.R                              |only
 ForeCA-0.2.0/ForeCA/R/spectral_entropy.R                 |  254 +++----
 ForeCA-0.2.0/ForeCA/R/univariate_spectrum-functions.R    |only
 ForeCA-0.2.0/ForeCA/R/whiten.R                           |  274 ++++++--
 ForeCA-0.2.0/ForeCA/R/zzz.R                              |only
 ForeCA-0.2.0/ForeCA/man/ForeCA-package.Rd                |   43 -
 ForeCA-0.2.0/ForeCA/man/Omega.Rd                         |  125 +--
 ForeCA-0.2.0/ForeCA/man/common-arguments.Rd              |only
 ForeCA-0.2.0/ForeCA/man/complete-controls.Rd             |only
 ForeCA-0.2.0/ForeCA/man/continuous_entropy.Rd            |   60 -
 ForeCA-0.2.0/ForeCA/man/discrete_entropy.Rd              |   95 +-
 ForeCA-0.2.0/ForeCA/man/foreca-utils.Rd                  |   66 -
 ForeCA-0.2.0/ForeCA/man/foreca.EM-aux.Rd                 |  160 ++--
 ForeCA-0.2.0/ForeCA/man/foreca.EM.one_weightvector.Rd    |only
 ForeCA-0.2.0/ForeCA/man/foreca.Rd                        |  175 ++++-
 ForeCA-0.2.0/ForeCA/man/foreca.one_weightvector-utils.Rd |only
 ForeCA-0.2.0/ForeCA/man/initialize_weightvector.Rd       |  116 +--
 ForeCA-0.2.0/ForeCA/man/mvspectrum.Rd                    |  257 +++++--
 ForeCA-0.2.0/ForeCA/man/mvspectrum2wcov.Rd               |   98 ++
 ForeCA-0.2.0/ForeCA/man/quadratic_form.Rd                |   26 
 ForeCA-0.2.0/ForeCA/man/sfa.Rd                           |only
 ForeCA-0.2.0/ForeCA/man/spectral_entropy.Rd              |  118 +--
 ForeCA-0.2.0/ForeCA/man/whiten.Rd                        |   99 ++
 ForeCA-0.2.0/ForeCA/tests                                |only
 47 files changed, 3116 insertions(+), 1792 deletions(-)

More information about ForeCA at CRAN
Permanent link

Package WhopGenome updated to version 0.9.2 with previous version 0.9.1 dated 2015-02-19

Title: High-Speed Processing of VCF, FASTA and Alignment Data
Description: Provides very fast access to whole genome, population scale variation data from VCF files and sequence data from FASTA-formatted files. It also reads in alignments from FASTA, Phylip, MAF and other file formats. Provides easy-to-use interfaces to genome annotation from UCSC and Bioconductor and gene ontology data from AmiGO and is capable to read, modify and write PLINK .PED-format pedigree files.
Author: Ulrich Wittelsbuerger [aut, cre], Heng Li [ctb], Bob Handsaker [ctb]
Maintainer: Ulrich Wittelsbuerger

Diff between WhopGenome versions 0.9.1 dated 2015-02-19 and 0.9.2 dated 2015-02-20

 DESCRIPTION      |    7 +
 MD5              |    7 +
 inst/CITATION    |only
 src/Makevars     |   16 ----
 src/Makevars.win |  212 +++++++++++++++++++++++++++----------------------------
 5 files changed, 116 insertions(+), 126 deletions(-)

More information about WhopGenome at CRAN
Permanent link

New package UBCRM with initial version 1.0.1
Package: UBCRM
Type: Package
Title: Functions to Simulate and Conduct Dose-Escalation Phase I Studies
Version: 1.0.1
Date: 2015-02-20
Author: Benjamin Esterni with contribution from Baboukar Mane
Maintainer: Christophe Zemmour
Description: Two Phase I designs are implemented in the package: the classical 3+3 and the Continual Reassessment Method. Simulations tools are also available to estimate the operating characteristics of the methods with several user-dependent options.
License: GPL (>= 2)
Packaged: 2015-02-20 08:41:40 UTC; SFUMATOP
NeedsCompilation: no
X-CRAN-Comment: Archived on 2014-08-18 as maintainer address bounced.
Repository: CRAN
Date/Publication: 2015-02-20 10:31:30

More information about UBCRM at CRAN
Permanent link

Package R.methodsS3 updated to version 1.7.0 with previous version 1.6.1 dated 2014-01-05

Title: S3 Methods Simplified
Description: Methods that simplify the setup of S3 generic functions and S3 methods. Major effort has been made in making definition of methods as simple as possible with a minimum of maintenance for package developers. For example, generic functions are created automatically, if missing, and naming conflict are automatically solved, if possible. The method setMethodS3() is a good start for those who in the future may want to migrate to S4. This is a cross-platform package implemented in pure R that generates standard S3 methods.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson

Diff between R.methodsS3 versions 1.6.1 dated 2014-01-05 and 1.7.0 dated 2015-02-20

 R.methodsS3-1.6.1/R.methodsS3/inst/NEWS                 |only
 R.methodsS3-1.7.0/R.methodsS3/DESCRIPTION               |   10 ++---
 R.methodsS3-1.7.0/R.methodsS3/MD5                       |   27 ++++++++++------
 R.methodsS3-1.7.0/R.methodsS3/NEWS                      |only
 R.methodsS3-1.7.0/R.methodsS3/R/000.R                   |   10 +++++
 R.methodsS3-1.7.0/R.methodsS3/R/010.setGenericS3.R      |   12 +++----
 R.methodsS3-1.7.0/R.methodsS3/R/030.setMethodS3.R       |    7 ++--
 R.methodsS3-1.7.0/R.methodsS3/R/findDispatchMethodsS3.R |   27 ++++++++++++++++
 R.methodsS3-1.7.0/R.methodsS3/R/isGenericS3.R           |   15 +++++++-
 R.methodsS3-1.7.0/R.methodsS3/R/pkgStartupMessage.R     |    1 
 R.methodsS3-1.7.0/R.methodsS3/R/zzz.R                   |   22 +++++--------
 R.methodsS3-1.7.0/R.methodsS3/tests                     |only
 12 files changed, 91 insertions(+), 40 deletions(-)

More information about R.methodsS3 at CRAN
Permanent link

Package msda updated to version 1.0.2 with previous version 1.0.1 dated 2014-10-02

Title: Multi-Class Sparse Discriminant Analysis
Description: Efficient procedures for computing a new Multi-Class Sparse Discriminant Analysis method that estimates all discriminant directions simultaneously.
Author: Qing Mai , Yi Yang , Hui Zou
Maintainer: Yi Yang

Diff between msda versions 1.0.1 dated 2014-10-02 and 1.0.2 dated 2015-02-20

 ChangeLog           |    5 +
 DESCRIPTION         |   10 +--
 MD5                 |   28 +++++-----
 NAMESPACE           |    1 
 R/cv.msda.R         |   19 +++---
 R/msda.R            |    6 +-
 R/plot.msda.R       |only
 R/predict.msda.R    |   11 ++--
 R/utilities.R       |   11 ++--
 data/GDS1615.rda    |binary
 man/GDS1615.Rd      |   56 ++++++++++----------
 man/cv.msda.Rd      |  142 ++++++++++++++++++++++++++--------------------------
 man/msda.Rd         |   16 +++--
 man/plot.msda.Rd    |only
 man/predict.msda.Rd |   84 +++++++++++++++---------------
 src/msda_new.f90    |   11 ++--
 16 files changed, 216 insertions(+), 184 deletions(-)

More information about msda at CRAN
Permanent link

Package MASS updated to version 7.3-39 with previous version 7.3-37 dated 2015-01-10

Title: Support Functions and Datasets for Venables and Ripley's MASS
Description: Functions and datasets to support Venables and Ripley, 'Modern Applied Statistics with S' (4th edition, 2002).
Author: Brian Ripley [aut, cre, cph], Bill Venables [ctb], Douglas M. Bates [ctb], Kurt Hornik [trl] (partial port ca 1998), Albrecht Gebhardt [trl] (partial port ca 1998), David Firth [ctb]
Maintainer: Brian Ripley

Diff between MASS versions 7.3-37 dated 2015-01-10 and 7.3-39 dated 2015-02-20

 DESCRIPTION        |   12 ++++++------
 MD5                |   32 ++++++++++++++++----------------
 NAMESPACE          |    5 +++--
 R/lda.R            |    3 ++-
 R/loglm.R          |    2 +-
 R/lqs.R            |    2 +-
 R/mvrnorm.R        |    6 +++---
 R/neg.bin.R        |    2 +-
 R/negbin.R         |    2 +-
 inst/NEWS          |    3 ++-
 man/OME.Rd         |    2 +-
 man/corresp.Rd     |    2 +-
 man/denumerate.Rd  |    2 +-
 man/geyser.Rd      |    3 +++
 man/mvrnorm.Rd     |    9 ++++-----
 man/npr1.Rd        |    2 +-
 man/summary.rlm.Rd |    2 +-
 17 files changed, 48 insertions(+), 43 deletions(-)

More information about MASS at CRAN
Permanent link

New package Factoshiny with initial version 1.0
Package: Factoshiny
Type: Package
Title: Perform Factorial Analysis from FactoMineR with a Shiny Application
Version: 1.0
Date: 2015-02-19
Author: Pauline Vaissie, Astrid Monge, Francois Husson
Maintainer: Francois Husson
Depends: FactoMineR,shiny(>= 0.11)
Description: Perform factorial analysis with a menu and draw graphs interactively thanks to FactoMineR and a Shiny application.
License: GPL (>= 2)
Packaged: 2015-02-20 08:43:09 UTC; husson
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 10:31:28

More information about Factoshiny at CRAN
Permanent link

Package StochKit2R (with last version 0.3) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2015-02-17 0.3
2015-01-29 0.2

Permanent link
Package rlm (with last version 1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2015-02-11 1.0

Permanent link
Package RKEA updated to version 0.0-5 with previous version 0.0-4 dated 2014-06-12

Title: R/KEA Interface
Description: An R interface to KEA (Version 5.0). KEA (for Keyphrase Extraction Algorithm) allows for extracting keyphrases from text documents. It can be either used for free indexing or for indexing with a controlled vocabulary. For more information see .
Author: Ingo Feinerer [aut], Kurt Hornik [aut, cre], Eibe Frank [ctb, cph] (KEA Java library), Olena Medelyan [ctb, cph] (KEA Java library), The Apache Software Foundation [ctb, cph] (Apache Commons Logging and Apache Jena Java libraries), International Business Machines Corporation and others [ctb, cph] (International Components for Unicode for Java (ICU4J)), Martin Porter [ctb, cph] (Snowball base), Richard Boulton [ctb, cph] (Snowball Java library), University of Waikato [ctb, cph] (Weka Java library)
Maintainer: Kurt Hornik

Diff between RKEA versions 0.0-4 dated 2014-06-12 and 0.0-5 dated 2015-02-20

 DESCRIPTION        |   33 ++++++++++++++++++++++++++-------
 MD5                |   11 ++++++-----
 R/kea.R            |   28 ++++++++++++++++++++++++++++
 build/vignette.rds |binary
 inst/doc/kea.pdf   |binary
 java               |only
 man/createModel.Rd |   23 +++++++++++++++++------
 7 files changed, 77 insertions(+), 18 deletions(-)

More information about RKEA at CRAN
Permanent link

Package nlme updated to version 3.1-120 with previous version 3.1-119 dated 2015-01-10

Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
Author: José Pinheiro [aut] (S version), Douglas Bates [aut] (up to 2007), Saikat DebRoy [ctb] (up to 2002), Deepayan Sarkar [ctb] (up to 2005), EISPACK authors [ctb] (src/rs.f), R-core [aut, cre]
Maintainer: R-core

Diff between nlme versions 3.1-119 dated 2015-01-10 and 3.1-120 dated 2015-02-20

 ChangeLog                             |   22 ++++++++-
 DESCRIPTION                           |   10 ++--
 MD5                                   |   80 +++++++++++++++++-----------------
 NAMESPACE                             |    3 -
 R/VarCorr.R                           |    4 -
 R/corStruct.R                         |    1 
 R/groupedData.R                       |    6 --
 R/lmList.R                            |    4 -
 R/lme.R                               |    5 --
 R/modelStruct.R                       |    5 --
 R/newFunc.R                           |    5 --
 R/newGenerics.R                       |    5 --
 R/newMethods.R                        |    4 -
 R/nlsList.R                           |    4 -
 R/pdMat.R                             |    6 --
 R/reStruct.R                          |   15 ------
 inst/po/de/LC_MESSAGES/R-nlme.mo      |binary
 inst/po/de/LC_MESSAGES/nlme.mo        |binary
 inst/po/en@quot/LC_MESSAGES/R-nlme.mo |binary
 inst/po/en@quot/LC_MESSAGES/nlme.mo   |binary
 inst/po/fr/LC_MESSAGES/nlme.mo        |binary
 inst/po/ko/LC_MESSAGES/nlme.mo        |binary
 inst/po/pl/LC_MESSAGES/nlme.mo        |binary
 inst/scripts/ch01.R                   |    2 
 inst/scripts/ch02.R                   |    2 
 inst/scripts/ch03.R                   |    2 
 inst/scripts/ch04.R                   |    2 
 inst/scripts/ch05.R                   |    2 
 inst/scripts/ch06.R                   |    2 
 inst/scripts/ch08.R                   |    2 
 man/bdf.Rd                            |    2 
 po/R-de.po                            |   27 ++++++++---
 po/R-nlme.pot                         |    4 -
 po/de.po                              |   22 ++++-----
 po/fr.po                              |   22 ++++-----
 po/ko.po                              |   22 ++++-----
 po/nlme.pot                           |   24 +++++-----
 po/pl.po                              |   22 ++++-----
 tests/nlme.R                          |    1 
 tests/nlme.Rout.save                  |    2 
 tests/nlme2.R                         |    2 
 41 files changed, 157 insertions(+), 186 deletions(-)

More information about nlme at CRAN
Permanent link

Package foreign updated to version 0.8-63 with previous version 0.8-62 dated 2015-01-07

Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, Weka, dBase, ...
Description: Functions for reading and writing data stored by some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and for reading and writing some dBase files.
Author: R Core Team [aut, cph, cre], Roger Bivand [ctb, cph], Vincent J. Carey [ctb, cph], Saikat DebRoy [ctb, cph], Stephen Eglen [ctb, cph], Rajarshi Guha [ctb, cph], Nicholas Lewin-Koh [ctb, cph], Mark Myatt [ctb, cph], Ben Pfaff [ctb], Brian Quistorff [ctb], Frank Warmerdam [ctb, cph], Stephen Weigand [ctb, cph], Free Software Foundation, Inc. [cph]
Maintainer: R Core Team

Diff between foreign versions 0.8-62 dated 2015-01-07 and 0.8-63 dated 2015-02-20

 ChangeLog           |   15 +++++++++++++++
 DESCRIPTION         |    8 ++++----
 MD5                 |   22 +++++++++++-----------
 R/spss.R            |    9 +++++----
 R/writeForeignSAS.R |    5 +++--
 man/lookup.xport.Rd |    2 +-
 man/read.arff.Rd    |    2 +-
 man/read.dta.Rd     |    2 ++
 man/read.spss.Rd    |   38 ++++++++++++++++++++------------------
 man/read.xport.Rd   |    2 +-
 man/write.arff.Rd   |    2 +-
 src/stataread.c     |    9 +++++----
 12 files changed, 69 insertions(+), 47 deletions(-)

More information about foreign at CRAN
Permanent link

New package treeClust with initial version 0.2-2
Package: treeClust
Version: 0.2-2
Date: 2015-02-19
Title: Cluster Distances Through Trees
Author: Sam Buttrey
Maintainer: Sam Buttrey
Depends: rpart, cluster
Description: Create a measure of inter-point dissimilarity useful for clustering mixed data, and, optionally, perform the clustering.
License: GPL (>= 2)
Packaged: 2015-02-19 21:42:23 UTC; sebuttre
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 06:37:15

More information about treeClust at CRAN
Permanent link

Package plspm updated to version 0.4.2 with previous version 0.4.1 dated 2013-12-08

Title: Tools for Partial Least Squares Path Modeling (PLS-PM)
Description: plspm contains a set of functions for performing Partial Least Squares Path Modeling (PLS-PM) analysis for both metric and non-metric data, as well as REBUS analysis.
Author: Gaston Sanchez [aut, cre], Laura Trinchera [aut], Giorgio Russolillo [aut]
Maintainer: ORPHANED

Diff between plspm versions 0.4.1 dated 2013-12-08 and 0.4.2 dated 2015-02-20

 DESCRIPTION        |   11 +++++++----
 MD5                |    6 +++---
 NAMESPACE          |    1 +
 build/vignette.rds |binary
 4 files changed, 11 insertions(+), 7 deletions(-)

More information about plspm at CRAN
Permanent link

New package hisse with initial version 1.0
Package: hisse
Version: 1.0
Date: 2015-2-18
Title: Hidden State Speciation and Extinction
Author: Jeremy M. Beaulieu , Brian O'Meara
Maintainer: Jeremy Beaulieu
Depends: ape, deSolve, GenSA, subplex
Imports: parallel
Description: Sets up and executes a HiSSE model (Hidden State Speciation and Extinction) on a phylogeny and character distribution to test for hidden shifts in trait dependent rates of diversification.
License: GPL (>= 2)
Packaged: 2015-02-19 17:57:53 UTC; jbeaulieu
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-02-20 06:35:33

More information about hisse at CRAN
Permanent link

New package faisalconjoint with initial version 1.15
Package: faisalconjoint
Type: Package
Title: Faisal Conjoint Model: A New Approach to Conjoint Analysis
Version: 1.15
Date: 2015-01-30
Author: Faisal Afzal Siddiqui, Ghulam Hussain, and Mudassir Uddin
Maintainer: Faisal Afzal Siddiqui
Description: It is used for systematic analysis of decisions based on attributes and its levels.
License: GPL-3
NeedsCompilation: no
Packaged: 2015-02-19 23:24:03 UTC; Faisal
Repository: CRAN
Date/Publication: 2015-02-20 06:45:59

More information about faisalconjoint at CRAN
Permanent link

New package boottol with initial version 1.0
Package: boottol
Type: Package
Title: Bootstrap Tolerance Levels for Credit Scoring Validation Statistics
Version: 1.0
Date: 2015-02-19
Author: Garrett Schiltgen
Maintainer: Garrett Schiltgen
Description: Used to create bootstrap tolerance levels for the Kolmogorov-Smirnov (KS) statistic, the area under receiver operator characteristic curve (AUROC) statistic, and the Gini coefficient for each score cutoff.
Depends: R (>= 3.0.0), boot,plyr,sqldf,tcltk
License: GPL-2
Packaged: 2015-02-20 02:14:59 UTC; garrettschiltgen
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-02-20 06:33:08

More information about boottol at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.