Title: Mark-Recapture Analysis for Survival and Abundance Estimation
Description: Functions for fitting various models to capture-recapture data
including fixed and mixed-effects Cormack-Jolly-Seber(CJS) for survival
estimation and POPAN structured Jolly-Seber models for abundance
estimation. Includes a CJS models that concurrently estimates and corrects
for tag loss. Hidden Markov model (HMM) implementations of CJS and
multistate models with and without state uncertainty.
Author: Jeff Laake <jeff.laake@noaa.gov>, Devin Johnson
<devin.johnson@noaa.gov>, Paul Conn <paul.conn@noaa.gov>
Maintainer: Jeff Laake <Jeff.Laake@noaa.gov>
Diff between marked versions 1.1.8 dated 2015-03-16 and 1.1.9 dated 2015-08-19
DESCRIPTION | 12 ++++---- MD5 | 49 +++++++++++++++++--------------- NAMESPACE | 23 ++++++++++++++- NEWS | 14 +++++++++ R/HMMLikelihood.r | 5 ++- R/HMMutilities.r | 18 ++++++++---- R/Observation_functions.r | 56 ++++++++++++++++++++++++++++++++----- R/compute.real.R | 2 - R/create.dm.R | 33 +++++++++++++++------- R/crm.R | 32 +++++++++++++++++++-- R/marked-package.R | 66 ++++++++++++++++++++++++++++++++++++++++++++ R/omega.r | 11 ++++++- R/probitCJS.R | 18 ++++++------ R/setup.parameters.R | 13 ++++++-- R/simHMM.r | 4 +- R/simplify.r |only build/vignette.rds |binary data/sealions.rda |only inst/cjs.tpl | 6 ++-- inst/cjs_reml.tpl | 6 ++-- inst/cjsre.tpl | 8 ++--- inst/doc/markedVignette.pdf |binary man/create.dm.Rd | 4 ++ man/crm.Rd | 5 ++- man/omega.Rd | 2 - man/sealions.Rd |only src/mvmsdmat.f | 4 ++ 27 files changed, 302 insertions(+), 89 deletions(-)
Title: Tools for Evolutionary Quantitative Genetics
Description: Provides functions for covariance matrix comparisons, estimation of repeatabilities in measurements and matrices, and general evolutionary quantitative genetics tools.
Author: Ana Paula Assis, Diogo Melo, Edgar Zanella, Fabio Machado, Guilherme Garcia
Maintainer: Diogo Melo <diogro@usp.br>
Diff between evolqg versions 0.1-6 dated 2015-08-03 and 0.1-7 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/MultiMahalanobis.R | 2 +- inst/tests/test.MultiMahalanobis.r | 20 ++++++++++---------- 4 files changed, 18 insertions(+), 18 deletions(-)
Title: Spatio-Dynamic Wetland Plant Communities Model
Description: A spatio-dynamic modelling package that focuses on three
characteristic wetland plant communities in a semiarid Mediterranean
wetland in response to hydrological pressures from the catchment. The
package includes the data on watershed hydrological pressure and the
initial raster maps of plant communities but also allows for random initial
distribution of plant communities. Ongoing developments of the package
focus on offering easy to use tools for creating other spatio-dynamic
models.
Author: Javier Martinez-Lopez <javi.martinez.lopez@gmail.com>, Babak Naimi
<naimi.b@gmail.com>, Julia Martinez-Fernandez <juliamf@um.es>
Maintainer: Javier Martinez-Lopez <javi.martinez.lopez@gmail.com>
Diff between spdynmod versions 1.1 dated 2015-07-16 and 1.1.1 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 42 +++++++++++++++++++++--------------------- NEWS | 2 +- R/animate_bs.R | 2 +- R/animate_model.R | 8 ++++---- R/animate_rb.R | 2 +- R/animate_sm.R | 2 +- R/animate_ss.R | 2 +- R/mrgf.R | 10 +++++----- R/plot_maps.R | 8 ++++---- build/vignette.rds |binary inst/doc/isem2013_jml.pdf |binary man/animate_bs.Rd | 2 +- man/animate_model.Rd | 2 +- man/animate_rb.Rd | 2 +- man/animate_sm.Rd | 2 +- man/animate_ss.Rd | 2 +- man/mrgf.Rd | 12 ++++++------ man/neigh_cell.Rd | 2 +- man/plot_maps.Rd | 2 +- man/run_model.Rd | 2 +- man/spdynmod.Rd | 2 +- 22 files changed, 58 insertions(+), 58 deletions(-)
Title: Basic Symbolic Expression Simplification
Description: Basic tools for symbolic expression simplification, e.g. simplify(x*1) => x, or simplify(sin(x)^2+cos(x)^2) => 1. Based on the "Expression v3" (Ev3) 1.0 system by Leo Liberti.
Author: Oliver Flasch [aut, cre], Felix Gorschlueter [aut], Leo Liberti [ctb]
Maintainer: Oliver Flasch <of@sourcewerk.de>
Diff between simplr versions 0.1-0 dated 2015-08-19 and 0.1-1 dated 2015-08-19
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/expression.cpp | 6 +++--- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Graphical Integrated Text Mining Solution
Description: An R Commander plug-in providing an integrated solution to perform
a series of text mining tasks such as importing and cleaning a corpus, and
analyses like terms and documents counts, vocabulary tables, terms
co-occurrences and documents similarity measures, time series analysis,
correspondence analysis and hierarchical clustering. Corpora can be imported
from spreadsheet-like files, directories of raw text files, Twitter queries,
as well as from Dow Jones Factiva, LexisNexis, Europresse and Alceste files.
Author: Milan Bouchet-Valat [aut, cre],
Gilles Bastin [aut]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between RcmdrPlugin.temis versions 0.7.3 dated 2015-01-23 and 0.7.4 dated 2015-08-19
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 7 ++++++- NEWS | 3 +++ R/corpusCa.R | 2 +- R/corpusClustering.R | 2 +- 6 files changed, 21 insertions(+), 13 deletions(-)
More information about RcmdrPlugin.temis at CRAN
Permanent link
Title: Additional Matrix Functionality
Description: Additional matrix functionality for R including: (1) wrappers
for the base matrix function that allows matrices to be created from character
strings and lists (the former is especially useful for creating block
matrices), (ii) better printing of large matrices via a new generic function
for "pretty" printing, and (iii) a number of convenience functions for users
more familiar with other scientific languages like 'Julia', 'Matlab'/'Octave',
or 'Python'+'NumPy'.
Author: Brandon Greenwell [aut, cre]
Maintainer: Brandon Greenwell <greenwell.brandon@gmail.com>
Diff between ramify versions 0.3.1 dated 2015-07-08 and 0.3.2 dated 2015-08-19
DESCRIPTION | 15 ++++++++------- MD5 | 21 +++++++++++++-------- NAMESPACE | 1 + NEWS | 5 +++++ R/convenience.R | 18 ++++++++++++++++++ R/ramify.R | 49 ++++++++++++------------------------------------- R/utils.R | 13 ------------- build |only inst |only man/atleast_2d.Rd | 18 ++++++++++++++---- man/ramify.Rd | 45 ++++++++++----------------------------------- vignettes |only 12 files changed, 81 insertions(+), 104 deletions(-)
Title: Sensitivity Analysis in Observational Studies
Description: Sensitivity analysis in observational studies, including evidence factors and amplification, using the permutation distribution of Huber-Maritz M-statistics, including the permutational t-test.
Author: Paul R. Rosenbaum
Maintainer: Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>
Diff between sensitivitymv versions 1.2 dated 2013-11-20 and 1.3 dated 2015-08-19
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NAMESPACE | 1 + R/senmv.R | 20 ++++++++++---------- 4 files changed, 19 insertions(+), 18 deletions(-)
Title: Meta Analysis for SNP-Set (Sequence) Kernel Association Test
Description: Functions for Meta-analysis Burden test, SKAT and SKAT-O. These methods use summary-level score statistics to carry out gene-based meta-analysis for rare variants.
Author: Seunggeun (Shawn) Lee
Maintainer: Seunggeun (Shawn) Lee <leeshawn@umich.edu>
Diff between MetaSKAT versions 0.40 dated 2014-03-27 and 0.60 dated 2015-08-19
DESCRIPTION | 14 +- MD5 | 49 ++++---- NAMESPACE | 7 - R/Meta_Null_Model.R | 18 +-- R/Meta_Permutation.R |only R/Meta_SKAT.R | 134 ++++++++++++++++++++++-- R/Meta_SSD_Read.R | 242 +++++++------------------------------------- R/Meta_SSD_Write.R | 42 +++++-- R/Meta_SaveData.R | 4 inst/doc/MetaSKAT.Rnw | 37 +++--- inst/doc/MetaSKAT.pdf |binary man/Example.rd | 6 - man/Generate_Meta_Files.rd | 46 ++++++-- man/MetaSKAT_MSSD_OneSet.rd | 41 +++---- man/MetaSKAT_wZ.rd | 45 +++++--- man/Meta_Null_Model.rd | 24 ++-- man/Open_MSSD_File_2Read.rd | 4 src/Interface_Meta.cpp | 8 - src/MatFile.cpp | 30 +++-- src/MatFile.h | 15 +- src/Meta.cpp | 14 ++ src/Meta.h | 4 src/Read_Dosage.cpp | 55 +++++++--- src/Read_Dosage.h | 3 src/error_messages.h | 1 vignettes/MetaSKAT.Rnw | 37 +++--- 26 files changed, 476 insertions(+), 404 deletions(-)
Title: Classes and Methods for Trajectory Data
Description: Classes and methods for trajectory data, with nested classes for individual trips, and collections for different entities. Methods include selection, generalization, aggregation, intersection, and plotting.
Author: Edzer Pebesma [cre, aut],
Benedikt Klus [aut],
Benedikt Graeler [ctb],
Nikolai Gorte [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between trajectories versions 0.1-3 dated 2015-05-21 and 0.1-4 dated 2015-08-19
trajectories-0.1-3/trajectories/demo/Tracks.R |only trajectories-0.1-3/trajectories/demo/geolife.R |only trajectories-0.1-4/trajectories/DESCRIPTION | 18 trajectories-0.1-4/trajectories/MD5 | 45 - trajectories-0.1-4/trajectories/NAMESPACE | 40 - trajectories-0.1-4/trajectories/R/Class-Tracks.R | 50 - trajectories-0.1-4/trajectories/R/Tracks-methods.R | 407 ++---------- trajectories-0.1-4/trajectories/R/difftrack.R | 16 trajectories-0.1-4/trajectories/R/generalize.R |only trajectories-0.1-4/trajectories/R/stcube.R |only trajectories-0.1-4/trajectories/README.md | 2 trajectories-0.1-4/trajectories/build/vignette.rds |binary trajectories-0.1-4/trajectories/data/storms.rda |only trajectories-0.1-4/trajectories/demo/00Index | 10 trajectories-0.1-4/trajectories/demo/Geolife.R |only trajectories-0.1-4/trajectories/demo/enviroCaR.R | 10 trajectories-0.1-4/trajectories/demo/google.R |only trajectories-0.1-4/trajectories/demo/stcube.R | 3 trajectories-0.1-4/trajectories/demo/storms.R | 23 trajectories-0.1-4/trajectories/inst/doc/tracks.R | 50 - trajectories-0.1-4/trajectories/inst/doc/tracks.Rnw | 13 trajectories-0.1-4/trajectories/inst/doc/tracks.pdf |binary trajectories-0.1-4/trajectories/inst/history-06-09-2015.kml |only trajectories-0.1-4/trajectories/man/Track-class.Rd | 67 + trajectories-0.1-4/trajectories/man/stcube.Rd | 11 trajectories-0.1-4/trajectories/man/storms.Rd |only trajectories-0.1-4/trajectories/tests/tracks.Rout.save | 17 trajectories-0.1-4/trajectories/vignettes/tracks.Rnw | 13 28 files changed, 324 insertions(+), 471 deletions(-)
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Milan Bouchet-Valat [aut],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ctb],
Kosar Karimi Pour [ctb],
G. Jay Kerns [ctb],
Renaud Lancelot [ctb],
Matthieu Lesnoff [ctb],
Uwe Ligges [ctb],
Samir Messad [ctb],
Martin Maechler [ctb],
Robert Muenchen [ctb],
Duncan Murdoch [ctb],
Erich Neuwirth [ctb],
Dan Putler [ctb],
Brian Ripley [ctb],
Miroslav Ristic [ctb],
Peter Wolf [ctb],
Kevin Wright [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between Rcmdr versions 2.1-7 dated 2015-02-22 and 2.2-0 dated 2015-08-19
DESCRIPTION | 20 MD5 | 52 NAMESPACE | 25 NEWS | 22 R/cluster.R | 4 R/commander.R | 2708 ++++--- R/data-menu.R | 611 + R/file-menu.R | 2036 +++-- R/globals.R | 110 R/graphs-menu.R | 2157 +++--- R/model-menu.R | 46 R/startup.R | 23 R/utilities.R | 716 +- inst/doc/Getting-Started-with-the-Rcmdr.pdf |binary inst/doc/Rcmdr-manual-source.zip |binary inst/etc/Rcmdr-RMarkdown-Template.Rmd |only inst/etc/Rcmdr-menus.txt | 12 inst/po/fr/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary man/AuxiliarySoftware.Rd |only man/Commander.Rd | 5 man/Confint.Rd | 1 man/Rcmdr-package.Rd | 19 man/Rcmdr.Utilities.Rd | 18 po/R-Rcmdr.pot | 158 po/R-fr.po | 9503 ++++++++++++++-------------- po/R-ru.po | 153 src/Makevars.win | 2 28 files changed, 9685 insertions(+), 8716 deletions(-)
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived
supra-threshold differences. The package contains functions that
allow the user to design and run a difference scaling experiment,
to fit the resulting data by maximum likelihood and test the
internal validity of the estimated scale.
Author: Kenneth Knoblauch and Laurence T. Maloney,
based in part on C code written by Laurence T. Maloney
and J. N. Yang
Maintainer: Ken Knoblauch <ken.knoblauch@inserm.fr>
Diff between MLDS versions 0.4.3 dated 2014-01-20 and 0.4.5 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NAMESPACE | 9 +++++++++ build/vignette.rds |binary data/AutumnLab.rda |binary data/Transparency.rda |binary data/kk1.rda |binary data/kk2.rda |binary data/kk3.rda |binary data/kktriad.rda |binary inst/NEWS | 6 +++++- inst/doc/MLDS.Stex | 10 +++++----- inst/doc/MLDS.pdf |binary vignettes/MLDS.Stex | 10 +++++----- 14 files changed, 41 insertions(+), 28 deletions(-)
Title: Interactive Q-Learning
Description: Estimate an optimal dynamic treatment regime using Interactive Q-learning.
Author: Kristin A. Linn, Eric B. Laber, Leonard A. Stefanski
Maintainer: Kristin A. Linn <kalinn@ncsu.edu>
Diff between iqLearn versions 1.3 dated 2015-02-25 and 1.4 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 4 +++- inst/doc/iqLearn.Rnw | 10 +++++----- vignettes/iqLearn.Rnw | 10 +++++----- 5 files changed, 21 insertions(+), 19 deletions(-)
Title: Hexagonal Binning Routines
Description: Binning and plotting functions for hexagonal bins. Now
uses and relies on grid graphics and formal (S4) classes and
methods.
Author: Dan Carr <dcarr@voxel.galaxy.gmu.edu>, ported by Nicholas
Lewin-Koh and Martin Maechler <maechler@stat.math.ethz.ch>,
contains copies of lattice functions written by Deepayan Sarkar
<deepayan.sarkar@r-project.org>
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between hexbin versions 1.27.0 dated 2014-08-09 and 1.27.1 dated 2015-08-19
DESCRIPTION | 13 +++++++------ MD5 | 26 +++++++++++++++----------- R/hdiffplot.R | 2 +- R/hexPlotMA.R | 37 +++++++++++++++++++++---------------- R/hexViewport.R | 9 ++++++--- R/lattice.R | 12 ++++++------ README.md |only TODO | 5 +++++ build/vignette.rds |binary man/erode.hexbin.Rd | 2 +- man/gplot.hexbin.Rd | 2 +- man/grid.hexagons.Rd | 2 +- tests/hray.Rout.save |only tests/large.Rout.save |only tests/viewp-ex.Rout.save |only vignettes/hexagon_binning.Rnw | 15 +++++++++------ 16 files changed, 73 insertions(+), 52 deletions(-)
Title: Easy Authentication with Google OAuth2 APIs
Description: Create R functions that interact with OAuth2 Google APIs easily,
with auto-refresh and Shiny compatibility.
Author: Mark Edmondson [aut, cre]
Maintainer: Mark Edmondson <m@sunholo.com>
Diff between googleAuthR versions 0.1.0 dated 2015-08-18 and 0.1.1 dated 2015-08-19
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/googleAuthR.R | 2 ++ R/googleAuthR_generator.R | 20 ++++++++++++-------- README.md | 8 ++++++++ inst/doc/googleAuthR.Rmd | 2 +- inst/doc/googleAuthR.html | 6 +++--- man/Authentication.Rd | 2 +- man/googleAuthR.Rd | 3 +++ vignettes/googleAuthR.Rmd | 2 +- 10 files changed, 43 insertions(+), 26 deletions(-)
Title: Print Nicely Formatted Comments for Use in Script Files
Description: Functions to
produce nicely formatted comments to use in R-scripts (or
Latex/HTML/markdown etc). A comment with formatting is printed to the
console and can then be copied to a script.
Author: Erik Bulow
Maintainer: Erik Bulow <erik.bulow@rccvast.se>
Diff between commentr versions 0.1 dated 2014-10-20 and 1.0.1 dated 2015-08-19
commentr-0.1/commentr/R/comment_line.R |only commentr-0.1/commentr/tests/testthat/test-comment_line.R |only commentr-1.0.1/commentr/DESCRIPTION | 10 commentr-1.0.1/commentr/MD5 | 37 +-- commentr-1.0.1/commentr/NAMESPACE | 3 commentr-1.0.1/commentr/NEWS |only commentr-1.0.1/commentr/R/block_comment.R | 43 +-- commentr-1.0.1/commentr/R/commentr.R | 74 +++--- commentr-1.0.1/commentr/R/header_comment.R | 73 +++--- commentr-1.0.1/commentr/R/help_functions.R | 38 ++- commentr-1.0.1/commentr/R/line_comment.R | 24 + commentr-1.0.1/commentr/README.md | 146 ++++++------ commentr-1.0.1/commentr/inst |only commentr-1.0.1/commentr/man/comment.Rd | 89 ++++--- commentr-1.0.1/commentr/man/comment_end.Rd | 4 commentr-1.0.1/commentr/man/comment_start.Rd | 4 commentr-1.0.1/commentr/man/comment_width.Rd | 3 commentr-1.0.1/commentr/man/empty_line.Rd | 4 commentr-1.0.1/commentr/man/full_line.Rd | 4 commentr-1.0.1/commentr/man/out.Rd |only commentr-1.0.1/commentr/tests/testthat/test-header_coment.R | 1 21 files changed, 339 insertions(+), 218 deletions(-)
Title: R-Based API for Accessing the MSKCC Cancer Genomics Data Server
(CGDS)
Description: Provides a basic set of R functions for querying the Cancer
Genomics Data Server (CGDS), hosted by the Computational Biology Center at
Memorial-Sloan-Kettering Cancer Center (MSKCC).
Author: Anders Jacobsen <jacobsen@cbio.mskcc.org>
Maintainer: Augustin Luna <lunaa@cbio.mskcc.org>
Diff between cgdsr versions 1.1.33 dated 2015-01-02 and 1.2.3 dated 2015-08-19
cgdsr-1.1.33/cgdsr/ChangeLog |only cgdsr-1.2.3/cgdsr/DESCRIPTION | 25 +++++++++++++----------- cgdsr-1.2.3/cgdsr/MD5 | 11 +++++----- cgdsr-1.2.3/cgdsr/NAMESPACE | 28 +++++++++++++++++++++------ cgdsr-1.2.3/cgdsr/R/cgdsr.R | 36 +++++++++++++++-------------------- cgdsr-1.2.3/cgdsr/inst/doc/cgdsr.pdf |binary cgdsr-1.2.3/cgdsr/inst/tests |only cgdsr-1.2.3/cgdsr/tests |only 8 files changed, 58 insertions(+), 42 deletions(-)
Title: Coarsened Exact Matching
Description: Implementation of the Coarsened Exact Matching algorithm.
Author: Iacus, Stefano M., King, Gary, Porro, Giuseppe
Maintainer: Stefano M. Iacus <stefano.iacus@unimi.it>
Diff between cem versions 1.1.16 dated 2015-06-04 and 1.1.17 dated 2015-08-19
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ NAMESPACE | 6 ++++-- build/vignette.rds |binary inst/doc/JSSstyle/jss.pdf |binary inst/doc/cem.Rnw | 3 ++- inst/doc/coarsen1.pdf |binary inst/doc/teff.pdf |binary man/att.Rd | 27 +++++++++++++++------------ man/cem.Rd | 2 ++ man/imbalance.Rd | 2 ++ man/pscoreSelect.Rd | 4 +++- vignettes/cem.Rnw | 7 ++++--- 13 files changed, 47 insertions(+), 34 deletions(-)
Title: Streams of Random Numbers
Description: Unified object oriented interface for multiple independent streams of random numbers from different sources.
Author: Josef Leydold <josef.leydold@wu.ac.at>
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>
Diff between rstream versions 1.3.3 dated 2015-07-17 and 1.3.4 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 1 + NEWS | 7 ++++++- inst/doc/rstream.pdf |binary man/rstream-package.Rd | 4 ++-- 6 files changed, 18 insertions(+), 12 deletions(-)
Title: Libreria Del Laboratorio Di Statistica Con R
Description: Insieme di funzioni di supporto al volume "Laboratorio di
Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006.
This package contains sets of functions defined in "Laboratorio
di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia,
2006. Function names and docs are in italian as well.
Author: Stefano M.Iacus <stefano.iacus@unimi.it> and Guido Masarotto
<guido@sirio.stat.unipd.it>
Maintainer: Stefano M.Iacus <stefano.iacus@unimi.it>
Diff between labstatR versions 1.0.7 dated 2012-08-21 and 1.0.8 dated 2015-08-19
labstatR-1.0.7/labstatR/man/hist.pf.Rd |only labstatR-1.0.7/labstatR/man/mean.a.Rd |only labstatR-1.0.7/labstatR/man/mean.g.Rd |only labstatR-1.0.8/labstatR/DESCRIPTION | 13 +++++++------ labstatR-1.0.8/labstatR/MD5 | 14 +++++++------- labstatR-1.0.8/labstatR/NAMESPACE | 4 ++++ labstatR-1.0.8/labstatR/R/labstatR.R | 2 +- labstatR-1.0.8/labstatR/R/zzz.R | 5 ++++- labstatR-1.0.8/labstatR/man/histpf.Rd |only labstatR-1.0.8/labstatR/man/meana.Rd |only labstatR-1.0.8/labstatR/man/meang.Rd |only 11 files changed, 23 insertions(+), 15 deletions(-)
Title: Boosting Methods for GAMLSS
Description: Boosting models for fitting generalized additive models for
location, shape and scale (GAMLSS) to potentially high dimensional
data.
Author: Benjamin Hofner, Andreas Mayr, Nora Fenske, Matthias Schmid
Maintainer: Benjamin Hofner <benjamin.hofner@fau.de>
Diff between gamboostLSS versions 1.1-3 dated 2015-01-12 and 1.2-0 dated 2015-08-19
ChangeLog | 223 ++++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 15 +- MD5 | 53 +++++---- NAMESPACE | 19 ++- R/as.families.R | 161 ++++++++++++----------------- R/cvrisk.R | 6 - R/families.R | 231 ++++++++++++++++-------------------------- R/helpers.R | 66 +++++++++++- R/mboostLSS.R | 10 + R/methods.R | 75 +++++++++++++ build |only data/india.RData |binary data/india.bnd.RData |binary inst/CITATION | 25 ++++ inst/NEWS.Rd | 47 +++++++- inst/doc |only man/as.families.Rd | 25 +++- man/cvrisk.Rd | 25 +++- man/families.Rd | 66 ++++++++---- man/gamboostLSS-package.Rd | 26 ++-- man/india.Rd | 12 +- man/mboostLSS.Rd | 50 +++------ man/methods.Rd | 73 ++++++++----- man/weighted_median.Rd |only tests/regtest-families.R | 48 ++++++++ tests/regtest-mstop.R | 3 tests/regtest-stabilization.R |only vignettes |only 28 files changed, 880 insertions(+), 379 deletions(-)
Title: Comprehensive Research Synthesis Tools for Systematic Reviews
and Meta-Analysis
Description: Functionalities for facilitating systematic reviews, data extractions, and meta-analyses. It includes a GUI (graphical user interface) to help screen the abstracts and titles of bibliographic data; tools to assign screening effort across multiple collaborators/reviewers and to assess inter-reviewer reliability; tools to help automate the download and retrieval of journal PDF articles from online databases; automated and manual data extraction from scatter-plot and bar-plot images; PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) flow diagrams; simple imputation tools to fill gaps in incomplete or missing study parameters; generation of random effects sizes for Hedges' d, log response ratio, odds ratio, and correlation coefficients for Monte Carlo experiments; covariance equations for modelling dependencies among multiple effect sizes (e.g., effect sizes with a common control); and finally summaries that replicate analyses and outputs from widely used but no longer updated meta-analysis software. Funding for this package was supported by National Science Foundation (NSF) grants DBI-1262545 and DEB-1451031.
Author: Marc J. Lajeunesse [aut, cre]
Maintainer: Marc J. Lajeunesse <lajeunesse@usf.edu>
Diff between metagear versions 0.1 dated 2015-05-21 and 0.2 dated 2015-08-19
DESCRIPTION | 14 ++--- MD5 | 84 +++++++++++++++++++--------------- NAMESPACE | 25 ++++++++++ NEWS.md |only R/MA_effectsTable.R | 1 R/PDF_download.R | 1 R/PDFs_collect.R | 3 - R/abstract_screener.R | 9 ++- R/browse_DOI.R | 1 R/covariance_commonControl.R | 2 R/effort_initialize.R | 2 R/effort_merge.R | 1 R/effort_redistribute.R | 2 R/effort_summary.R | 5 +- R/figure_add.R |only R/figure_barPlot.R |only R/figure_display.R |only R/figure_displayDetectedPoints.R | 1 R/figure_displayDetections.R | 1 R/figure_extractDetectedPoints.R | 1 R/figure_removeOutlyingPoints.R | 10 ++-- R/figure_scatterPlot.R | 3 - R/figure_utils.R | 4 + R/impute_missingness.R | 2 R/isPDF.R | 2 R/metagear_data.R | 13 +++++ R/random_N.R | 1 R/random_RR.R | 1 R/random_d.R | 1 R/random_pairedN.R | 3 - R/random_r.R | 1 R/replicate_MetaWin2.0.R | 5 +- data/Kortum_and_Acymyan_2013_Fig4.rda |only inst/CITATION | 10 ++-- man/Kortum_and_Acymyan_2013_Fig4.Rd |only man/abstract_screener.Rd | 6 +- man/effort_initialize.Rd | 2 man/effort_summary.Rd | 2 man/figure_add.Rd |only man/figure_barPlot.Rd |only man/figure_display.Rd |only man/figure_removeOutlyingPoints.Rd | 10 ++-- man/figure_scatterPlot.Rd | 2 man/impute_missingness.Rd | 2 man/isPDF.Rd | 2 man/random_pairedN.Rd | 2 man/replicate_MetaWin2.0.Rd | 3 - vignettes |only 48 files changed, 155 insertions(+), 85 deletions(-)
Title: Learning Causal Cyclic Graphs from Unknown Shift Interventions
Description: Code for 'backShift', an algorithm to estimate the connectivity
matrix of a directed (possibly cyclic) graph with hidden variables. The
underlying system is required to be linear and we assume that observations
under different shift interventions are available. For more details,
see <http://arxiv.org/abs/1506.02494>.
Author: Christina Heinze <heinze@stat.math.ethz.ch>
Maintainer: Christina Heinze <heinze@stat.math.ethz.ch>
Diff between backShift versions 0.1.1 dated 2015-06-09 and 0.1.2 dated 2015-08-19
backShift-0.1.1/backShift/demo |only backShift-0.1.2/backShift/DESCRIPTION | 14 +++++--- backShift-0.1.2/backShift/MD5 | 29 +++++++++++------- backShift-0.1.2/backShift/NAMESPACE | 6 ++- backShift-0.1.2/backShift/R/checkDiagonalization.R |only backShift-0.1.2/backShift/R/computeVarEnv.R | 2 - backShift-0.1.2/backShift/R/edgeRetention.R | 14 +++----- backShift-0.1.2/backShift/R/edgeSelection.R | 11 ++++-- backShift-0.1.2/backShift/R/plotGraph.R | 6 +-- backShift-0.1.2/backShift/R/plotInterventionVar.R |only backShift-0.1.2/backShift/R/simulate.R | 12 +++++-- backShift-0.1.2/backShift/build |only backShift-0.1.2/backShift/inst |only backShift-0.1.2/backShift/man/backShift.Rd | 21 ++++++++----- backShift-0.1.2/backShift/man/plotDiagonalization.Rd |only backShift-0.1.2/backShift/man/plotGraphEdgeAttr.Rd | 4 +- backShift-0.1.2/backShift/man/plotInterventionVars.Rd |only backShift-0.1.2/backShift/vignettes |only 18 files changed, 72 insertions(+), 47 deletions(-)
Title: R Interface to the UNU.RAN Random Variate Generators
Description: Interface to the UNU.RAN library for Universal Non-Uniform RANdom variate generators.
Thus it allows to build non-uniform random number generators from quite arbitrary
distributions. In particular, it provides an algorithm for fast numerical inversion
for distribution with given density function.
In addition, the package contains densities, distribution functions and quantiles
from a couple of distributions.
Author: Josef Leydold and Wolfgang H\"ormann
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>
Diff between Runuran versions 0.22.0 dated 2015-07-17 and 0.23.0 dated 2015-08-19
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS | 5 +++++ inst/doc/Runuran.pdf |binary man/Runuran-package.Rd | 4 ++-- src/Makevars.in | 2 +- vignettes/inputs/version.tex | 2 +- 8 files changed, 21 insertions(+), 15 deletions(-)
Title: Basic Functions for Power Analysis
Description: Power analysis functions along the lines of Cohen (1988).
Author: Stephane Champely [aut],
Claus Ekstrom [ctb],
Peter Dalgaard [ctb],
Jeffrey Gill [ctb],
Jan Wunder [ctb],
Helios De Rosario [cre]
Maintainer: Helios De Rosario <helios.derosario@gmail.com>
Diff between pwr versions 1.1-2 dated 2015-02-27 and 1.1-3 dated 2015-08-19
ChangeLog | 8 ++++++++ DESCRIPTION | 13 ++++++++----- MD5 | 10 +++++----- NAMESPACE | 3 +++ R/pwr.t2n.test.R | 5 ++--- man/pwr-package.Rd | 6 +++--- 6 files changed, 29 insertions(+), 16 deletions(-)
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 <R-core@R-project.org>
Diff between nlme versions 3.1-121 dated 2015-06-29 and 3.1-122 dated 2015-08-19
ChangeLog | 10 ++++++++++ DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/nlmefit.c | 15 ++++++++++----- 4 files changed, 27 insertions(+), 12 deletions(-)
Title: Land Use Change Modelling in R
Description: Classes and methods for spatially explicit land use change
modelling in R.
Author: Simon Moulds <simon.moulds10@imperial.ac.uk>
Maintainer: Simon Moulds <simon.moulds10@imperial.ac.uk>
Diff between lulcc versions 1.0.0 dated 2015-07-30 and 1.0.1 dated 2015-08-19
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- src/allocateclues.c | 8 ++++---- src/allow.c | 1 - src/total.c | 4 ++-- 5 files changed, 13 insertions(+), 14 deletions(-)
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 <R-core@R-project.org>
Diff between foreign versions 0.8-65 dated 2015-07-02 and 0.8-66 dated 2015-08-19
ChangeLog | 4 ++++ DESCRIPTION | 6 +++--- MD5 | 6 +++--- src/spss.c | 3 ++- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Distance Based Ranking Models
Description: Implements distance based probability models for ranking data.
The supported distance metrics include Kendall distance, Spearman distance, Footrule distance, Hamming distance,
and Weigthed-tau distance and geo-Weighted Kendall distance.
Mixture models are also supported.
Author: Zhaozhi Qian
Maintainer: Zhaozhi Qian <qianzhaozhi@connect.hku.hk>
Diff between rankdist versions 1.0.0 dated 2015-07-12 and 1.1.0 dated 2015-08-19
rankdist-1.0.0/rankdist/README.md |only rankdist-1.1.0/rankdist/DESCRIPTION | 11 rankdist-1.1.0/rankdist/MD5 | 64 +- rankdist-1.1.0/rankdist/NAMESPACE | 7 rankdist-1.1.0/rankdist/R/RcppExports.R | 16 rankdist-1.1.0/rankdist/R/class.R | 58 ++ rankdist-1.1.0/rankdist/R/method.R | 240 +++++++--- rankdist-1.1.0/rankdist/R/rankdist.R | 95 ++- rankdist-1.1.0/rankdist/R/utils.R | 59 ++ rankdist-1.1.0/rankdist/man/DistanceBlock.Rd | 6 rankdist-1.1.0/rankdist/man/DistanceMatrix.Rd | 5 rankdist-1.1.0/rankdist/man/DistancePair.Rd | 6 rankdist-1.1.0/rankdist/man/GenerateExample.Rd | 12 rankdist-1.1.0/rankdist/man/GenerateExampleTopQ.Rd | 15 rankdist-1.1.0/rankdist/man/HashtoRank.Rd | 4 rankdist-1.1.0/rankdist/man/ModelSummary.Rd | 2 rankdist-1.1.0/rankdist/man/MomentsEst.Rd | 2 rankdist-1.1.0/rankdist/man/OrderingToRanking.Rd | 2 rankdist-1.1.0/rankdist/man/RankControl-class.Rd | 2 rankdist-1.1.0/rankdist/man/RankControlCayley-class.Rd |only rankdist-1.1.0/rankdist/man/RankControlFootrule-class.Rd |only rankdist-1.1.0/rankdist/man/RankControlHamming-class.Rd |only rankdist-1.1.0/rankdist/man/RankControlKendall-class.Rd | 2 rankdist-1.1.0/rankdist/man/RankControlPhiComponent-class.Rd | 2 rankdist-1.1.0/rankdist/man/RankControlSpearman-class.Rd |only rankdist-1.1.0/rankdist/man/RankControlWeightedKendall-class.Rd | 2 rankdist-1.1.0/rankdist/man/RankControlWtau-class.Rd |only rankdist-1.1.0/rankdist/man/RankData-class.Rd | 10 rankdist-1.1.0/rankdist/man/RankDistanceModel.Rd | 8 rankdist-1.1.0/rankdist/man/RankInit-class.Rd | 2 rankdist-1.1.0/rankdist/man/RanktoHash.Rd | 5 rankdist-1.1.0/rankdist/man/apa_obj.Rd | 2 rankdist-1.1.0/rankdist/man/apa_partial_obj.Rd | 2 rankdist-1.1.0/rankdist/src/RcppExports.cpp | 150 ++++-- rankdist-1.1.0/rankdist/src/utils.cpp | 83 +++ rankdist-1.1.0/rankdist/tests/testthat/test_FindCayley.R |only rankdist-1.1.0/rankdist/tests/testthat/test_breaktie.R |only 37 files changed, 660 insertions(+), 214 deletions(-)