Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled.
Author: Ivair Ramos Silva and Martin Kulldorff
Maintainer: Ivair Ramos Silva <jamesivair@yahoo.com.br>
Diff between Sequential versions 2.0.2 dated 2015-10-23 and 2.1 dated 2016-05-13
DESCRIPTION | 10 +++---- MD5 | 48 ++++++++++++++++++++----------------- R/Analyze.Binomial.R | 36 ++++++++++++++++++++++++---- R/Analyze.Poisson.R |only R/AnalyzeSetUp.Binomial.R | 34 +++++++++++++++++--------- R/AnalyzeSetUp.Poisson.R |only R/CV.Binomial.R | 18 +++++++++++--- R/CV.G.Binomial.R | 27 +++++++++++++++++---- R/CV.G.Poisson.R | 54 +++++++++++++++++++++++++++++------------- R/CV.Poisson.R | 22 ++++++++--------- R/Performance.Binomial.R | 19 ++++++++++++-- R/Performance.G.Binomial.R | 21 ++++++++++++++-- R/Performance.G.Poisson.R | 40 +++++++++++++++++++------------ R/Performance.Poisson.R | 19 ++++++++------ R/SampleSize.Binomial.R | 26 ++++++++++++++++---- man/Analyze.Binomial.Rd | 15 +++++++---- man/Analyze.Poisson.Rd |only man/AnalyzeSetUp.Binomial.Rd | 8 +++++- man/AnalyzeSetUp.Poisson.Rd |only man/CV.Binomial.Rd | 19 +++++++++++--- man/CV.G.Binomial.Rd | 14 +++++++++- man/CV.G.Poisson.Rd | 10 +++---- man/Performance.Binomial.Rd | 15 ++++++++++- man/Performance.G.Binomial.Rd | 15 ++++++++++- man/Performance.G.Poisson.Rd | 10 +++---- man/SampleSize.Binomial.Rd | 14 +++++++++- man/Sequential-package.Rd | 52 +++++++++++++++++++++++++++------------- 27 files changed, 390 insertions(+), 156 deletions(-)
Title: Gene and Splice Site Annotation Using Annotation Data from
Ensembl and UCSC Genome Browsers
Description: Contains functionality for import and managing of downloaded genome annotation Data from Ensembl genome browser (European Bioinformatics Institute) and from UCSC genome browser (University of California, Santa Cruz) and annotation routines for genomic positions and splice site positions.
Author: Wolfgang Kaisers
Maintainer: Wolfgang Kaisers <kaisers@med.uni-duesseldorf.de>
Diff between refGenome versions 1.6.0 dated 2016-03-06 and 1.7.0 dated 2016-05-13
ChangeLog | 1 DESCRIPTION | 9 - MD5 | 34 +++-- NAMESPACE | 18 ++ NEWS | 17 ++ R/geneModel.r |only R/refGenome.r | 160 ++++++++++++++++---------- build/vignette.rds |binary inst/doc/readGTF.pdf |binary inst/doc/refGenome.R | 69 +++++++++++ inst/doc/refGenome.Rnw | 203 +++++++++++++++++++++++++-------- inst/doc/refGenome.pdf |binary inst/extdata/hs_en82_grch38_small.gtf |only man/ensemblGenome-class.Rd | 3 man/geneList-class.Rd |only man/geneModel-class.Rd |only man/getGeneId.Rd |only man/refExons-class.Rd | 4 man/transcriptModel-class.Rd |only man/ucscGenome-class.Rd | 7 - vignettes/refGenome.Rnw | 206 +++++++++++++++++++++++++--------- 21 files changed, 547 insertions(+), 184 deletions(-)
Title: R Commander Plug-in for MPA Statistics
Description: Extends R Commander with a unified menu of new and pre-existing
statistical functions related to public management and policy analysis
statistics. Functions and menus have been renamed according to the
usage in PMGT 630 in the Master of Public Administration program at
Brigham Young University.
Author: Andrew Heiss, Richard Payne, Christa Schank, Jessica Reese
Maintainer: Andrew Heiss <andrew@andrewheiss.com>
Diff between RcmdrPlugin.MPAStats versions 1.2.0 dated 2016-02-16 and 1.2.1 dated 2016-05-13
CHANGELOG | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/DataframeSummary.R | 9 ++++++--- inst/CHANGELOG | 5 +++++ 5 files changed, 24 insertions(+), 11 deletions(-)
More information about RcmdrPlugin.MPAStats at CRAN
Permanent link
Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also included.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] (Contributions to Censored QR code),
Pin Tian Ng [ctb] (Contributions to Sparse QR code),
Achim Zeileis [ctb] (Contributions to dynrq code essentially identical
to his dynlm code),
Philip Grosjean [ctb] (Contributions to nlrq code),
Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my
everlasting shame -- how could I have been so slow to adopt R!) and
for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.21 dated 2016-02-12 and 5.24 dated 2016-05-13
quantreg-5.21/quantreg/build |only quantreg-5.21/quantreg/src/chlfct.c |only quantreg-5.21/quantreg/src/cholesky.h |only quantreg-5.21/quantreg/src/sparseM.h |only quantreg-5.21/quantreg/src/srqfn.c |only quantreg-5.21/quantreg/src/srqfnc.c |only quantreg-5.24/quantreg/DESCRIPTION | 6 +-- quantreg-5.24/quantreg/MD5 | 38 +++++++++++---------- quantreg-5.24/quantreg/R/boot.R | 52 +++++++++++++++++++++++------- quantreg-5.24/quantreg/R/crq.R | 12 ++++-- quantreg-5.24/quantreg/R/dynrq.R | 2 - quantreg-5.24/quantreg/R/quantreg.R | 30 +++++++++++++---- quantreg-5.24/quantreg/R/rqss.R | 4 +- quantreg-5.24/quantreg/R/sfn.R | 36 +++++++++++++------- quantreg-5.24/quantreg/inst/ChangeLog | 36 ++++++++++++++++++++ quantreg-5.24/quantreg/man/boot.rq.Rd | 41 +++++++++++++++++------ quantreg-5.24/quantreg/man/dynrq.Rd | 19 ++++++++++ quantreg-5.24/quantreg/man/rq.fit.hogg.Rd | 6 ++- quantreg-5.24/quantreg/man/summary.rq.Rd | 17 +++++++-- quantreg-5.24/quantreg/src/bound.f |only quantreg-5.24/quantreg/src/boundc.f |only quantreg-5.24/quantreg/src/chlfct.f |only quantreg-5.24/quantreg/src/ratfor/sboot.f |only quantreg-5.24/quantreg/src/ratfor/sboot.r |only quantreg-5.24/quantreg/src/ratfor/spwy.R |only quantreg-5.24/quantreg/src/srqfn.f |only quantreg-5.24/quantreg/src/srqfnc.f |only 27 files changed, 225 insertions(+), 74 deletions(-)
Title: Data Generation with Poisson, Binary and Ordinal Components
Description: Generation of multiple count, binary and ordinal variables simultaneously
given the marginal characteristics and association structure. Throughout the package,
the word 'Poisson' is used to imply count data under the assumption of Poisson distribution.
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan <inanx002@umn.edu>
Diff between PoisBinOrd versions 1.1 dated 2015-03-01 and 1.2 dated 2016-05-13
DESCRIPTION | 12 ++++++------ MD5 | 28 ++++++++++++++-------------- NAMESPACE | 3 +++ R/gen.PoisBinOrd.R | 7 ++----- man/PoisBinOrd-package.Rd | 12 ++++++------ man/correlation.bound.check.Rd | 6 ++++-- man/correlation.limits.Rd | 16 ++++++++-------- man/gen.PoisBinOrd.Rd | 6 +++--- man/intermediate.corr.BO.Rd | 38 +++++++++++++++++++------------------- man/intermediate.corr.PP.Rd | 6 +++--- man/intermediate.corr.P_BO.Rd | 6 +++--- man/overall.corr.mat.Rd | 2 +- man/validation.bin.Rd | 14 +++++--------- man/validation.corr.Rd | 4 ++-- man/validation.ord.Rd | 12 ++++++------ 15 files changed, 85 insertions(+), 87 deletions(-)
Title: Data Generation with Poisson, Binary and Continuous Components
Description: Generation of multiple count, binary and continuous variables simultaneously
given the marginal characteristics and association structure. Throughout the package,
the word 'Poisson' is used to imply count data under the assumption of Poisson distribution.
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan <inanx002@umn.edu>
Diff between PoisBinNonNor versions 1.0 dated 2015-03-01 and 1.1 dated 2016-05-13
DESCRIPTION | 12 ++++++------ MD5 | 32 ++++++++++++++++---------------- NAMESPACE | 5 +++++ man/PoisBinNonNor-package.Rd | 10 +++++----- man/correlation.bound.check.Rd | 4 ++-- man/correlation.limits.Rd | 16 ++++++++-------- man/gen.PoisBinNonNor.Rd | 18 ++++++++---------- man/intermediate.corr.BB.Rd | 2 +- man/intermediate.corr.BC.Rd | 8 ++++---- man/intermediate.corr.CC.Rd | 6 ++++-- man/intermediate.corr.PB.Rd | 6 +++--- man/intermediate.corr.PC.Rd | 8 ++++---- man/intermediate.corr.PP.Rd | 6 +++--- man/overall.corr.mat.Rd | 4 ++-- man/validation.bin.Rd | 4 ---- man/validation.corr.Rd | 8 ++++---- man/validation.skewness.kurtosis.Rd | 7 +------ 17 files changed, 76 insertions(+), 80 deletions(-)
Title: Penalized Generalized Estimating Equations in High-Dimension
Description: Fits penalized generalized estimating equations to longitudinal data with high-dimensional covariates.
Author: Gul Inan (Visiting scholar, University of Minnesota), Jianhui Zhou (Associate Professor, University of Virginia) and Lan Wang (Professor, University of Minnesota)
Maintainer: Gul Inan <inanx002@umn.edu>
Diff between PGEE versions 1.1 dated 2016-05-10 and 1.2 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/MGee.R | 2 +- R/PGee.R | 2 +- man/PGee.Rd | 5 ++--- 5 files changed, 12 insertions(+), 13 deletions(-)
Title: Machine Learning Evaluation Metrics
Description: A collection of evaluation metrics, including loss, score and
utility functions, that measure regression, classification and ranking performance.
Author: Yachen Yan [aut, cre]
Maintainer: Yachen Yan <yanyachen21@gmail.com>
Diff between MLmetrics versions 1.1.0 dated 2016-05-01 and 1.1.1 dated 2016-05-13
MLmetrics-1.1.0/MLmetrics/man/Possion_LogLoss.Rd |only MLmetrics-1.1.1/MLmetrics/DESCRIPTION | 6 +++--- MLmetrics-1.1.1/MLmetrics/MD5 | 8 ++++---- MLmetrics-1.1.1/MLmetrics/NAMESPACE | 2 +- MLmetrics-1.1.1/MLmetrics/R/Count.R | 12 ++++++------ MLmetrics-1.1.1/MLmetrics/man/Poisson_LogLoss.Rd |only 6 files changed, 14 insertions(+), 14 deletions(-)
Title: Multilevel Mediation Analysis
Description: Used for mediation analysis with generalized multilevel models.
Author: Qingzhao Yu, Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mlma versions 2.0-0 dated 2016-03-04 and 3.0-0 dated 2016-05-13
DESCRIPTION | 10 - MD5 | 15 - NAMESPACE | 4 R/mlma.r | 433 +++++++++++++++++++++++++++++++++++++---------- man/boot.mlma.Rd | 16 + man/data.org.Rd | 19 ++ man/mlma.Rd | 45 ++++ man/summary.mlma.Rd |only man/summary.mlma.boot.Rd | 5 9 files changed, 438 insertions(+), 109 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from RevMan 5;
- prediction interval, Hartung-Knapp and Paule-Mandel method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression (if R package metafor is installed);
- generalised linear mixed models (if R packages metafor, lme4, numDeriv, and BiasedUrn are installed).
Author: Guido Schwarzer [cre, aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.3-2 dated 2015-12-02 and 4.4-0 dated 2016-05-13
DESCRIPTION | 15 +- MD5 | 61 ++++----- NAMESPACE | 2 NEWS | 120 +++++++++++++++++ R/catmeth.R | 40 +++++ R/forest.meta.R | 130 +++++++++---------- R/format.NA.R |only R/format.p.R | 6 R/funnel.meta.R | 8 - R/is.installed.package.R | 55 +++++--- R/meta-internal.R | 22 ++- R/metabin.R | 188 ++++++++++++++++++++------- R/metagen.R | 23 ++- R/metainc.R | 130 ++++++++++++++----- R/metaprop.R | 119 +++++++++++++++++ R/metareg.R | 41 +++++- R/p.ci.R | 16 +- R/paulemandel.R | 29 ++-- R/print.meta.R | 128 +++++++++++-------- R/print.summary.meta.R | 221 +++++++++++++++++++------------- R/settings.meta.R | 135 ++++++++++++++++++-- R/summary.meta.R | 37 ++++- R/update.meta.R | 37 ++++- man/forest.Rd | 10 + man/metabias.Rd | 6 man/metabin.Rd | 316 ++++++++++++++++++++++++++++++++++++----------- man/metainc.Rd | 142 ++++++++++++++++----- man/metaprop.Rd | 92 ++++++++++--- man/metareg.Rd | 34 ++--- man/print.meta.Rd | 31 ++++ man/settings.meta.Rd | 10 - man/update.meta.Rd | 9 - 32 files changed, 1631 insertions(+), 582 deletions(-)
Title: Lake Morphometry Metrics in R
Description: Lake morphometry metrics are used by limnologists to understand,
among other things, the ecological processes in a lake. Traditionally, these
metrics are calculated by hand, with planimeters, and increasingly with
commercial GIS products. All of these methods work; however, they are either
outdated, difficult to reproduce, or require expensive licenses to use. The
\code{lakemorpho} package provides the tools to calculate a typical suite
of these metrics from an input elevation model and lake polygon. The metrics
currently supported are: fetch, maximum length, maximum width, mean width,
maximum depth, mean depth, shoreline development, shoreline length, surface
area, and volume.
Author: Jeffrey W. Hollister [aut, cre]
Maintainer: Jeffrey W. Hollister <hollister.jeff@epa.gov>
Diff between lakemorpho versions 1.0 dated 2014-08-29 and 1.0.2 dated 2016-05-13
DESCRIPTION | 25 +++++++--- MD5 | 87 +++++++++++++++++++++----------------- NAMESPACE | 8 +++ R/calcLakeMetrics.R | 7 +-- R/lakeFetch.R | 22 ++++----- R/lakeMaxDepth.R | 7 ++- R/lakeMaxLength.R | 9 ++- R/lakeMaxWidth.R | 35 ++++++++++----- R/lakeMeanDepth.R | 6 ++ R/lakeMeanWidth.R | 6 +- R/lakeMorphoClass.R | 50 ++++++++++----------- R/lakeShorelineDevelopment.R | 2 R/lakeShorelineLength.R | 2 R/lakeSurfaceArea.R | 2 R/lakeSurroundTopo.R | 16 +++---- R/lakeVolume.R | 6 ++ R/lakes.R | 76 ++++++++++++++++----------------- R/plot.lakemorpho.R | 37 ++++++++++++---- README.md | 91 +++++++++++++++++++++------------------- data/lakes.RData |binary man/calcLakeMetrics.Rd | 36 ++++++++------- man/exampleElev.Rd | 5 +- man/exampleLake.Rd | 7 +-- man/inputLM.Rd | 5 +- man/lakeFetch.Rd | 17 +++---- man/lakeMaxDepth.Rd | 25 +++++----- man/lakeMaxLength.Rd | 31 +++++++------ man/lakeMaxWidth.Rd | 28 +++++++----- man/lakeMeanDepth.Rd | 7 +-- man/lakeMeanWidth.Rd | 13 +++-- man/lakeMorphoClass.Rd | 14 +++--- man/lakeShorelineDevelopment.Rd | 11 ++-- man/lakeShorelineLength.Rd | 11 ++-- man/lakeSurfaceArea.Rd | 9 ++- man/lakeSurroundTopo.Rd | 16 +++---- man/lakeVolume.Rd | 17 +++---- man/lakemorpho.Rd | 19 ++++---- man/plot.lakeMorpho.Rd | 17 ++++++- vignettes |only 39 files changed, 452 insertions(+), 330 deletions(-)
Title: Access Open Data Through the Junar API
Description:
The Junar API is a commercial platform to organize and publish data
<http://junar.com>. It has been used in a number of national and local
government Open Data initiatives in Latin America and the USA. This package
is a wrapper to make it easier to access data made public through the Junar
API.
Author: Frans van Dunné [aut, cre]
Maintainer: Frans van Dunné <frans@ixpantia.com>
Diff between junr versions 0.1.0 dated 2016-03-28 and 0.1.1 dated 2016-05-13
DESCRIPTION | 8 +-- MD5 | 37 +++++++------- NEWS.md |only R/getdata.R | 29 ++++------- R/inspectdata.R | 9 +-- R/utils.R | 16 +++--- README.md | 2 build/vignette.rds |binary inst/doc/acceder-junar-api.R | 5 + inst/doc/acceder-junar-api.Rmd | 42 ++++++++++++--- inst/doc/acceder-junar-api.html | 100 ++++++++++++++++++++------------------ inst/doc/access-junar-api.R | 8 +-- inst/doc/access-junar-api.Rmd | 48 +++++++++++------- inst/doc/access-junar-api.html | 91 +++++++++++++++++----------------- man/clean_currency.Rd | 11 ++-- man/get_data.Rd | 6 +- tests/testthat/test-getdata.R | 46 +++++++++++++++++ tests/testthat/test-inspectdata.R | 11 ++++ vignettes/acceder-junar-api.Rmd | 42 ++++++++++++--- vignettes/access-junar-api.Rmd | 48 +++++++++++------- 20 files changed, 350 insertions(+), 209 deletions(-)
Title: Joint Mean-Covariance Models using 'Armadillo' and S4
Description: Fit joint mean-covariance models for longitudinal data. The models
and their components are represented using S4 classes and methods. The core
computational algorithms are implemented using the 'Armadillo' C++ library
for numerical linear algebra and 'RcppArmadillo' glue.
Author: Jianxin Pan [aut, cre],
Yi Pan [aut]
Maintainer: Jianxin Pan <Jianxin.Pan@manchester.ac.uk>
Diff between jmcm versions 0.1.2.0 dated 2016-04-15 and 0.1.3.0 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/jmcm.R | 12 ++++++++++-- R/jmcmControl.R | 6 ++++-- man/jmcm.Rd | 6 ++++-- man/jmcmControl.Rd | 5 ++++- 6 files changed, 31 insertions(+), 16 deletions(-)
Title: IGM MEA Analysis
Description: Software tools for the characterization of neuronal networks as recorded on multi-electrode arrays.
Author: Quanli Wang, Sahar Gelfman, Diana Hall, Ryan Dhindsa
Maintainer: Sahar Gelfman <sg3261@columbia.edu>
Diff between IGM.MEA versions 0.3.1 dated 2016-04-01 and 0.3.2 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/NetworkBurst_functions.R | 7 ++++++- R/aggregate_data.R | 9 ++++++++- R/make.raster.R | 35 ++++++++++++++++++++--------------- R/perm_plot.R | 29 ++++++++++++++++++----------- R/plotDistributions.R | 3 +++ 7 files changed, 65 insertions(+), 38 deletions(-)
Title: Highest (Posterior) Density Intervals
Description: A generic function and a set of methods to calculate highest density intervals for a variety of classes of objects which can specify a probability density distribution, including MCMC output, fitted density objects, and functions.
Author: Mike Meredith and John Kruschke
Maintainer: Mike Meredith <mmeredith@wcs.org>
Diff between HDInterval versions 0.1.2 dated 2016-03-20 and 0.1.3 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NAMESPACE | 4 +++- NEWS | 7 +++++++ R/hdi.R | 13 ++++++++++++- R/hdiVector.R | 3 ++- man/hdi.Rd | 30 +++++++++++++++++++++++------- 7 files changed, 57 insertions(+), 20 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors. The package has been developed and tested for binary data from GENEActiv and GENEA devices and .csv-export data from Actigraph devices. These devices are currently widely used in research on human daily physical activity.
Author: Vincent T van Hees [aut, cre],
Zhou Fang [ctb],
Jing Hua Zhao [ctb],
Severine Sabia [ctb]
Maintainer: Vincent T van Hees <vincentvanhees@gmail.com>
Diff between GGIR versions 1.2-6 dated 2016-05-10 and 1.2-7 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/g.analyse.R | 2 +- inst/NEWS.Rd | 10 +++++++--- man/GGIR-package.Rd | 4 ++-- 5 files changed, 18 insertions(+), 14 deletions(-)
Title: Provides Tests and Graphics for Assessing Tests of Equivalence
Description: Provides statistical tests and graphics for assessing tests
of equivalence. Such tests have similarity as the alternative
hypothesis instead of the null. Sample data sets are included.
Author: Andrew Robinson <A.Robinson@ms.unimelb.edu.au>
Maintainer: Andrew Robinson <A.Robinson@ms.unimelb.edu.au>
Diff between equivalence versions 0.7.1 dated 2016-02-10 and 0.7.2 dated 2016-05-13
ChangeLog | 9 ++++++++- DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 4 +++- R/print.tost.R |only R/tost.R | 2 ++ man/print.tost.Rd |only man/tost.Rd | 5 ++++- 8 files changed, 28 insertions(+), 12 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, and computing confidence intervals around incidence risk and incidence rate estimates. Miscellaneous functions for use in meta-analysis, diagnostic test interpretation, and sample size calculations.
Author: Mark Stevenson <mark.stevenson1@unimelb.edu.au> with contributions from Telmo Nunes, Cord Heuer, Jonathon Marshall, Javier Sanchez, Ron Thornton, Jeno Reiczigel, Jim Robison-Cox, Paola Sebastiani, Peter Solymos, Kazuki Yoshida, Geoff Jones, Sarah Pirikahu, Simon Firestone and Ryan Kyle
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 0.9-76 dated 2016-05-04 and 0.9-77 dated 2016-05-13
epiR-0.9-76/epiR/R/epi.2by2.r |only epiR-0.9-76/epiR/R/epi.betabuster.r |only epiR-0.9-76/epiR/R/epi.ccc.r |only epiR-0.9-76/epiR/R/epi.cpresids.r |only epiR-0.9-76/epiR/R/epi.directadj.r |only epiR-0.9-76/epiR/R/epi.equivb.r |only epiR-0.9-76/epiR/R/epi.equivc.r |only epiR-0.9-76/epiR/R/epi.noninfb.r |only epiR-0.9-76/epiR/R/epi.noninfc.r |only epiR-0.9-77/epiR/DESCRIPTION | 8 epiR-0.9-77/epiR/MD5 | 24 - epiR-0.9-77/epiR/R/epi.2by2.R |only epiR-0.9-77/epiR/R/epi.betabuster.R |only epiR-0.9-77/epiR/R/epi.ccc.R |only epiR-0.9-77/epiR/R/epi.cpresids.R |only epiR-0.9-77/epiR/R/epi.directadj.R |only epiR-0.9-77/epiR/R/epi.equivb.R |only epiR-0.9-77/epiR/R/epi.equivc.R |only epiR-0.9-77/epiR/R/epi.noninfb.R |only epiR-0.9-77/epiR/R/epi.noninfc.R |only epiR-0.9-77/epiR/R/epi.prev.R | 480 ++++++++++++++++++------------------ epiR-0.9-77/epiR/man/epi.prev.Rd | 10 22 files changed, 274 insertions(+), 248 deletions(-)
Title: Continuous-Time Movement Modeling
Description: Functions for identifying, fitting, and applying continuous-space, continuous-time stochastic movement models to animal tracking data.
Author: Chris H. Fleming and J. M. Calabrese
Maintainer: C. H. Fleming <flemingc@si.edu>
Diff between ctmm versions 0.3.1 dated 2016-02-24 and 0.3.2 dated 2016-05-13
ctmm-0.3.1/ctmm/man/ctmm.loglike.Rd |only ctmm-0.3.1/ctmm/man/zoom.Rd |only ctmm-0.3.2/ctmm/DESCRIPTION | 12 ctmm-0.3.2/ctmm/MD5 | 78 +- ctmm-0.3.2/ctmm/NAMESPACE | 39 - ctmm-0.3.2/ctmm/NEWS | 49 + ctmm-0.3.2/ctmm/R/ctmm.R |only ctmm-0.3.2/ctmm/R/generic.R | 208 ++++++ ctmm-0.3.2/ctmm/R/kde.R | 235 +++++-- ctmm-0.3.2/ctmm/R/krige.R | 35 - ctmm-0.3.2/ctmm/R/likelihood.R | 1002 +++++++------------------------- ctmm-0.3.2/ctmm/R/mean.R | 483 +++++++++++++-- ctmm-0.3.2/ctmm/R/overlap.R |only ctmm-0.3.2/ctmm/R/periodogram.R | 277 +++++--- ctmm-0.3.2/ctmm/R/select.R |only ctmm-0.3.2/ctmm/R/telemetry.R | 371 +++++++---- ctmm-0.3.2/ctmm/R/uere.R |only ctmm-0.3.2/ctmm/R/variogram.R | 228 +++---- ctmm-0.3.2/ctmm/TODO | 100 +-- ctmm-0.3.2/ctmm/build/vignette.rds |binary ctmm-0.3.2/ctmm/data/buffalo.rda |binary ctmm-0.3.2/ctmm/inst/doc/akde.html | 31 ctmm-0.3.2/ctmm/inst/doc/variogram.R | 17 ctmm-0.3.2/ctmm/inst/doc/variogram.Rmd | 25 ctmm-0.3.2/ctmm/inst/doc/variogram.html | 123 ++- ctmm-0.3.2/ctmm/man/akde.Rd | 13 ctmm-0.3.2/ctmm/man/akde.bandwidth.Rd | 2 ctmm-0.3.2/ctmm/man/as.telemetry.Rd | 9 ctmm-0.3.2/ctmm/man/buffalo.Rd | 10 ctmm-0.3.2/ctmm/man/ctmm-package.Rd | 6 ctmm-0.3.2/ctmm/man/ctmm.fit.Rd | 47 - ctmm-0.3.2/ctmm/man/export.Rd | 17 ctmm-0.3.2/ctmm/man/homerange.Rd | 2 ctmm-0.3.2/ctmm/man/occurrence.Rd | 6 ctmm-0.3.2/ctmm/man/overlap.Rd |only ctmm-0.3.2/ctmm/man/periodogram.Rd | 32 - ctmm-0.3.2/ctmm/man/plot.telemetry.Rd | 22 ctmm-0.3.2/ctmm/man/plot.variogram.Rd | 4 ctmm-0.3.2/ctmm/man/simulate.ctmm.Rd | 3 ctmm-0.3.2/ctmm/man/summary.UD.Rd | 5 ctmm-0.3.2/ctmm/man/uere.Rd |only ctmm-0.3.2/ctmm/man/variogram.Rd | 3 ctmm-0.3.2/ctmm/man/variogram.fit.Rd | 4 ctmm-0.3.2/ctmm/vignettes/variogram.Rmd | 25 44 files changed, 1985 insertions(+), 1538 deletions(-)
Title: Descriptive Analysis by Groups
Description: Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Perform figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotids Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data.
Author: Isaac Subirana, Joan Vila, Héctor Sanz, Gavin Lucas, Judith Peñafiel and David Giménez
Maintainer: Isaac Subirana <isubirana@imim.es>
Diff between compareGroups versions 3.2 dated 2016-02-19 and 3.2.1 dated 2016-05-13
compareGroups-3.2.1/compareGroups/DESCRIPTION | 14 compareGroups-3.2.1/compareGroups/MD5 | 116 - compareGroups-3.2.1/compareGroups/R/bar.plot.R | 2 compareGroups-3.2.1/compareGroups/R/bar2.plot.R | 4 compareGroups-3.2.1/compareGroups/R/box.plot.R | 2 compareGroups-3.2.1/compareGroups/R/compare.i.R | 4 compareGroups-3.2.1/compareGroups/R/compareGroups.default.R | 4 compareGroups-3.2.1/compareGroups/R/norm.plot.R | 4 compareGroups-3.2.1/compareGroups/build/vignette.rds |binary compareGroups-3.2.1/compareGroups/inst/app/global.R | 3 compareGroups-3.2.1/compareGroups/inst/app/help.html | 49 compareGroups-3.2.1/compareGroups/inst/app/server.R | 272 +++ compareGroups-3.2.1/compareGroups/inst/app/ui.R | 147 -- compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.cerulean.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.cosmo.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.cyborg.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.darkly.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.flatly.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.journal.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.lumen.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.paper.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.readable.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.sandstone.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.simplex.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.slate.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.spacelab.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.superhero.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.united.min.css |only compareGroups-3.2.1/compareGroups/inst/app/www/bootstrap.yeti.min.css |only compareGroups-3.2.1/compareGroups/inst/doc/changelog | 4 compareGroups-3.2.1/compareGroups/inst/doc/compareGroups_vignette.R | 706 ++-------- compareGroups-3.2.1/compareGroups/inst/doc/compareGroups_vignette.Rmd |only compareGroups-3.2.1/compareGroups/inst/doc/compareGroups_vignette.html |only compareGroups-3.2.1/compareGroups/man/compareGroups-internal.Rd | 126 - compareGroups-3.2.1/compareGroups/man/compareGroups-package.Rd | 4 compareGroups-3.2.1/compareGroups/man/compareGroups.Rd | 413 ++--- compareGroups-3.2.1/compareGroups/vignettes/compareGroups_vignette.Rmd |only compareGroups-3.2.1/compareGroups/vignettes/compareGroups_vignette.bib | 6 compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step1.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step2.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step3.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step4.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step5a.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step5b.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step5c1.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step5c2.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step5d.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6a.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6b1.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6b2.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6b3.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6c.png |binary compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step6d.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step7a.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step7b.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/WUI/step8.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/bivar/age.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/bivar/sex.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/bivar/tmain.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/bivarsurv |only compareGroups-3.2.1/compareGroups/vignettes/figures/classes.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/classes.tex | 6 compareGroups-3.2.1/compareGroups/vignettes/figures/univar/age.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/univar/sex.png |only compareGroups-3.2.1/compareGroups/vignettes/figures/univar/tmain.png |only compareGroups-3.2/compareGroups/inst/doc/compareGroupsWUI_vignette.pdf |only compareGroups-3.2/compareGroups/inst/doc/compareGroups_vignette.pdf |only compareGroups-3.2/compareGroups/inst/doc/compareGroups_vignette.rnw |only compareGroups-3.2/compareGroups/inst/exdata/regicor.txt |only compareGroups-3.2/compareGroups/vignettes/compareGroupsWUI_vignette.pdf |only compareGroups-3.2/compareGroups/vignettes/compareGroupsWUI_vignette.tex |only compareGroups-3.2/compareGroups/vignettes/compareGroups_vignette.rnw |only compareGroups-3.2/compareGroups/vignettes/figures/Rlogo.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step4a.png |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step4b.png |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step4c.png |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step4d.png |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step5c.png |only compareGroups-3.2/compareGroups/vignettes/figures/WUI/step6b.png |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/age.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/age.pdfage.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/sex.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/sex.pdfsex.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/tmain.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/bivar/tmain.pdftmain.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/univar/age.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/univar/sex.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/univar/tmain.pdf |only compareGroups-3.2/compareGroups/vignettes/figures/univar/tmain.pdftmain.pdf |only 89 files changed, 835 insertions(+), 1051 deletions(-)
Title: Data Generation with Binary and Continuous Non-Normal Components
Description: Generation of multiple binary and continuous non-normal variables simultaneously
given the marginal characteristics and association structure based on the methodology
proposed by Demirtas et al. (2012).
Author: Gul Inan, Hakan Demirtas
Maintainer: Gul Inan <inanx002@umn.edu>
Diff between BinNonNor versions 1.2 dated 2015-03-01 and 1.3 dated 2016-05-13
DESCRIPTION | 12 ++++---- MD5 | 28 ++++++++++---------- NAMESPACE | 6 +++- man/BinNonNor-package.Rd | 8 ++--- man/Biserial.Corr.BN.Rd | 11 +++---- man/Int.Corr.NN.Rd | 4 +- man/Tetra.Corr.BB.Rd | 4 +- man/correlation.bound.check.Rd | 18 ++++++------ man/correlation.limits.Rd | 16 +++++------ man/fleishman.coef.Rd | 12 ++++---- man/gen.Bin.NonNor.Rd | 50 ++++++++++++++++++------------------ man/overall.corr.mat.Rd | 18 +++++++----- man/validation.bin.Rd | 4 -- man/validation.corr.Rd | 44 +++++++++++++++---------------- man/validation.skewness.kurtosis.Rd | 17 ++++-------- 15 files changed, 125 insertions(+), 127 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.
Author: Murray Efford
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 2.10.2 dated 2016-01-09 and 2.10.3 dated 2016-05-13
DESCRIPTION | 8 +- MD5 | 92 +++++++++++++++--------------- NAMESPACE | 9 -- NEWS | 18 +++++ R/Dsurface.R | 15 +++- R/PG.R | 3 R/derivedMS.R | 2 R/make.mask.R | 133 +++++++++++++++++++++++++++++++++----------- R/methods.R | 1 R/model.average.R | 1 R/pdot.R | 5 - R/plot.mask.r | 10 ++- R/plotMaskEdge.R |only R/read.traps.R | 1 R/regionN.R | 5 - R/score.test.R | 9 +- R/secrloglik.R | 7 +- R/sim.popn.R | 4 + R/sim.secr.R | 1 R/snip.R | 1 R/split.traps.R | 14 +++- R/telemetry.R | 1 R/usagePlot.R | 3 R/utility.R | 68 ++++++++++++++-------- R/verify.R | 17 +++-- build/vignette.rds |binary data/OVpossum.RData |binary data/deermouse.RData |binary data/hornedlizard.RData |binary data/housemouse.RData |binary data/ovenbird.RData |binary data/ovensong.RData |binary data/possum.RData |binary data/secrdemo.RData |binary data/skink.RData |binary data/stoatDNA.RData |binary inst/doc/secr-datainput.pdf |binary inst/doc/secr-manual.pdf |binary inst/doc/secr-overview.Rmd | 1 inst/doc/secr-overview.pdf |binary man/Parallel.Rd | 10 --- man/RMarkInput.Rd | 2 man/make.mask.Rd | 18 ++++- man/plotmaskedge.Rd |only man/secr-package.Rd | 4 - man/subset.traps.Rd | 2 man/userdist.Rd | 4 - vignettes/secr-overview.Rmd | 1 48 files changed, 309 insertions(+), 161 deletions(-)
Title: Methods for Statistical Disclosure Control in Tabular Data
Description: Methods for statistical disclosure control in
tabular data such as primary and secondary cell suppression are covered in
this package.
Author: Bernhard Meindl
Maintainer: Bernhard Meindl <bernhard.meindl@statistik.gv.at>
Diff between sdcTable versions 0.20.7 dated 2016-04-22 and 0.21.0 dated 2016-05-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/export_functions.r | 4 +++- R/methods_multiple_classes.r | 9 +++++---- inst/doc/sdcTable.pdf |binary 5 files changed, 16 insertions(+), 13 deletions(-)
Title: Simulation-Based Maximum Likelihood Parameter Estimation
Description: An estimation method that can use computer simulations to
approximate maximum-likelihood estimates even when the likelihood function can not
be evaluated directly. It can be applied whenever it is feasible to conduct many
simulations, but works best when the data is approximately Poisson distributed.
It was originally designed for demographic inference in evolutionary
biology. It has optional support for conducting coalescent simulation using
the 'coala' package.
Author: Paul Staab [aut, cre],
Lisha Mathew [aut],
Dirk Metzler [aut, ths]
Maintainer: Paul Staab <develop@paulstaab.de>
Diff between jaatha versions 3.1.1 dated 2016-02-05 and 3.2.0 dated 2016-05-13
DESCRIPTION | 6 +- MD5 | 52 +++++++++--------- NEWS.md | 18 ++++++ R/block.R | 2 R/boot_jaatha.R | 38 +++++++++++-- R/coala_interface.R | 48 ++++++++++++++++- R/fit_glm.R | 2 R/initialization.R | 27 ++++++--- R/jaatha.R | 41 ++++++++++---- R/jaatha_log.R | 2 R/jaatha_model.R | 16 +++-- R/likelihood.R | 5 + R/stat_cube.R | 2 README.md | 4 - inst/doc/jaatha-evolution.Rmd | 10 +++ inst/doc/jaatha-evolution.html | 69 +++++++++++++++--------- inst/doc/jaatha-intro.html | 94 +++++++++++++++++++--------------- man/boot_jaatha.Rd | 37 +++++++++++-- man/create_jaatha_model.coalmodel.Rd | 22 +++++-- man/estimate_llh.Rd | 2 man/get_start_pos.Rd | 8 ++ man/jaatha.Rd | 18 +++++- tests/testthat.R | 7 +- tests/testthat/test-coala-interface.R | 17 ++++++ tests/testthat/test-initialization.R | 33 +++++++++++ tests/testthat/test-jaatha-function.R | 4 - vignettes/jaatha-evolution.Rmd | 10 +++ 27 files changed, 428 insertions(+), 166 deletions(-)
Title: Convert R Markdown Files to DataCamp Light HTML Files
Description: DataCamp Light (<https://github.com/datacamp/datacamp-light>) is a light-weight implementation of the DataCamp UI,
that allows you to embed interactive exercises inside HTML documents. The 'tutorial' package makes it easy to create these
HTML files from R Markdown files. A wrapper around the 'rmarkdown' package, 'tutorial' pre-detects code chunks with the 'ex' and 'type'
properties, and replaces the chunks with DataCamp Light readable chunks in the resulting HTML file.
Author: Filip Schouwenaars
Maintainer: Filip Schouwenaars <filip@datacamp.com>
Diff between tutorial versions 0.3.0 dated 2016-04-26 and 0.3.1 dated 2016-05-13
DESCRIPTION | 6 - MD5 | 18 ++--- R/utils-vignettes.R | 2 R/utils.R | 4 - README.md | 26 ------- build/vignette.rds |binary inst/doc/tutorial-basics.Rmd | 14 +++ inst/doc/tutorial-basics.html | 23 +++--- tests/testthat/test-parse-render.R | 132 ++++++++++++++++++------------------- vignettes/tutorial-basics.Rmd | 4 - 10 files changed, 112 insertions(+), 117 deletions(-)
Title: Analysis of Count Time Series
Description: Likelihood-based methods for model fitting and assessment, prediction and intervention analysis of count time series following generalized linear models are provided. Models with the identity and with the logarithmic link function are allowed. The conditional distribution can be Poisson or Negative Binomial.
Author: Tobias Liboschik [aut, cre],
Roland Fried [aut],
Konstantinos Fokianos [aut],
Philipp Probst [aut],
Jonathan Rathjens [ctb]
Maintainer: Tobias Liboschik <liboschik@statistik.tu-dortmund.de>
Diff between tscount versions 1.0.0 dated 2015-02-11 and 1.3.0 dated 2016-05-13
tscount-1.0.0/tscount/R/ingarch.condmean.r |only tscount-1.0.0/tscount/R/ingarch.fit.r |only tscount-1.0.0/tscount/R/ingarch.loglik.r |only tscount-1.0.0/tscount/R/ingarch.parametercheck.r |only tscount-1.0.0/tscount/R/loglin.condmean.r |only tscount-1.0.0/tscount/R/loglin.fit.r |only tscount-1.0.0/tscount/R/loglin.loglik.r |only tscount-1.0.0/tscount/R/marcal.tsglm.r |only tscount-1.0.0/tscount/R/pit.tsglm.r |only tscount-1.0.0/tscount/R/scoring.tsglm.r |only tscount-1.0.0/tscount/build |only tscount-1.0.0/tscount/man/marcal.tsglm.Rd |only tscount-1.0.0/tscount/man/pit.tsglm.Rd |only tscount-1.0.0/tscount/man/scoring.tsglm.Rd |only tscount-1.3.0/tscount/DESCRIPTION | 13 tscount-1.3.0/tscount/MD5 | 115 - tscount-1.3.0/tscount/NAMESPACE | 22 tscount-1.3.0/tscount/NEWS |only tscount-1.3.0/tscount/R/QIC.r |only tscount-1.3.0/tscount/R/countdistr.r |only tscount-1.3.0/tscount/R/distr.fit.r | 18 tscount-1.3.0/tscount/R/ingarch.acf.r | 2 tscount-1.3.0/tscount/R/ingarch.mean.r | 2 tscount-1.3.0/tscount/R/ingarch.var.r | 2 tscount-1.3.0/tscount/R/interv_detect.tsglm.r | 2 tscount-1.3.0/tscount/R/interv_test.tsglm.r | 2 tscount-1.3.0/tscount/R/linkfunctions.r |only tscount-1.3.0/tscount/R/marcal.r |only tscount-1.3.0/tscount/R/mean.fit.r |only tscount-1.3.0/tscount/R/old_ingarch.condmean.r |only tscount-1.3.0/tscount/R/old_ingarch.fit.r |only tscount-1.3.0/tscount/R/old_ingarch.loglik.r |only tscount-1.3.0/tscount/R/old_ingarch.parametercheck.r |only tscount-1.3.0/tscount/R/old_loglin.condmean.r |only tscount-1.3.0/tscount/R/old_loglin.fit.r |only tscount-1.3.0/tscount/R/old_loglin.loglik.r |only tscount-1.3.0/tscount/R/old_loglin.parametercheck.r |only tscount-1.3.0/tscount/R/old_tsglm.condmean.r |only tscount-1.3.0/tscount/R/old_tsglm.loglik.r |only tscount-1.3.0/tscount/R/pit.r |only tscount-1.3.0/tscount/R/predict.tsglm.r | 148 + tscount-1.3.0/tscount/R/print.summary.tsglm.r | 7 tscount-1.3.0/tscount/R/residuals.tsglm.r | 21 tscount-1.3.0/tscount/R/scoring.r |only tscount-1.3.0/tscount/R/se.tsglm.r | 43 tscount-1.3.0/tscount/R/simcoefs.tsglm.r |only tscount-1.3.0/tscount/R/start.fit.r | 8 tscount-1.3.0/tscount/R/summary.tsglm.r | 11 tscount-1.3.0/tscount/R/tsglm.condmean.r | 141 + tscount-1.3.0/tscount/R/tsglm.interv_decompose.r | 31 tscount-1.3.0/tscount/R/tsglm.loglik.r | 73 tscount-1.3.0/tscount/R/tsglm.parametercheck.r |only tscount-1.3.0/tscount/R/tsglm.parameterlist.r |only tscount-1.3.0/tscount/R/tsglm.r | 6 tscount-1.3.0/tscount/R/tsglm.sim.r | 66 tscount-1.3.0/tscount/R/vcov.tsglm.r | 3 tscount-1.3.0/tscount/inst/doc/tsglm.R | 338 +++- tscount-1.3.0/tscount/inst/doc/tsglm.Rnw | 990 ++++++++---- tscount-1.3.0/tscount/inst/doc/tsglm.pdf |binary tscount-1.3.0/tscount/man/QIC.Rd |only tscount-1.3.0/tscount/man/countdistr.Rd |only tscount-1.3.0/tscount/man/interv_test.tsglm.Rd | 2 tscount-1.3.0/tscount/man/marcal.Rd |only tscount-1.3.0/tscount/man/pit.Rd |only tscount-1.3.0/tscount/man/predict.tsglm.Rd | 70 tscount-1.3.0/tscount/man/scoring.Rd |only tscount-1.3.0/tscount/man/se.tsglm.Rd | 17 tscount-1.3.0/tscount/man/summary.tsglm.Rd | 23 tscount-1.3.0/tscount/man/tscount-package.Rd | 2 tscount-1.3.0/tscount/man/tsglm.Rd | 33 tscount-1.3.0/tscount/man/tsglm.sim.Rd | 4 tscount-1.3.0/tscount/vignettes/INLA.RData |only tscount-1.3.0/tscount/vignettes/bibliography.bib | 1462 +++++++++++------- tscount-1.3.0/tscount/vignettes/campy.RData |binary tscount-1.3.0/tscount/vignettes/covariates.RData |binary tscount-1.3.0/tscount/vignettes/distrcoef_n200.RData |binary tscount-1.3.0/tscount/vignettes/distrcoef_size1.RData |binary tscount-1.3.0/tscount/vignettes/seatbelts.RData |binary tscount-1.3.0/tscount/vignettes/tsglm.Rnw | 990 ++++++++---- 79 files changed, 3165 insertions(+), 1502 deletions(-)
Title: Probability of Sharing Rare Variants among Relatives
Description: Computes estimates of the probability of related individuals sharing a rare variant.
Author: Alexandre Bureau, Ingo Ruczinski, Samuel G. Younkin
Maintainer: Alexandre Bureau <alexandre.bureau@msp.ulaval.ca>
Diff between RVsharing versions 1.4.0 dated 2016-03-10 and 1.5.0 dated 2016-05-13
RVsharing-1.4.0/RVsharing/R/rare_variant_sharing_v3.R |only RVsharing-1.4.0/RVsharing/inst |only RVsharing-1.5.0/RVsharing/DESCRIPTION | 10 - RVsharing-1.5.0/RVsharing/MD5 | 65 +---------- RVsharing-1.5.0/RVsharing/R/RVgene.R | 6 - RVsharing-1.5.0/RVsharing/R/RVsharing.fn.R |only RVsharing-1.5.0/RVsharing/man/GeneDropSim.fn.Rd | 2 RVsharing-1.5.0/RVsharing/man/GeneDropSimExcessSharing.fn.Rd | 2 RVsharing-1.5.0/RVsharing/man/RVgene.Rd | 4 RVsharing-1.5.0/RVsharing/man/RVsharing.Rd | 2 RVsharing-1.5.0/RVsharing/man/compute.kinship.prop.coef.Rd | 2 11 files changed, 23 insertions(+), 70 deletions(-)
Title: Read and Write 'JSON-stat' Data Sets
Description: Read and write the 'JSON-stat' format (http://json-stat.org) to and
from (lists of) R data frames. Not all features are supported, especially
the extensive metadata features of 'JSON-stat'.
Author: Aaron Schumacher <ajschumacher@gmail.com>, HÃ¥kon Malmedal
Maintainer: Aaron Schumacher <ajschumacher@gmail.com>
Diff between rjstat versions 0.2.1 dated 2015-05-25 and 0.3.0 dated 2016-05-13
rjstat-0.2.1/rjstat/tests/testthat/test-attributes.R |only rjstat-0.3.0/rjstat/DESCRIPTION | 13 rjstat-0.3.0/rjstat/LICENSE | 2 rjstat-0.3.0/rjstat/MD5 | 36 +- rjstat-0.3.0/rjstat/NAMESPACE | 4 rjstat-0.3.0/rjstat/R/rjstat.R | 340 ++++++++++--------- rjstat-0.3.0/rjstat/README.md | 4 rjstat-0.3.0/rjstat/man/fromJSONstat.Rd | 24 - rjstat-0.3.0/rjstat/man/rjstat.Rd | 2 rjstat-0.3.0/rjstat/man/toJSONstat.Rd | 14 rjstat-0.3.0/rjstat/tests/testthat/bundle.json |only rjstat-0.3.0/rjstat/tests/testthat/collection.json |only rjstat-0.3.0/rjstat/tests/testthat/dataset.json | 107 +---- rjstat-0.3.0/rjstat/tests/testthat/nonexistent.json |only rjstat-0.3.0/rjstat/tests/testthat/test-classes.R |only rjstat-0.3.0/rjstat/tests/testthat/test-columns.R | 108 ++++-- rjstat-0.3.0/rjstat/tests/testthat/test-datasets.R | 23 - rjstat-0.3.0/rjstat/tests/testthat/test-factors.R | 142 ++++--- rjstat-0.3.0/rjstat/tests/testthat/test-input.R | 25 - rjstat-0.3.0/rjstat/tests/testthat/test-output.R | 35 + rjstat-0.3.0/rjstat/tests/testthat/test-values.R | 30 + rjstat-0.3.0/rjstat/tests/testthat/test-warnings.R |only 22 files changed, 472 insertions(+), 437 deletions(-)
Title: Serializable Representations
Description: String and binary representations of objects for several formats /
mime types.
Author: Philipp A. [aut, cre],
Thomas Kluyver [aut],
Jan Schulz [aut],
abielr [ctb],
Denilson Figueiredo de Sa [ctb],
Jim Hester [ctb],
karldw [ctb]
Maintainer: Philipp A. <flying-sheep@web.de>
Diff between repr versions 0.6 dated 2016-05-06 and 0.7 dated 2016-05-13
DESCRIPTION | 8 +- MD5 | 18 +++-- NAMESPACE | 2 R/repr_matrix_df.r | 28 +++++--- R/repr_packageIQR.r |only R/utils.r | 77 ++++++++++++++++++---- README.md | 6 + man/repr_-times-.packageIQR.Rd |only tests/testthat/test_array_df.r |only tests/testthat/test_array_manipulation.r | 3 tests/testthat/test_escaping.r | 108 +++++++++++++++++++++++++++++++ tests/testthat/test_repr_packageIQR.r |only 12 files changed, 213 insertions(+), 37 deletions(-)
Title: The R Package Ada for Stochastic Boosting
Description: Performs discrete, real, and gentle boost under both exponential and
logistic loss on a given data set. The package ada provides a straightforward,
well-documented, and broad boosting routine for classification, ideally suited
for small to moderate-sized data sets.
Author: Mark Culp, Kjell Johnson, and George Michailidis
Maintainer: Mark Culp <mvculp@mail.wvu.edu>
Diff between ada versions 2.0-3 dated 2012-06-25 and 2.0-5 dated 2016-05-13
DESCRIPTION | 23 +++++++-------- MD5 | 14 ++++----- NAMESPACE | 5 +++ R/ada.formula.R | 9 ++++-- R/predict.ada.R | 11 ++++--- man/ada.Rd | 12 ++++---- man/predict.ada.Rd | 6 ++-- man/soldat.Rd | 79 +---------------------------------------------------- 8 files changed, 48 insertions(+), 111 deletions(-)