Title: Eye-Tracking Data Analysis
Description: A set of tools that address tasks along the pipeline from raw
data to analysis and visualization for eye-tracking data. Offers several
popular types of analyses, including linear and growth curve time analyses,
onset-contingent reaction time analyses, as well as several non-parametric
bootstrapping approaches.
Author: Jacob Dink [aut, cre],
Brock Ferguson [aut]
Maintainer: Jacob Dink <jacobwdink@gmail.com>
Diff between eyetrackingR versions 0.1.1 dated 2015-11-16 and 0.1.2 dated 2016-01-08
DESCRIPTION | 18 LICENSE | 2 MD5 | 63 +- NAMESPACE | 5 NEWS.md |only R/eyetrackingR.R | 21 R/helpers.R | 65 ++ R/onset_contingent_data.R | 14 R/time_cluster_data.R | 241 ++++++---- R/time_sequence_data.R | 505 +++++++++++++---------- R/time_spline_data.R | 152 ++++-- README.md | 16 build/vignette.rds |binary inst/doc/divergence_vignette.R | 106 +++- inst/doc/divergence_vignette.Rmd | 193 +++++--- inst/doc/divergence_vignette.html | 292 ++++++++----- inst/doc/growth_curve_analysis_vignette.html | 25 - inst/doc/onset_contingent_analysis_vignette.html | 25 - inst/doc/preparing_your_data_vignette.html | 10 inst/doc/window_analysis_vignette.html | 26 - man/analyze_boot_splines.Rd | 9 man/analyze_time_bins.Rd | 28 - man/analyze_time_clusters.Rd | 24 - man/make_boot_splines_data.Rd | 28 - man/make_time_cluster_data.Rd | 31 - man/plot.bin_analysis.Rd | 8 man/plot.time_cluster_data.Rd | 8 man/simulate_eyetrackingr_data.Rd | 9 tests/testthat/clust_dat_output_lm.txt |only tests/testthat/tb_output_between_subj.txt |only tests/testthat/tb_output_interaction.txt |only tests/testthat/tb_output_within_subj.txt |only tests/testthat/test_analyze_time_bins.R | 112 ++++- tests/testthat/test_cluster_analysis.R | 62 +- vignettes/divergence_vignette.Rmd | 193 +++++--- 35 files changed, 1439 insertions(+), 852 deletions(-)
Title: Markov Model for the Online Multi-Channel Attribution Problem
Description: Advertisers use a variety of online marketing channels to reach consumers and they want to know the degree each channel contributes to their marketing success. It's called the online multi-channel attribution problem. This package contains a probabilistic algorithm for the attribution problem. The model uses a k-order Markov representation to identifying structural correlations in the customer journey data. The package also contains three heuristic algorithms (first-touch, last-touch and linear-touch approach) for the same problem. The algorithms are implemented in C++. For customizations or interest in other statistical methodologies for web data analysis please contact <davide.altomare@gmail.com>.
Author: Davide Altomare
Maintainer: Davide Altomare <davide.altomare@gmail.com>
Diff between ChannelAttribution versions 1.3 dated 2015-12-03 and 1.4 dated 2016-01-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- man/ChannelAttribution-package.Rd | 4 ++-- src/ChannelAttribution.cpp | 14 +++++++------- 4 files changed, 15 insertions(+), 15 deletions(-)
More information about ChannelAttribution at CRAN
Permanent link
Title: Fast Multivariate Normal Methods
Description: Provides computationally efficient tools related to
the multivariate normal distribution. The main functionalities are:
simulating multivariate normal random vectors, evaluating multivariate
normal densities and Mahalanobis distances. These tools are very efficient
thanks to the use of C++ code and of the OpenMP API.
Author: Matteo Fasiolo, using the C++ parallel RNG of Thijs van den Berg and
Ziggurat algorithm of Jens Maurer and Steven Watanabe (boost)
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between mvnfast versions 0.1.3 dated 2014-08-20 and 0.1.4 dated 2016-01-08
DESCRIPTION | 20 +++++++++++------ MD5 | 28 ++++++++++++------------ R/maha.R | 2 - R/ms.R | 2 - R/rmvn.R | 4 +-- build/vignette.rds |binary inst/CITATION | 6 ++--- inst/COPYRIGHTS | 2 - inst/doc/mvnfast.R | 7 ------ inst/doc/mvnfast.html | 56 ++++++++++++++++++++++++++++++++----------------- man/dmvn.Rd | 32 +++++++++++----------------- man/maha.Rd | 33 +++++++++++----------------- man/ms.Rd | 57 ++++++++++++++++++++------------------------------ man/rmvn.Rd | 55 +++++++++++++++++++----------------------------- src/mvnfast.h | 2 - 15 files changed, 144 insertions(+), 162 deletions(-)
Title: Cryptic Transcription Analysis in Yeast
Description: Calculates cryptic scores for genes using the ratio
(Cheung et al., 2008), the 3' enrichment method
(DeGennaro et al., 2013) and the probabilistic
method. It also provide methods to estimates
cryptic transcription start sites.
Author: Nicole Uwimana, Benjamin Haibe-Kains, Francois Robert
Maintainer: Nicole Uwimana <nicole.uwimana@gmail.com>
Diff between yCrypticRNAs versions 0.99.0 dated 2015-12-11 and 0.99.1 dated 2016-01-08
DESCRIPTION | 21 +++--- MD5 | 28 ++++---- NAMESPACE | 2 R/coverageDataSet.R | 27 +++++--- R/cryptic_transcripts_methods.R | 8 +- R/initiation_points_methods.R | 132 +++++++++++++++++++++++++++++----------- R/utils.R | 24 +++++-- inst/doc/yCrypticRNAs.R | 6 - inst/doc/yCrypticRNAs.Rmd | 6 - inst/doc/yCrypticRNAs.html | 10 +-- man/bam_to_reads.Rd | 6 + man/zscore_score.Rd | 2 src/bedFile.cpp | 14 ++-- tests/yCrypticRNAs_tests.R | 7 +- vignettes/yCrypticRNAs.Rmd | 6 - 15 files changed, 197 insertions(+), 102 deletions(-)
Title: An Algorithm for Morphometric Characters Selection and
Statistical Validation in Morphological Taxonomy
Diff between VARSEDIG versions 1.0 dated 2016-01-05 and 1.1 dated 2016-01-08
Description: An algorithm which identifies the morphometric features that significantly discriminate two taxa and validates the morphological distinctness between them via a Monte-Carlo test, polar coordinates and overlap of the area under the density curve.
Author: Cástor Guisande González
Maintainer: Cástor Guisande González
DESCRIPTION | 10 +++++-----
MD5 | 8 ++++----
NAMESPACE | 2 +-
R/VARSEDIG.R | 24 +++++-------------------
man/VARSEDIG.Rd | 6 +++---
5 files changed, 18 insertions(+), 32 deletions(-)
Title: Analyzes Clickstreams Based on Markov Chains
Description: A set of tools to read, analyze and write lists of click sequences
on websites (i.e., clickstream). A click can be represented by a number,
character or string. Clickstreams can be modeled as zero- (only computes
occurrence probabilities), first- or higher-order Markov chains.
Author: Michael Scholz
Maintainer: Michael Scholz <michael.scholz@uni-passau.de>
Diff between clickstream versions 1.1.5 dated 2015-07-07 and 1.1.6 dated 2016-01-08
DESCRIPTION | 14 +++++--- MD5 | 64 ++++++++++++++++++------------------- NAMESPACE | 3 + NEWS | 7 ++++ R/Clickstream.r | 20 +++++++---- R/Fitting.r | 12 ++++-- R/MarkovChain.r | 44 ++++++++++--------------- R/Pattern.r | 6 +-- R/clickstream-package.R | 2 - inst/CITATION | 8 ++-- man/MarkovChain-class.Rd | 4 +- man/Pattern-class.Rd | 3 + man/absorbingStates-methods.Rd | 5 +- man/as.transactions.Rd | 4 +- man/clickstream-package.Rd | 4 +- man/clusterClickstreams.Rd | 10 +++-- man/fitMarkovChain.Rd | 4 +- man/frequencies.Rd | 4 +- man/predict-methods.Rd | 7 ++-- man/predict.ClickstreamClusters.Rd | 4 +- man/print.ClickstreamClusters.Rd | 4 +- man/print.Clickstreams.Rd | 4 +- man/print.MarkovChainSummary.Rd | 4 +- man/randomClicks-methods.Rd | 7 ++-- man/randomClickstreams.Rd | 4 +- man/readClickstreams.Rd | 4 +- man/show-methods.Rd | 5 +- man/states-methods.Rd | 5 +- man/summary-methods.Rd | 4 +- man/summary.ClickstreamClusters.Rd | 4 +- man/summary.Clickstreams.Rd | 4 +- man/transientStates-methods.Rd | 5 +- man/writeClickstreams.Rd | 4 +- 33 files changed, 166 insertions(+), 121 deletions(-)
Title: Variance Estimation for Sample Surveys by the Ultimate Cluster
Method
Description: Generation of domain variables, linearisation of several nonlinear population statistics (the ratio of two totals, weighted income percentile, relative median income ratio, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, the aggregate replacement ratio, the relative median income ratio, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow, 1953), variance estimation for longitudinal, cross-sectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y.G.). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre],
Martins Liberts [aut],
Santa Ivanova [aut]
Maintainer: Juris Breidaks <Juris.Breidaks@csb.gov.lv>
Diff between vardpoor versions 0.5.0 dated 2016-01-07 and 0.5.2 dated 2016-01-08
DESCRIPTION | 10 ++--- MD5 | 36 ++++++++++---------- R/lin.ratio.R | 4 +- R/vardchangannual.R | 9 ++--- R/vardchanges.R | 83 ++++++++++++++++++++++++++++-------------------- R/vardchangespoor.R | 3 + R/vardcros.R | 20 ++++++----- R/vardom.R | 10 ++++- R/vardomh.R | 12 ++++-- inst/CITATION | 4 +- inst/NEWS | 4 ++ man/lin.ratio.Rd | 7 ++-- man/vardchangannual.Rd | 43 +++++++++++------------- man/vardchanges.Rd | 19 +++++----- man/vardcros.Rd | 8 +--- man/vardcrospoor.Rd | 4 -- man/vardom.Rd | 6 ++- man/vardomh.Rd | 8 +++- man/vardpoor-package.Rd | 4 +- 19 files changed, 165 insertions(+), 129 deletions(-)
Title: Manipulate, Validate and Resolve 'IP' Addresses
Description: A toolkit for manipulating, validating and testing 'IP' addresses and
ranges, along with datasets relating to 'IP' addresses. While it primarily has
support for the 'IPv4' address space, more extensive 'IPv6' support is intended.
Author: Bob Rudis <bob@rudis.net> [aut, cre],
Oliver Keyes <ironholds@gmail.com> [aut]
Maintainer: Bob Rudis <bob@rudis.net>
Diff between iptools versions 0.2.1 dated 2015-07-23 and 0.3.0 dated 2016-01-08
iptools-0.2.1/iptools/INSTALL |only iptools-0.2.1/iptools/cleanup |only iptools-0.2.1/iptools/configure |only iptools-0.2.1/iptools/configure.in |only iptools-0.2.1/iptools/src/Makevars.in |only iptools-0.3.0/iptools/DESCRIPTION | 34 - iptools-0.3.0/iptools/MD5 | 68 +-- iptools-0.3.0/iptools/NAMESPACE | 7 iptools-0.3.0/iptools/R/RcppExports.R | 30 + iptools-0.3.0/iptools/R/iptools.R | 1 iptools-0.3.0/iptools/R/is.R |only iptools-0.3.0/iptools/R/zzz.R |only iptools-0.3.0/iptools/README | 43 +- iptools-0.3.0/iptools/build/vignette.rds |binary iptools-0.3.0/iptools/inst/doc/introduction_to_iptools.Rmd | 3 iptools-0.3.0/iptools/inst/doc/introduction_to_iptools.html | 6 iptools-0.3.0/iptools/inst/doc/iptools_datasets.html | 4 iptools-0.3.0/iptools/man/hostname_to_ip.Rd | 3 iptools-0.3.0/iptools/man/iana_assignments.Rd | 2 iptools-0.3.0/iptools/man/iana_ports.Rd | 2 iptools-0.3.0/iptools/man/iana_special_assignments.Rd | 2 iptools-0.3.0/iptools/man/ip_classify.Rd | 5 iptools-0.3.0/iptools/man/ip_in_range.Rd | 3 iptools-0.3.0/iptools/man/ip_numeric.Rd | 2 iptools-0.3.0/iptools/man/ip_random.Rd | 2 iptools-0.3.0/iptools/man/ip_to_hostname.Rd | 3 iptools-0.3.0/iptools/man/iptools.Rd | 2 iptools-0.3.0/iptools/man/iptools_refresh.Rd | 3 iptools-0.3.0/iptools/man/is_checks.Rd |only iptools-0.3.0/iptools/man/range_boundaries.Rd | 3 iptools-0.3.0/iptools/man/range_generate.Rd | 3 iptools-0.3.0/iptools/man/validate_range.Rd | 3 iptools-0.3.0/iptools/man/xff_extract.Rd | 3 iptools-0.3.0/iptools/src/Makevars.win |only iptools-0.3.0/iptools/src/RcppExports.cpp | 11 iptools-0.3.0/iptools/src/asio_bindings.cpp | 231 ++++++++++-- iptools-0.3.0/iptools/src/asio_bindings.h | 32 + iptools-0.3.0/iptools/src/iptools.cpp | 46 ++ iptools-0.3.0/iptools/tests/testthat/test_is.R |only iptools-0.3.0/iptools/vignettes/introduction_to_iptools.Rmd | 3 40 files changed, 437 insertions(+), 123 deletions(-)
Title: Tools for Earth Meteorological Analysis
Description: Contains many functions useful for managing 'NetCDF' files (see http://en.wikipedia.org/wiki/NetCDF), get tide levels on any point of the globe, get moon phase and time for sun rise and fall, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between HelpersMG versions 1.3.2 dated 2015-12-02 and 1.4 dated 2016-01-08
DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++++--------- NAMESPACE | 3 +++ NEWS | 19 ++++++++++++------- R/HelpersMG-package.R | 10 ++++++---- R/MHalgoGen.R | 6 +++--- R/as.mcmc.mcmcComposite.R | 1 + R/dmnbinom.R |only R/merge.mcmcComposite.R | 3 +-- R/modifyVector.R |only R/summary.mcmcComposite.R | 4 +--- R/which2D.R |only man/HelpersMG-package.Rd | 10 ++++++---- man/dmnbinom.Rd |only man/modifyVector.Rd |only man/which2D.Rd |only 16 files changed, 52 insertions(+), 36 deletions(-)
Title: Hierarchical Inference Testing
Description: Hierarchical inference testing (HIT) for (generalized) linear
models with correlated covariates applicable to high-dimensional settings.
Author: Jonas Klasen [aut, cre]
Maintainer: Jonas Klasen <qtcat@gmx.de>
Diff between hit versions 0.2-0 dated 2015-12-04 and 0.2-1 dated 2016-01-08
DESCRIPTION | 8 - MD5 | 19 +- NAMESPACE | 1 NEWS.md | 11 - R/hit.R | 341 +++++++++++++++++++++++++++------------------- README.md | 1 man/hit.Rd | 68 ++++----- man/opt.penalty.Rd |only man/samp1.lasso.Rd | 27 +-- man/samp2.sigHierarchy.Rd | 8 - tests/testthat/test_hit.R | 6 11 files changed, 272 insertions(+), 218 deletions(-)
Title: Functions for Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, and summarize Generalized Dissimilarity Models.
Author: Glenn Manion, Matthew Lisk, Simon Ferrier, Diego Nieto-Lugilde, Matthew C. Fitzpatrick
Maintainer: Matthew C. Fitzpatrick <mfitzpatrick@al.umces.edu>
Diff between gdm versions 1.1.5 dated 2015-12-07 and 1.1.6 dated 2016-01-08
gdm-1.1.5/gdm/src/Gdm4Rlib.cpp |only gdm-1.1.5/gdm/src/Gdm4Rlib.h |only gdm-1.1.6/gdm/DESCRIPTION | 8 +- gdm-1.1.6/gdm/MD5 | 14 ++-- gdm-1.1.6/gdm/NAMESPACE | 8 +- gdm-1.1.6/gdm/R/GDM_Table_Funcs.R | 48 ++++++++++---- gdm-1.1.6/gdm/man/formatsitepair.Rd | 2 gdm-1.1.6/gdm/man/plot.gdm.Rd | 123 +++++++++++++++++++----------------- gdm-1.1.6/gdm/src/Gdmlib.cpp |only gdm-1.1.6/gdm/src/Gdmlib.h |only 10 files changed, 118 insertions(+), 85 deletions(-)
Title: Fire Weather Index System and Fire Behaviour Prediction System
Calculations
Description: Provides three functions to calculate the outputs of the two main components of the Canadian Forest Fire Danger Rating System (CFFDRS): the Fire Weather Index (FWI) System and the Fire Behaviour Prediction (FBP) System.
Author: Xianli Wang, Alan Cantin, Marc-Andre Parisien, Mike Wotton, Kerry Anderson, and Mike Flannigan
Maintainer: Alan Cantin <Alan.Cantin@Canada.ca>
Diff between fwi.fbp versions 1.5 dated 2014-07-03 and 1.7 dated 2016-01-08
DESCRIPTION | 18 +++++++++--------- MD5 | 17 +++++++++-------- R/fbp.r | 7 ++++++- R/fwi.r | 6 ++++++ R/fwiBAT.r | 4 ++++ man/fbp.Rd | 9 +-------- man/fwi.Rd | 8 +------- man/fwi.fbp-deprecated.Rd |only man/fwi.fbp-package.Rd | 15 ++++----------- man/fwiBAT.Rd | 8 +------- 10 files changed, 41 insertions(+), 51 deletions(-)
Title: Tools to Analyze the Thermal Reaction Norm of Embryo Growth
Description: Tools to analyze the embryo growth and the sexualisation thermal reaction norms.
Author: Marc Girondot <marc.girondot@u-psud.fr>
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between embryogrowth versions 6.1.1 dated 2015-10-16 and 6.2 dated 2016-01-08
DESCRIPTION | 8 +- MD5 | 121 ++++++++++++++++++++-------------------- NAMESPACE | 2 NEWS | 16 ++++- R/GRTRN_MHmcmc.R | 15 ++++ R/TSP.list.R | 17 +++-- R/embryogrowth-package.R | 8 +- R/fonctionMCMC.R | 6 - R/info.nests.R | 114 +++++++++++++++++++++++++++++-------- R/plot.NestsResult.R | 11 +-- R/plotR_hist.R | 2 R/stages.R |only data/TSP.list.rda |binary data/stages.rda |only man/ChangeSSM.Rd | 18 ++--- man/FormatNests.Rd | 2 man/GRTRN_MHmcmc.Rd | 18 ++--- man/GenerateAnchor.Rd | 6 - man/GenerateConstInc.Rd | 6 - man/GenerateTest.Rd | 4 - man/MovingIncubation.Rd | 6 - man/STRN.Rd | 45 -------------- man/STRN_MHmcmc.Rd | 2 man/STSRE_NestingArea.Rd | 20 +++--- man/STSRE_TSD.Rd | 11 +-- man/TRN_MHmcmc_p.Rd | 8 +- man/TSP.list.Rd | 26 ++++---- man/TestParallel.Rd | 2 man/dydt.Gompertz.Rd | 8 +- man/dydt.exponential.Rd | 10 +-- man/dydt.linear.Rd | 8 +- man/embryogrowth-package.Rd | 44 +++++++------- man/hist.Nests.Rd | 4 - man/hist.NestsResult.Rd | 4 - man/info.nests.Rd | 23 +++---- man/likelihoodR.Rd | 10 +-- man/logLik.NestsResult.Rd | 2 man/logLik.tsd.Rd | 2 man/nest.Rd | 4 - man/plot.NestsResult.Rd | 35 +++++------ man/plot.tsd.Rd | 8 +- man/plotR.Rd | 24 +++---- man/plotR_hist.Rd | 2 man/plot_transition.Rd | 10 +-- man/predict.tsd.Rd | 15 ++-- man/resultNest_4p.Rd | 14 ++-- man/resultNest_4p_transition.Rd | 8 +- man/resultNest_4p_weight.Rd | 16 ++--- man/resultNest_6p.Rd | 16 ++--- man/resultNest_newp.Rd | 12 +-- man/result_mcmc_4p.Rd | 18 ++--- man/result_mcmc_4p_weight.Rd | 28 ++++----- man/result_mcmc_6p.Rd | 20 +++--- man/result_mcmc_newp.Rd | 26 ++++---- man/searchR.Rd | 32 +++++----- man/stages.Rd |only man/summary.Nests.Rd | 2 man/switch.transition.Rd | 2 man/tempConst.Rd | 18 ++--- man/tsd.Rd | 63 ++++++++++---------- man/tsd_MHmcmc.Rd | 19 +++--- man/tsd_MHmcmc_p.Rd | 15 ++-- man/weightmaxentropy.Rd | 12 +-- 63 files changed, 547 insertions(+), 481 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines". (The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow. Derived from mda:mars by Trevor Hastie and
Rob Tibshirani. Uses Alan Miller's Fortran utilities
with Thomas Lumley's leaps wrapper.
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 4.4.3 dated 2015-09-27 and 4.4.4 dated 2016-01-08
DESCRIPTION | 6 - MD5 | 54 +++++------ NEWS | 13 ++ R/earth.R | 10 -- inst/doc/earth-notes.pdf |binary inst/doc/earth-varmod.pdf |binary inst/slowtests/earth.times.bat | 2 inst/slowtests/test.big.R | 4 inst/slowtests/test.big.Rout.save | 12 +- inst/slowtests/test.big.bat | 2 inst/slowtests/test.cv.bat | 2 inst/slowtests/test.earthc.mak | 6 - inst/slowtests/test.earthc.out.save | 143 +++++++++++++++--------------- inst/slowtests/test.full.Rout.save | 14 +- inst/slowtests/test.full.bat | 2 inst/slowtests/test.glm.bat | 2 inst/slowtests/test.incorrect.bat | 2 inst/slowtests/test.mods.bat | 2 inst/slowtests/test.plotd.bat | 2 inst/slowtests/test.pmethod.cv.bat | 2 inst/slowtests/test.varmod.Rout.save | 4 inst/slowtests/test.varmod.bat | 2 inst/slowtests/test.varmod.mgcv.Rout.save | 2 inst/slowtests/test.varmod.mgcv.bat | 2 inst/slowtests/test.weights.R | 20 ++++ inst/slowtests/test.weights.Rout.save | 58 +++++++++++- inst/slowtests/test.weights.bat | 2 src/earth.c | 28 ++--- 28 files changed, 247 insertions(+), 151 deletions(-)
Title: Robust Methods for High-Dimensional Data
Description: Robust methods for high-dimensional data, in particular linear
model selection techniques based on least angle regression and sparse
regression.
Author: Andreas Alfons [aut, cre]
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between robustHD versions 0.5.0 dated 2014-04-30 and 0.5.1 dated 2016-01-08
DESCRIPTION | 14 - MD5 | 71 +++--- NAMESPACE | 5 NEWS | 114 +++++---- R/accessors.R | 102 ++++---- R/fortify.R | 8 R/plot.R | 502 +++++++++++++++++++++---------------------- R/print.R | 26 +- build |only data/TopGear.RData |binary man/AIC.seqModel.Rd | 96 +++----- man/coef.seqModel.Rd | 102 +++----- man/coefPlot.Rd | 123 ++++------ man/corHuber.Rd | 135 +++++------ man/critPlot.Rd | 89 +++---- man/diagnosticPlot.Rd | 246 +++++++++------------ man/fitted.seqModel.Rd | 95 +++----- man/fortify.seqModel.Rd | 153 +++++-------- man/getScale.Rd | 85 +++---- man/grplars.Rd | 394 +++++++++++++++------------------- man/lambda0.Rd | 128 ++++------- man/perry.seqModel.Rd | 167 ++++++-------- man/plot.seqModel.Rd | 70 ++---- man/predict.seqModel.Rd | 128 ++++------- man/residuals.seqModel.Rd | 101 +++----- man/rlars.Rd | 364 ++++++++++++++----------------- man/robustHD-deprecated.Rd | 75 +++--- man/robustHD-package.Rd | 69 ----- man/sparseLTS.Rd | 521 ++++++++++++++++++++------------------------- man/standardize.Rd | 71 ++---- man/tsBlocks.Rd | 44 +-- man/tslars.Rd | 290 +++++++++++-------------- man/tslarsP.Rd | 351 +++++++++++++----------------- man/winsorize.Rd | 151 +++++-------- man/wt.Rd | 64 ++--- src/corHuber.cpp | 2 src/fastLasso.cpp | 2 37 files changed, 2263 insertions(+), 2695 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package pan, jomo is a package for multilevel joint modelling multiple imputation.
Novel aspects of jomo are the possibility of handling binary and categorical data through latent normal variables and the option to use cluster-specific covariance matrices.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <matteo.quartagno@lshtm.ac.uk>
Diff between jomo versions 1.3-0 dated 2015-12-15 and 1.3-1 dated 2016-01-08
DESCRIPTION | 8 ++--- MD5 | 60 ++++++++++++++++++++--------------------- R/jomo1.MCMCchain.R | 12 ++++++-- R/jomo1.R | 12 ++++++-- R/jomo1ran.MCMCchain.R | 12 ++++++-- R/jomo1ran.R | 12 ++++++-- R/jomo1rancat.MCMCchain.R | 7 +++- R/jomo1rancat.R | 7 +++- R/jomo1rancathr.MCMCchain.R | 8 ++++- R/jomo1rancathr.R | 8 ++++- R/jomo1rancon.MCMCchain.R | 7 +++- R/jomo1rancon.R | 7 +++- R/jomo1ranconhr.MCMCchain.R | 8 ++++- R/jomo1ranconhr.R | 8 ++++- R/jomo1ranmix.MCMCchain.R | 7 +++- R/jomo1ranmix.R | 7 +++- R/jomo1ranmixhr.MCMCchain.R | 8 ++++- R/jomo1ranmixhr.R | 8 ++++- inst/CITATION | 2 - man/jomo1rancat.MCMCchain.Rd | 8 ++--- man/jomo1rancat.Rd | 8 ++--- man/jomo1rancathr.MCMCchain.Rd | 9 ++---- man/jomo1rancathr.Rd | 10 ++---- man/jomo1rancon.MCMCchain.Rd | 5 +-- man/jomo1rancon.Rd | 8 ++--- man/jomo1ranconhr.MCMCchain.Rd | 7 +--- man/jomo1ranconhr.Rd | 6 +--- man/jomo1ranmix.MCMCchain.Rd | 6 +--- man/jomo1ranmix.Rd | 6 +--- man/jomo1ranmixhr.MCMCchain.Rd | 10 ++---- man/jomo1ranmixhr.Rd | 10 ++---- 31 files changed, 173 insertions(+), 128 deletions(-)
Title: Bayesian Meta-Analysis and Meta-Regression
Description: Provides a collection of functions for conducting meta-analyses under Bayesian context in R. The package includes functions for computing various effect size or outcome measures (e.g. odds ratios, mean difference and incidence rate ratio) for different types of data based on MCMC simulations. Users are allowed to fit fixed- and random-effects models with different priors to the data. Meta-regression can be carried out if effects of additional covariates are observed. Furthermore, the package provides functions for creating posterior distribution plots and forest plot to display main model output. Traceplots and some other diagnostic plots are also available for assessing model fit and performance.
Author: Tao Ding, Gianluca Baio
Maintainer: Gianluca Baio <gianluca@stats.ucl.ac.uk>
Diff between bmeta versions 0.1.1 dated 2015-11-20 and 0.1.2 dated 2016-01-08
DESCRIPTION | 10 MD5 | 16 NAMESPACE | 2 R/bmeta.R | 3965 +++++++++++++++++++++++++++----------------------- man/acf.plot.Rd | 10 man/bmeta-package.Rd | 4 man/bmeta.Rd | 4 man/funnel.plot.Rd | 23 man/posterior.plot.Rd | 20 9 files changed, 2267 insertions(+), 1787 deletions(-)
Title: Data Sets from Ramsey and Schafer's "Statistical Sleuth (3rd
Ed)"
Description: Data sets from Ramsey, F.L. and Schafer, D.W. (2013), "The
Statistical Sleuth: A Course in Methods of Data Analysis (3rd
ed)", Cengage Learning.
Author: Original by F.L. Ramsey and D.W. Schafer,
modifications by Daniel W. Schafer, Jeannie Sifneos and Berwin
A. Turlach, vignettes contributed by Nicholas Horton, Linda Loi,
Kate Aloisio and Ruobing Zhang
Maintainer: Berwin A Turlach <Berwin.Turlach@gmail.com>
Diff between Sleuth3 versions 0.1-8 dated 2015-02-17 and 1.0-1 dated 2016-01-08
DESCRIPTION | 22 +- MD5 | 393 +++++++++++++++++++----------------- build |only data/case0101.rda |binary data/case0102.rda |binary data/case0201.rda |binary data/case0202.rda |binary data/case0301.rda |binary data/case0302.rda |binary data/case0401.rda |binary data/case0402.rda |binary data/case0501.rda |binary data/case0502.rda |binary data/case0601.rda |binary data/case0602.rda |binary data/case0701.rda |binary data/case0702.rda |binary data/case0801.rda |binary data/case0802.rda |binary data/case0901.rda |binary data/case0902.rda |binary data/case1001.rda |binary data/case1002.rda |binary data/case1101.rda |binary data/case1102.rda |binary data/case1201.rda |binary data/case1202.rda |binary data/case1301.rda |binary data/case1302.rda |binary data/case1401.rda |binary data/case1402.rda |binary data/case1501.rda |binary data/case1502.rda |binary data/case1601.rda |binary data/case1602.rda |binary data/case1701.rda |binary data/case1702.rda |binary data/case1801.rda |binary data/case1802.rda |binary data/case1803.rda |binary data/case1901.rda |binary data/case1902.rda |binary data/case2001.rda |binary data/case2002.rda |binary data/case2101.rda |binary data/case2102.rda |binary data/case2201.rda |binary data/case2202.rda |binary data/ex0112.rda |binary data/ex0116.rda |binary data/ex0125.rda |binary data/ex0126.rda |binary data/ex0127.rda |binary data/ex0211.rda |binary data/ex0218.rda |binary data/ex0221.rda |binary data/ex0222.rda |binary data/ex0223.rda |binary data/ex0321.rda |binary data/ex0323.rda |binary data/ex0327.rda |binary data/ex0330.rda |binary data/ex0331.rda |binary data/ex0332.rda |binary data/ex0333.rda |binary data/ex0428.rda |binary data/ex0429.rda |binary data/ex0430.rda |binary data/ex0431.rda |binary data/ex0432.rda |binary data/ex0518.rda |binary data/ex0523.rda |binary data/ex0524.rda |binary data/ex0525.rda |binary data/ex0623.rda |binary data/ex0624.rda |binary data/ex0721.rda |binary data/ex0722.rda |binary data/ex0724.rda |binary data/ex0725.rda |binary data/ex0726.rda |binary data/ex0727.rda |binary data/ex0728.rda |binary data/ex0729.rda |binary data/ex0730.rda |binary data/ex0816.rda |binary data/ex0817.rda |binary data/ex0820.rda |binary data/ex0822.rda |binary data/ex0823.rda |binary data/ex0824.rda |binary data/ex0825.rda |binary data/ex0826.rda |binary data/ex0828.rda |binary data/ex0829.rda |binary data/ex0914.rda |binary data/ex0915.rda |binary data/ex0918.rda |binary data/ex0920.rda |binary data/ex0921.rda |binary data/ex0923.rda |binary data/ex1014.rda |binary data/ex1026.rda |binary data/ex1027.rda |binary data/ex1028.rda |binary data/ex1029.rda |binary data/ex1030.rda |binary data/ex1031.rda |binary data/ex1033.rda |binary data/ex1111.rda |binary data/ex1120.rda |binary data/ex1122.rda |binary data/ex1123.rda |binary data/ex1124.rda |binary data/ex1125.rda |binary data/ex1217.rda |binary data/ex1220.rda |binary data/ex1221.rda |binary data/ex1222.rda |binary data/ex1223.rda |binary data/ex1225.rda |binary data/ex1317.rda |binary data/ex1319.rda |binary data/ex1320.rda |binary data/ex1321.rda |binary data/ex1416.rda |binary data/ex1417.rda |binary data/ex1419.rda |binary data/ex1420.rda |binary data/ex1507.rda |binary data/ex1509.rda |binary data/ex1514.rda |binary data/ex1515.rda |binary data/ex1516.rda |binary data/ex1517.rda |binary data/ex1518.rda |binary data/ex1519.rda |binary data/ex1605.rda |binary data/ex1611.rda |binary data/ex1612.rda |binary data/ex1613.rda |binary data/ex1614.rda |binary data/ex1615.rda |binary data/ex1620.rda |binary data/ex1708.rda |binary data/ex1715.rda |binary data/ex1716.rda |binary data/ex1914.rda |binary data/ex1916.rda |binary data/ex1917.rda |binary data/ex1918.rda |binary data/ex1919.rda |binary data/ex1921.rda |binary data/ex1922.rda |binary data/ex1923.rda |binary data/ex2011.rda |binary data/ex2012.rda |binary data/ex2015.rda |binary data/ex2016.rda |binary data/ex2017.rda |binary data/ex2018.rda |binary data/ex2019.rda |binary data/ex2113.rda |binary data/ex2115.rda |binary data/ex2116.rda |binary data/ex2117.rda |binary data/ex2118.rda |binary data/ex2119.rda |binary data/ex2120.rda |binary data/ex2216.rda |binary data/ex2220.rda |binary data/ex2222.rda |binary data/ex2223.rda |binary data/ex2224.rda |binary data/ex2225.rda |binary data/ex2226.rda |binary data/ex2414.rda |binary inst/doc/Sleuth3-manual.pdf |binary inst/doc/chapter01-HortonMosaic.Rnw |only inst/doc/chapter01-HortonMosaic.pdf |only inst/doc/chapter02-HortonMosaic.Rnw |only inst/doc/chapter02-HortonMosaic.pdf |only inst/doc/chapter03-HortonMosaic.Rnw |only inst/doc/chapter03-HortonMosaic.pdf |only inst/doc/chapter04-HortonMosaic.Rnw |only inst/doc/chapter04-HortonMosaic.pdf |only inst/doc/chapter05-HortonMosaic.Rnw |only inst/doc/chapter05-HortonMosaic.pdf |only inst/doc/chapter06-HortonMosaic.Rnw |only inst/doc/chapter06-HortonMosaic.pdf |only inst/doc/chapter07-HortonMosaic.Rnw |only inst/doc/chapter07-HortonMosaic.pdf |only inst/doc/chapter08-HortonMosaic.Rnw |only inst/doc/chapter08-HortonMosaic.pdf |only inst/doc/chapter09-HortonMosaic.Rnw |only inst/doc/chapter09-HortonMosaic.pdf |only inst/doc/chapter10-HortonMosaic.Rnw |only inst/doc/chapter10-HortonMosaic.pdf |only inst/doc/chapter11-HortonMosaic.Rnw |only inst/doc/chapter11-HortonMosaic.pdf |only inst/doc/chapter12-HortonMosaic.Rnw |only inst/doc/chapter12-HortonMosaic.pdf |only inst/doc/chapter13-HortonMosaic.Rnw |only inst/doc/chapter13-HortonMosaic.pdf |only vignettes |only 205 files changed, 230 insertions(+), 185 deletions(-)
Title: Data Sets from Ramsey and Schafer's "Statistical Sleuth (2nd
Ed)"
Description: Data sets from Ramsey, F.L. and Schafer, D.W. (2002), "The
Statistical Sleuth: A Course in Methods of Data Analysis (2nd
ed)", Duxbury.
Author: Original by F.L. Ramsey and D.W. Schafer,
modifications by Daniel W. Schafer, Jeannie Sifneos and Berwin
A. Turlach, vignettes contributed by Nicholas Horton, Kate Aloisio
and Ruobing Zhang
Maintainer: Berwin A Turlach <Berwin.Turlach@gmail.com>
Diff between Sleuth2 versions 1.0-7 dated 2012-09-12 and 2.0-3 dated 2016-01-08
Sleuth2-1.0-7/Sleuth2/LICENSE.GPL-2 |only Sleuth2-1.0-7/Sleuth2/LICENSE.GPL-3 |only Sleuth2-2.0-3/Sleuth2/DESCRIPTION | 32 - Sleuth2-2.0-3/Sleuth2/GPL-2 |only Sleuth2-2.0-3/Sleuth2/GPL-3 |only Sleuth2-2.0-3/Sleuth2/MD5 | 335 +++++++------- Sleuth2-2.0-3/Sleuth2/build |only Sleuth2-2.0-3/Sleuth2/data/case0101.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0102.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0201.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0202.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0301.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0302.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0401.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0402.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0501.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0502.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0601.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0602.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0701.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0702.rda |binary Sleuth2-2.0-3/Sleuth2/data/case0801.rda |binary 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|binary Sleuth2-2.0-3/Sleuth2/data/case2002.rda |binary Sleuth2-2.0-3/Sleuth2/data/case2101.rda |binary Sleuth2-2.0-3/Sleuth2/data/case2102.rda |binary Sleuth2-2.0-3/Sleuth2/data/case2201.rda |binary Sleuth2-2.0-3/Sleuth2/data/case2202.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0112.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0116.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0211.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0221.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0222.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0223.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0321.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0323.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0327.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0328.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0331.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0332.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0333.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0428.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0429.rda |binary Sleuth2-2.0-3/Sleuth2/data/ex0430.rda |binary 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Title: Analysis of Large-Scale Pharmacogenomic Data
Description: Contains a set of functions to perform large-scale analysis of pharmacogenomic data.
Author: Petr Smirnov, Zhaleh Safikhani, Benjamin Haibe-Kains
Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>
Diff between PharmacoGx versions 1.1.2 dated 2015-11-15 and 1.1.4 dated 2016-01-08
PharmacoGx-1.1.2/PharmacoGx/man/GWC.Rd |only PharmacoGx-1.1.4/PharmacoGx/DESCRIPTION | 13 PharmacoGx-1.1.4/PharmacoGx/MD5 | 170 +- PharmacoGx-1.1.4/PharmacoGx/NAMESPACE | 3 PharmacoGx-1.1.4/PharmacoGx/R/GWC.R | 35 PharmacoGx-1.1.4/PharmacoGx/R/LogLogisticRegression.R | 89 - PharmacoGx-1.1.4/PharmacoGx/R/PharmacoSetClass.R | 611 ++++++---- PharmacoGx-1.1.4/PharmacoGx/R/combineTest.R | 44 PharmacoGx-1.1.4/PharmacoGx/R/computeAUC.R | 1 PharmacoGx-1.1.4/PharmacoGx/R/computeDrugSensitivity.R | 4 PharmacoGx-1.1.4/PharmacoGx/R/computeIC50.R | 24 PharmacoGx-1.1.4/PharmacoGx/R/connectivityScore.R | 70 - PharmacoGx-1.1.4/PharmacoGx/R/corWeighted.R | 4 PharmacoGx-1.1.4/PharmacoGx/R/downloadPSet.R | 2 PharmacoGx-1.1.4/PharmacoGx/R/downloadSignatures.R | 1 PharmacoGx-1.1.4/PharmacoGx/R/drugDoseResponseCurve.R | 7 PharmacoGx-1.1.4/PharmacoGx/R/drugPerturbationSig.R | 16 PharmacoGx-1.1.4/PharmacoGx/R/drugSensitivitySig.R | 46 PharmacoGx-1.1.4/PharmacoGx/R/geneDrugPerturbation.R | 86 - PharmacoGx-1.1.4/PharmacoGx/R/intersectList.R | 5 PharmacoGx-1.1.4/PharmacoGx/R/intersectPSets.R | 41 PharmacoGx-1.1.4/PharmacoGx/R/rankGeneDrugPerturbation.R | 198 +-- PharmacoGx-1.1.4/PharmacoGx/R/rankGeneDrugSensitivity.R | 18 PharmacoGx-1.1.4/PharmacoGx/R/signatureClass.R | 26 PharmacoGx-1.1.4/PharmacoGx/R/summarizeSensitivityProfiles.R | 52 PharmacoGx-1.1.4/PharmacoGx/R/unionList.R | 5 PharmacoGx-1.1.4/PharmacoGx/build/vignette.rds |binary PharmacoGx-1.1.4/PharmacoGx/data/CCLEsmall.rda |binary PharmacoGx-1.1.4/PharmacoGx/inst/doc/CreatingPharmacoSet.pdf |binary PharmacoGx-1.1.4/PharmacoGx/inst/doc/PharmacoGx.R | 6 PharmacoGx-1.1.4/PharmacoGx/inst/doc/PharmacoGx.Rnw | 4 PharmacoGx-1.1.4/PharmacoGx/inst/doc/PharmacoGx.pdf |binary PharmacoGx-1.1.4/PharmacoGx/man/CCLEsmall.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/CMAPsmall.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/GDSCsmall.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/HDAC_genes.Rd | 4 PharmacoGx-1.1.4/PharmacoGx/man/LogLogisticRegression.Rd | 40 PharmacoGx-1.1.4/PharmacoGx/man/PharmacoSet-class.Rd | 50 PharmacoGx-1.1.4/PharmacoGx/man/PharmacoSet.Rd | 10 PharmacoGx-1.1.4/PharmacoGx/man/availablePSets.Rd | 4 PharmacoGx-1.1.4/PharmacoGx/man/cellInfo-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/cellInfo.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/cellNames-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/cellNames.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/checkPSetStructure.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/man/computeAUC.Rd | 9 PharmacoGx-1.1.4/PharmacoGx/man/computeIC50.Rd | 6 PharmacoGx-1.1.4/PharmacoGx/man/connectivityScore.Rd | 9 PharmacoGx-1.1.4/PharmacoGx/man/dateCreated.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/downloadPSet.Rd | 5 PharmacoGx-1.1.4/PharmacoGx/man/downloadPertSig.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/drugDoseResponseCurve.Rd | 26 PharmacoGx-1.1.4/PharmacoGx/man/drugInfo-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/drugInfo.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/drugNames-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/drugNames.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/drugPerturbationSig.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/man/drugSensitivitySig.Rd | 15 PharmacoGx-1.1.4/PharmacoGx/man/featureInfo-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/featureInfo.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/featureNames.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/gwc.Rd |only PharmacoGx-1.1.4/PharmacoGx/man/intersectList.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/man/intersectPSet.Rd | 16 PharmacoGx-1.1.4/PharmacoGx/man/molecularProfiles-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/molecularProfiles.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/pSetName.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/pertNumber-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/pertNumber.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/phenoInfo-set.Rd | 11 PharmacoGx-1.1.4/PharmacoGx/man/phenoInfo.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensNumber-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensNumber.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensitivityInfo-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensitivityInfo.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensitivityMeasures.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensitivityProfiles-set.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/sensitivityProfiles.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/show-PharmacoSet-method.Rd | 7 PharmacoGx-1.1.4/PharmacoGx/man/show-PharmacoSig-method.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/showSigAnnot.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/sub-PharmacoSet-method.Rd | 2 PharmacoGx-1.1.4/PharmacoGx/man/subsetTo.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/man/summarizeMolecularProfiles.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/man/summarizeSensitivityProfiles.Rd | 5 PharmacoGx-1.1.4/PharmacoGx/man/unionList.Rd | 3 PharmacoGx-1.1.4/PharmacoGx/vignettes/PharmacoGx.Rnw | 4 87 files changed, 1167 insertions(+), 847 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation
of hash digests of arbitrary R objects (using the md5, sha-1, sha-256,
crc32, xxhash and murmurhash algorithms) permitting easy comparison of R
language objects, as well as a function 'hmac()' to create hash-based
message authentication code.
The md5 algorithm by Ron Rivest is specified in RFC 1321, the sha-1
and sha-256 algorithms are specified in FIPS-180-1 and FIPS-180-2,
and the crc32 algorithm is described in
ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt.
For md5, sha-1, sha-256 and aes, this package uses small standalone
implementations that were provided by Christophe Devine. For crc32, code
from the zlib library is used. For sha-512, an implementation by Aaron
D. Gifford is used. For xxhash, the implementation by Yann Collet is used.
For murmurhash, an implementation by Shane Day is used.
Please note that this package is not meant to be deployed for
cryptographic purposes for which more comprehensive (and widely
tested) libraries such as OpenSSL should be used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu and Thierry Onkelinx.
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.8 dated 2014-12-31 and 0.6.9 dated 2016-01-08
ChangeLog | 44 ++++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 16 ++++++++------ MD5 | 25 +++++++++++++++------- NAMESPACE | 14 ++++++++++++ R/digest.R | 34 ++++++++++++++++++++++++------- R/sha1.R |only README.md | 8 ++++--- build |only inst/doc |only man/digest.Rd | 21 +++++++++++++------ man/hmac.Rd | 11 +++++++--- man/sha1.rd |only src/digest.c | 57 +++++++++++++++++++++------------------------------- tests/num2hexTest.R |only tests/sha1Test.R |only vignettes |only 16 files changed, 163 insertions(+), 67 deletions(-)
Title: Class and Methods Definitions for Packages 'aws', 'adimpro',
'fmri' and 'dti'
Description: The package defines method extract and provides OpenMP support needed in several packages.
Author: Joerg Polzehl [aut, cre],
Felix Anker [ctb]
Maintainer: Joerg Polzehl <joerg.polzehl@wias-berlin.de>
Diff between awsMethods versions 1.0-3 dated 2014-03-05 and 1.0-3.1 dated 2016-01-08
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- R/utilities.r | 6 +++--- src/Makevars.in | 2 +- 4 files changed, 13 insertions(+), 13 deletions(-)