Title: Extensions to 'ggplot2' for Radiation Spectra
Description: Additional annotations, stats and scales for plotting "light"
spectra with 'ggplot2', together with specializations of ggplot()
and plot() methods for spectral data stored in objects of the classes
defined in package 'photobiology' and a plot() method for objects of
class "waveband", also defined in package 'photobiology'.
Author: Pedro J. Aphalo [aut, cre]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between ggspectra versions 0.1.6 dated 2016-02-06 and 0.1.7 dated 2016-05-21
DESCRIPTION | 16 +- MD5 | 110 +++++++++--------- NAMESPACE | 8 + NEWS | 15 ++ R/decoration.R | 79 +++++++------ R/plot-cps-spct.r | 92 ++++++++++----- R/plot-filter-spct.r | 137 +++++++++++++++++------ R/plot-raw-spct.r | 88 ++++++++++----- R/plot-response-spct.r | 56 +++++++-- R/plot-source-spct.r | 40 +++++- R/plot-waveband.r | 7 - R/stat-color.R | 2 R/stat-wb-contribution.R | 9 + R/stat-wb-irrad.R | 88 +++++++++++++-- R/stat-wb-label.R |only R/stat-wb-mean.R | 8 + R/stat-wb-relative.R | 8 + R/stat-wb-sirrad.R | 69 +++++++++++ R/stat-wb-total.R | 6 - R/stat-wl-strip.R | 3 R/stat-wl-summary.R | 15 +- build/vignette.rds |binary inst/doc/user-guide.R | 133 +++++++++++++--------- inst/doc/user-guide.Rmd | 157 +++++++++++++++++---------- inst/doc/user-guide.html | 255 ++++++++++++++++++++++++++------------------ man/A_plot.Rd | 4 man/O_plot.Rd | 5 man/R_plot.Rd | 4 man/T_plot.Rd | 4 man/cps_plot.Rd | 13 +- man/decoration.Rd | 5 man/e_plot.Rd | 4 man/e_rsp_plot.Rd | 5 man/gg2spectra-ggproto.Rd | 5 man/plot.cps_spct.Rd | 11 + man/plot.filter_spct.Rd | 5 man/plot.object_spct.Rd | 5 man/plot.raw_spct.Rd | 5 man/plot.reflector_spct.Rd | 5 man/plot.response_spct.Rd | 5 man/plot.source_spct.Rd | 5 man/plot.waveband.Rd | 5 man/q_plot.Rd | 4 man/q_rsp_plot.Rd | 5 man/raw_plot.Rd | 13 +- man/stat_color.Rd | 5 man/stat_peaks.Rd | 3 man/stat_wb_contribution.Rd | 11 + man/stat_wb_irrad.Rd | 26 +++- man/stat_wb_label.Rd |only man/stat_wb_mean.Rd | 10 + man/stat_wb_relative.Rd | 12 +- man/stat_wb_sirrad.Rd | 28 ++++ man/stat_wb_total.Rd | 9 + man/stat_wl_strip.Rd | 6 - man/stat_wl_summary.Rd | 8 - vignettes/user-guide.Rmd | 157 +++++++++++++++++---------- 57 files changed, 1222 insertions(+), 571 deletions(-)
Title: MCMC for Spike and Slab Regression
Description: Spike and slab regression a la McCulloch and George (1997).
Author: Steven L. Scott <stevescott@google.com>
Maintainer: Steven L. Scott <stevescott@google.com>
Diff between BoomSpikeSlab versions 0.5.3 dated 2016-03-15 and 0.6.0 dated 2016-05-21
DESCRIPTION | 10 - MD5 | 38 ++- NAMESPACE | 14 + R/lm.spike.R | 358 ++++++++++++++++++++++++++++++++---- R/logit.spike.R | 39 +++ R/model.matrix.R | 20 ++ R/poisson.spike.R | 34 +++ man/lm.spike.Rd | 34 +++ man/logit.spike.Rd | 4 man/model.matrix.glm.spike.Rd |only man/plot.coefficients.Rd |only man/plot.lm.spike.Rd | 19 + man/plot.lm.spike.residuals.Rd |only man/plot.logit.spike.Rd | 8 man/plot.logit.spike.fit.summary.Rd | 2 man/plot.poisson.spike.Rd | 7 man/predict.lm.spike.Rd | 34 ++- man/residuals.lm.spike.Rd |only src/logit_spike_slab_wrapper.cc | 25 +- src/mlm_spike_slab_wrapper.cc | 9 src/poisson_spike_slab_wrapper.cc | 9 src/spike_slab_wrapper.cc | 119 ++++++++--- 22 files changed, 641 insertions(+), 142 deletions(-)
Title: Bayesian Object Oriented Modeling
Description: A C++ library for Bayesian modeling, with an emphasis on
Markov chain Monte Carlo. Although boom contains a few R utilities
(mainly plotting functions), its primary purpose is to install the
BOOM C++ library on your system so that other packages can link
against it.
Author: Steven L. Scott is the sole author and creator of the BOOM
project. Some code in the BOOM libraries has been modified from
other open source projects. These include Cephes (obtained from
Netlib, written by Stephen L. Moshier), NEWUOA (M.J.D Powell,
obtained from Powell's web site), and a modified version of the R
math libraries (R core development team). Original copyright
notices have been maintained in all source files. In these cases,
copyright claimed by Steven L. Scott is limited to modifications
made to the original code.
Maintainer: Steve Scott <stevescott@google.com>
Diff between Boom versions 0.3 dated 2016-03-15 and 0.4 dated 2016-05-21
Boom-0.3/Boom/src/Bmath/signrank.cpp |only Boom-0.3/Boom/src/Bmath/wilcox.cpp |only Boom-0.3/Boom/src/distributions/set_seed.cpp |only Boom-0.4/Boom/DESCRIPTION | 8 Boom-0.4/Boom/MD5 | 131 +- Boom-0.4/Boom/R/plot.many.ts.R | 3 Boom-0.4/Boom/R/prior_specification.R | 30 Boom-0.4/Boom/inst/include/LinAlg/Matrix.hpp | 10 Boom-0.4/Boom/inst/include/LinAlg/Selector.hpp | 1 Boom-0.4/Boom/inst/include/LinAlg/SpdMatrix.hpp | 6 Boom-0.4/Boom/inst/include/LinAlg/SubMatrix.hpp | 17 Boom-0.4/Boom/inst/include/LinAlg/VectorView.hpp | 14 Boom-0.4/Boom/inst/include/Models/GammaModel.hpp | 3 Boom-0.4/Boom/inst/include/Models/Glm/BinomialLogitModel.hpp | 7 Boom-0.4/Boom/inst/include/Models/Glm/GammaRegressionModel.hpp |only Boom-0.4/Boom/inst/include/Models/Glm/PosteriorSamplers/GammaRegressionPosteriorSampler.hpp |only Boom-0.4/Boom/inst/include/Models/Glm/PosteriorSamplers/ZeroInflatedGammaRegressionPosteriorSampler.hpp |only Boom-0.4/Boom/inst/include/Models/Glm/VariableSelectionPrior.hpp | 4 Boom-0.4/Boom/inst/include/Models/Glm/ZeroInflatedGammaRegression.hpp |only Boom-0.4/Boom/inst/include/Models/Glm/ZeroInflatedLognormalRegression.hpp | 2 Boom-0.4/Boom/inst/include/Models/StateSpace/Filters/SparseMatrix.hpp | 17 Boom-0.4/Boom/inst/include/Models/UniformShrinkagePriorModel.hpp |only Boom-0.4/Boom/inst/include/Models/ZeroInflatedPoissonModel.hpp | 1 Boom-0.4/Boom/inst/include/Samplers/UnivariateSliceSampler.hpp | 5 Boom-0.4/Boom/inst/include/distributions.hpp | 1 Boom-0.4/Boom/inst/include/distributions/Rmath_dist.hpp | 14 Boom-0.4/Boom/inst/include/numopt.hpp | 2 Boom-0.4/Boom/inst/include/r_interface/boom_r_tools.hpp | 40 Boom-0.4/Boom/inst/include/r_interface/prior_specification.hpp | 2 Boom-0.4/Boom/man/double.model.Rd | 7 Boom-0.4/Boom/man/lognormal.prior.Rd |only Boom-0.4/Boom/src/Bmath/Bmath.hpp | 3 Boom-0.4/Boom/src/Bmath/fround.cpp | 5 Boom-0.4/Boom/src/Bmath/mathlib_error.cpp | 4 Boom-0.4/Boom/src/Bmath/mlutils.cpp | 2 Boom-0.4/Boom/src/Bmath/nmath.hpp | 8 Boom-0.4/Boom/src/Bmath/phyper.cpp | 4 Boom-0.4/Boom/src/Bmath/pnbeta.cpp | 2 Boom-0.4/Boom/src/Bmath/pnchisq.cpp | 2 Boom-0.4/Boom/src/Bmath/polygamma.cpp | 7 Boom-0.4/Boom/src/Bmath/ptukey.cpp | 4 Boom-0.4/Boom/src/Bmath/qtukey.cpp | 4 Boom-0.4/Boom/src/Bmath/rbeta.cpp | 34 Boom-0.4/Boom/src/Bmath/rbinom.cpp | 22 Boom-0.4/Boom/src/Bmath/rhyper.cpp | 3 Boom-0.4/Boom/src/Bmath/rpois.cpp | 10 Boom-0.4/Boom/src/Bmath/snorm.cpp | 5 Boom-0.4/Boom/src/Bmath/toms708.cpp | 489 ++++------ Boom-0.4/Boom/src/Bmath/unif_rand.cpp | 19 Boom-0.4/Boom/src/LinAlg/LinAlgExceptions.cpp | 7 Boom-0.4/Boom/src/LinAlg/Matrix.cpp | 49 - Boom-0.4/Boom/src/LinAlg/Selector.cpp | 18 Boom-0.4/Boom/src/LinAlg/SpdMatrix.cpp | 20 Boom-0.4/Boom/src/LinAlg/SubMatrix.cpp | 91 + Boom-0.4/Boom/src/LinAlg/Vector.cpp | 39 Boom-0.4/Boom/src/LinAlg/VectorView.cpp | 32 Boom-0.4/Boom/src/Models/GammaModel.cpp | 6 Boom-0.4/Boom/src/Models/Glm/BinomialLogitModel.cpp | 34 Boom-0.4/Boom/src/Models/Glm/GammaRegressionModel.cpp |only Boom-0.4/Boom/src/Models/Glm/PosteriorSamplers/GammaRegressionPosteriorSampler.cpp |only Boom-0.4/Boom/src/Models/Glm/VariableSelectionPrior.cpp | 186 +-- Boom-0.4/Boom/src/Models/Glm/ZeroInflatedGammaRegression.cpp |only Boom-0.4/Boom/src/Models/PosteriorSamplers/DirichletPosteriorSampler.cpp | 2 Boom-0.4/Boom/src/Models/UniformShrinkagePriorModel.cpp |only Boom-0.4/Boom/src/Models/ZeroInflatedGammaModel.cpp | 5 Boom-0.4/Boom/src/Models/ZeroInflatedPoissonModel.cpp | 7 Boom-0.4/Boom/src/Samplers/ImportanceResampler.cpp | 2 Boom-0.4/Boom/src/Samplers/UnivariateSliceSampler.cpp | 23 Boom-0.4/Boom/src/cpputil/parse_range.cpp | 7 Boom-0.4/Boom/src/distributions/Rmath_dist.cpp | 18 Boom-0.4/Boom/src/distributions/rmulti.cpp | 9 Boom-0.4/Boom/src/prior_specification.cpp | 17 Boom-0.4/Boom/src/stats/IQagent.cpp | 2 73 files changed, 900 insertions(+), 626 deletions(-)
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <http://cricsheet.org>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.4 dated 2016-04-18 and 0.0.5 dated 2016-05-21
DESCRIPTION | 12 ++--- MD5 | 55 +++++++++++++++++--------- NAMESPACE | 8 +++ R/getTeamBowlingDetails.R | 2 R/rankIPLBatsmen.R |only R/rankIPLBowlers.R |only R/rankODIBatsmen.R |only R/rankODIBowlers.R |only R/rankT20Batsmen.R |only R/rankT20Bowlers.R |only R/saveAllMatchesAllOppositionIPLT20.R |only R/saveAllMatchesBetween2IPLTeams.R |only R/teamBatsmenPartnershipMatch.R | 15 ++++--- R/teamBatsmenPartnershipOppnAllMatchesChart.R | 2 R/teamBatsmenVsBowlersMatch.R | 13 +++--- R/teamBatsmenVsBowlersOppnAllMatches.R | 2 R/teamBatsmenvsBowlersAllOppnAllMatchesPlot.R | 2 R/teamBowlersVsBatsmenMatch.R | 23 ++++++---- R/teamBowlersWicketsOppnAllMatches.R | 13 ++++-- R/teamBowlingWicketKindMatch.R | 20 ++++++--- R/teamBowlingWicketMatch.R | 19 +++++--- R/teamBowlingWicketRunsMatch.R | 23 +++++++--- README.md |only man/rankIPLBatsmen.Rd |only man/rankIPLBowlers.Rd |only man/rankODIBatsmen.Rd |only man/rankODIBowlers.Rd |only man/rankT20Batsmen.Rd |only man/rankT20Bowlers.Rd |only man/saveAllMatchesAllOppositionIPLT20.Rd |only man/saveAllMatchesBetween2IPLTeams.Rd |only man/teamBatsmenPartnershipMatch.Rd | 10 ++-- man/teamBatsmenVsBowlersMatch.Rd | 8 +-- man/teamBowlersVsBatsmenMatch.Rd | 11 ++--- man/teamBowlingWicketKindMatch.Rd | 8 ++- man/teamBowlingWicketMatch.Rd | 8 ++- man/teamBowlingWicketRunsMatch.Rd | 10 ++-- 37 files changed, 165 insertions(+), 99 deletions(-)
Title: Bibliometric and Co-Citation Analysis Tool
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from SCOPUS and
Thomson Reuters' ISI Web of Knowledge databases, performing bibliometric analysis
and building data matrices for co-citation, coupling and scientific collaboration analysis.
Author: Massimo Aria [cre, aut],
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 0.2 dated 2016-05-19 and 0.3 dated 2016-05-21
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 7 +++++++ inst/doc/bibliometrix-vignette.Rmd | 6 +++--- inst/doc/bibliometrix-vignette.html | 8 ++++---- vignettes/bibliometrix-vignette.Rmd | 6 +++--- 6 files changed, 26 insertions(+), 19 deletions(-)
Title: Bayesian Inference for Beta Regression and Zero-or-One Inflated
Beta Regression
Description: Fits beta regression and zero-or-one inflated beta regression and obtains Bayesian Inference of the model via the Markov Chain Monte Carlo approach implemented in JAGS.
Author: Fang Liu <fang.liu.131@nd.edu> with contributions from Yunchuan Kong
Maintainer: Fang Liu <fang.liu.131@nd.edu>
Diff between zoib versions 1.3.3 dated 2015-11-14 and 1.3.4 dated 2016-05-21
DESCRIPTION | 12 ++--- MD5 | 90 +++++++++++++++++++------------------- R/fixed.R | 41 ++++++++++++++--- R/fixed0.R | 74 +++++++++++++++++++++++-------- R/fixed01.R | 91 +++++++++++++++++++++++++++----------- R/fixed1.R | 46 +++++++++++++++++-- R/joint.1z.R | 40 ++++++++++++++--- R/joint.1z0.R | 45 +++++++++++++++++-- R/joint.1z01.R | 49 ++++++++++++++++++-- R/joint.1z1.R | 45 ++++++++++++++++--- R/joint.2z.R | 54 +++++++++++++++++++---- R/joint.2z0.R | 55 +++++++++++++++++++++-- R/joint.2z01.R | 61 +++++++++++++++++++++++--- R/joint.2z1.R | 57 +++++++++++++++++++++--- R/sep.1z.R | 44 +++++++++++++++--- R/sep.1z0.R | 49 +++++++++++++++++--- R/sep.1z01.R | 51 +++++++++++++++++++-- R/sep.1z1.R | 46 +++++++++++++++++-- R/sep.2z.R | 102 ++++++++++++++++++++++++++++++------------- R/sep.2z0.R | 122 +++++++++++++++++++++++++++++++++++----------------- R/sep.2z01.R | 62 +++++++++++++++++++++++--- R/sep.2z1.R | 56 +++++++++++++++++++++-- R/zoib.R | 52 ++++++++++++---------- man/fixed.Rd | 5 +- man/fixed0.Rd | 5 +- man/fixed01.Rd | 5 +- man/fixed1.Rd | 5 +- man/joint.1z.Rd | 5 +- man/joint.1z0.Rd | 5 +- man/joint.1z01.Rd | 5 +- man/joint.1z1.Rd | 5 +- man/joint.2z.Rd | 5 +- man/joint.2z0.Rd | 6 ++ man/joint.2z01.Rd | 5 +- man/joint.2z1.Rd | 5 +- man/sep.1z.Rd | 5 +- man/sep.1z0.Rd | 5 +- man/sep.1z01.Rd | 5 +- man/sep.1z1.Rd | 5 +- man/sep.2z.Rd | 5 +- man/sep.2z0.Rd | 5 +- man/sep.2z01.Rd | 5 +- man/sep.2z1.Rd | 5 +- man/zoib-package.Rd | 12 ++--- man/zoib.Rd | 118 ++++++++++++++++++++++++++------------------------ tests/test1.R | 2 46 files changed, 1209 insertions(+), 368 deletions(-)