Title: Tidy Data and 'Geoms' for Bayesian Models
Description: Compose data for and extract, manipulate, and visualize posterior draws from Bayesian models
('JAGS', 'Stan', 'rstanarm', 'brms', 'MCMCglmm', 'coda', ...) in a tidy data format. Functions are provided
to help extract tidy data frames of draws from Bayesian models and that generate point
summaries and intervals in a tidy format. In addition, 'ggplot2' 'geoms' and 'stats' are provided for
common visualization primitives like points with multiple uncertainty intervals, eye plots (intervals plus
densities), and fit curves with multiple, arbitrary uncertainty bands.
Author: Matthew Kay [aut, cre],
Timothy Mastny [ctb]
Maintainer: Matthew Kay <mjskay@umich.edu>
Diff between tidybayes versions 1.0.4 dated 2019-02-19 and 1.1.0 dated 2019-06-02
DESCRIPTION | 21 MD5 | 203 - NAMESPACE | 5 NEWS.md | 87 R/add_draws.R | 204 - R/compose_data.R | 19 R/fitted_draws.R | 52 R/gather_emmeans_draws.R | 320 - R/gather_pairs.R | 8 R/gather_variables.R | 1 R/geom_lineribbon.R | 338 - R/onAttach.R | 8 R/point_interval.R | 17 R/predicted_draws.R | 9 R/recover_types.R | 314 - R/sample_draws.R | 38 R/spread_draws.R | 242 + R/stat_lineribbon.R | 240 - R/util.R | 3 build/vignette.rds |binary inst/doc/tidy-brms.R | 32 inst/doc/tidy-brms.Rmd | 1665 ++++---- inst/doc/tidy-brms.html | 1300 +++--- inst/doc/tidy-rstanarm.R | 8 inst/doc/tidy-rstanarm.Rmd | 1312 +++--- inst/doc/tidy-rstanarm.html | 1057 ++--- inst/doc/tidybayes-residuals.Rmd | 1406 +++---- inst/doc/tidybayes-residuals.html | 727 +-- inst/doc/tidybayes.Rmd | 1710 ++++---- inst/doc/tidybayes.html | 1995 +++++----- man/add_predicted_draws.Rd | 20 man/gather_pairs.Rd | 7 man/sample_draws.Rd | 40 man/spread_draws.Rd | 17 tests/figs/geom-eye/one-parameter-horizontal-eye-mode-hdi.svg | 96 tests/figs/geom-eye/one-parameter-horizontal-eye.svg | 96 tests/figs/geom-eye/one-parameter-horizontal-half-eye-mode-hdi.svg | 100 tests/figs/geom-eye/one-parameter-horizontal-half-eye.svg | 100 tests/figs/geom-eye/one-parameter-vertical-eye-mode-hdi.svg | 96 tests/figs/geom-eye/one-parameter-vertical-eye.svg | 96 tests/figs/geom-eye/two-parameter-factor-horizontal-eye.svg | 102 tests/figs/geom-eye/two-parameter-factor-horizontal-half-eye.svg | 102 tests/figs/geom-eye/two-parameter-factor-vertical-eye.svg | 102 tests/figs/geom-eye/two-parameter-numeric-horizontal-eye.svg | 114 tests/figs/geom-eye/two-parameter-numeric-horizontal-half-eye.svg | 110 tests/figs/geom-eye/two-parameter-numeric-vertical-eye.svg | 114 tests/figs/geom-interval/grouped-intervals-h-reverse-order.svg | 140 tests/figs/geom-interval/grouped-intervals-h-stat-mode-hdi.svg | 144 tests/figs/geom-interval/grouped-intervals-h-stat-reverse-order.svg | 140 tests/figs/geom-interval/grouped-intervals-h-stat.svg | 140 tests/figs/geom-interval/grouped-intervals-h.svg | 140 tests/figs/geom-interval/grouped-intervals-reverse-order.svg | 140 tests/figs/geom-interval/grouped-intervals-stat-mode-hdi.svg | 144 tests/figs/geom-interval/grouped-intervals-stat-reverse-order.svg | 140 tests/figs/geom-interval/grouped-intervals-stat.svg | 140 tests/figs/geom-interval/grouped-intervals.svg | 140 tests/figs/geom-lineribbon/one-group-geom-lineribbon-reverse-order.svg | 130 tests/figs/geom-lineribbon/one-group-geom-lineribbon.svg | 130 tests/figs/geom-lineribbon/one-group-stat-lineribbon-mean-qi.svg | 130 tests/figs/geom-lineribbon/one-group-stat-lineribbon-reverse-order.svg | 130 tests/figs/geom-lineribbon/one-group-stat-lineribbon.svg | 130 tests/figs/geom-lineribbon/two-group-stat-lineribbons-grouped-by-color-and-linetype.svg | 154 tests/figs/geom-lineribbon/two-group-stat-lineribbons-grouped-by-color.svg | 154 tests/figs/geom-lineribbon/two-group-stat-lineribbons-grouped-by-group.svg | 138 tests/figs/geom-lineribbon/two-group-stat-lineribbons-grouped-by-linetype.svg | 154 tests/figs/geom-pointinterval/grouped-pointintervals-h-reverse-order.svg | 134 tests/figs/geom-pointinterval/grouped-pointintervals-h-stat-mode-hdi.svg | 134 tests/figs/geom-pointinterval/grouped-pointintervals-h-stat-reverse-order.svg | 130 tests/figs/geom-pointinterval/grouped-pointintervals-h-stat.svg | 130 tests/figs/geom-pointinterval/grouped-pointintervals-h.svg | 147 tests/figs/geom-pointinterval/grouped-pointintervals-reverse-order.svg | 130 tests/figs/geom-pointinterval/grouped-pointintervals-stat-mode-hdi.svg | 134 tests/figs/geom-pointinterval/grouped-pointintervals-stat-reverse-order.svg | 130 tests/figs/geom-pointinterval/grouped-pointintervals-stat.svg | 130 tests/figs/geom-pointinterval/grouped-pointintervals.svg | 146 tests/models/models.brms.m_cyl_mpg.rds |binary tests/models/models.brms.m_dirich.rds |only tests/models/models.brms.m_dpars.rds |binary tests/models/models.brms.m_hp.rds |binary tests/models/models.brms.m_hp_sigma.rds |binary tests/models/models.brms.m_nlpar.rds |binary tests/models/models.brms.m_ranef.rds |binary tests/models/models.rstan.m_ABC.rds |binary tests/models/models.rstanarm.m_cyl.rds |binary tests/models/models.rstanarm.m_hp_wt.rds |binary tests/models/models.rstanarm.m_ranef.rds |binary tests/testthat/test.add_draws.R |only tests/testthat/test.as_constructor.R | 15 tests/testthat/test.compose_data.R | 21 tests/testthat/test.fitted_draws.R | 66 tests/testthat/test.gather_emmeans_draws.R | 148 tests/testthat/test.gather_pairs.R |only tests/testthat/test.geom_lineribbon.R | 6 tests/testthat/test.geom_pointinterval.R | 5 tests/testthat/test.point_interval.R | 20 tests/testthat/test.predicted_draws.R | 23 tests/testthat/test.residual_draws.R |only tests/testthat/test.spread_draws.R | 818 ++-- tests/testthat/test.tidy_draws.R | 4 tests/testthat/test.ungather_draws.R | 4 tests/testthat/test.util.R |only vignettes/tidy-brms.Rmd | 1665 ++++---- vignettes/tidy-rstanarm.Rmd | 1312 +++--- vignettes/tidybayes-residuals.Rmd | 1406 +++---- vignettes/tidybayes.Rmd | 1710 ++++---- 105 files changed, 13342 insertions(+), 12537 deletions(-)
Title: Randomized Singular Value Decomposition
Description: Low-rank matrix decompositions are fundamental tools and widely used for data
analysis, dimension reduction, and data compression. Classically, highly accurate
deterministic matrix algorithms are used for this task. However, the emergence of
large-scale data has severely challenged our computational ability to analyze big data.
The concept of randomness has been demonstrated as an effective strategy to quickly produce
approximate answers to familiar problems such as the singular value decomposition (SVD).
The rsvd package provides several randomized matrix algorithms such as the randomized
singular value decomposition (rsvd), randomized principal component analysis (rpca),
randomized robust principal component analysis (rrpca), randomized interpolative
decomposition (rid), and the randomized CUR decomposition (rcur). In addition several plot
functions are provided.
Author: N. Benjamin Erichson [aut, cre]
Maintainer: N. Benjamin Erichson <erichson@berkeley.edu>
Diff between rsvd versions 1.0.0 dated 2018-11-06 and 1.0.1 dated 2019-06-02
DESCRIPTION | 15 ++++++++------- MD5 | 40 ++++++++++++++++++++-------------------- R/ggbiplot.R | 2 +- R/ggcorplot.R | 2 +- R/ggindplot.R | 2 +- R/ggscreeplot.R | 2 +- R/rcur.R | 12 +++++++----- R/rpca.R | 15 ++++++++++++++- R/rqb.R | 13 +++++++------ R/rrpca.R | 17 ++++++++++------- R/rsvd.R | 12 +++++++----- inst/CITATION | 31 +++++++++++++++++++++---------- man/ggbiplot.Rd | 2 +- man/ggcorplot.Rd | 2 +- man/ggindplot.Rd | 2 +- man/ggscreeplot.Rd | 2 +- man/rcur.Rd | 12 +++++++----- man/rpca.Rd | 16 +++++++++++++++- man/rqb.Rd | 27 ++++++++++++++------------- man/rrpca.Rd | 20 +++++++++++--------- man/rsvd.Rd | 12 +++++++----- 21 files changed, 156 insertions(+), 102 deletions(-)
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and do basic R-style math, and compiling both models and nimbleFunctions via custom-generated C++. 'NIMBLE' includes default methods for MCMC, particle filtering, Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction system makes it easy to do things like implement new MCMC samplers from R, customize the assignment of samplers to different parts of a model from R, and compile the new samplers automatically via C++ alongside the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New distributions and functions can be added, including as calls to external compiled code. Although most people think of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing arbitrary other kinds of model-generic algorithms as well. A full User Manual is available at <https://r-nimble.org>.
Author: Perry de Valpine [aut],
Christopher Paciorek [aut, cre],
Daniel Turek [aut],
Nick Michaud [aut],
Cliff Anderson-Bergman [aut],
Fritz Obermeyer [aut],
Claudia Wehrhahn Cortes [aut] (Bayesian nonparametrics system),
Abel Rodriguez [aut] (Bayesian nonparametrics system),
Sally Paganin [aut] (reversible jump MCMC),
Jagadish Babu [ctb] (code for the compilation system for an early
version of NIMBLE),
Lauren Ponisio [ctb] (contributions to the cross-validation code),
Peter Sujan [ctb] (multivariate t distribution code)
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 0.7.1 dated 2019-03-12 and 0.8.0 dated 2019-06-02
nimble-0.7.1/nimble/R/MCMC_comparisons.R |only nimble-0.7.1/nimble/R/MCMC_suite.R |only nimble-0.7.1/nimble/R/genCpp_TFize.R |only nimble-0.7.1/nimble/inst/AUTHORS |only nimble-0.7.1/nimble/inst/CppCode/tensorflow.cpp |only nimble-0.7.1/nimble/inst/include/base64 |only nimble-0.7.1/nimble/inst/include/nimble/tensorflow.h |only nimble-0.7.1/nimble/inst/include/tensorflow |only nimble-0.7.1/nimble/inst/tests/graphStructureTestResults_Correct.Rout |only nimble-0.7.1/nimble/inst/tests/test-compareMCMCs.R |only nimble-0.7.1/nimble/inst/tests/test-tfize.R |only nimble-0.7.1/nimble/man/MCMCsuiteClass-class.Rd |only nimble-0.7.1/nimble/man/combine_MCMC_comparison_results.Rd |only nimble-0.7.1/nimble/man/make_MCMC_comparison_pages.Rd |only nimble-0.7.1/nimble/man/rename_MCMC_comparison_method.Rd |only nimble-0.7.1/nimble/man/reshape_comparison_results.Rd |only nimble-0.7.1/nimble/man/updateMCMCcomparisonWithHighOrderESS.Rd |only nimble-0.8.0/nimble/DESCRIPTION | 68 - nimble-0.8.0/nimble/INSTALL | 6 nimble-0.8.0/nimble/LICENSE | 2 nimble-0.8.0/nimble/MD5 | 153 +- nimble-0.8.0/nimble/NAMESPACE | 12 nimble-0.8.0/nimble/R/BNP_samplers.R | 163 ++ nimble-0.8.0/nimble/R/BUGS_BUGSdecl.R | 4 nimble-0.8.0/nimble/R/BUGS_model.R | 41 nimble-0.8.0/nimble/R/BUGS_modelDef.R | 10 nimble-0.8.0/nimble/R/BUGS_nimbleGraph.R | 6 nimble-0.8.0/nimble/R/BUGS_readBUGS.R | 40 nimble-0.8.0/nimble/R/CAR.R | 12 nimble-0.8.0/nimble/R/MCEM_build.R | 48 nimble-0.8.0/nimble/R/MCMC_RJ.R |only nimble-0.8.0/nimble/R/MCMC_build.R | 2 nimble-0.8.0/nimble/R/MCMC_configuration.R | 221 +++ nimble-0.8.0/nimble/R/MCMC_conjugacy.R | 166 ++ nimble-0.8.0/nimble/R/MCMC_run.R | 12 nimble-0.8.0/nimble/R/MCMC_samplers.R | 47 nimble-0.8.0/nimble/R/MCMC_utils.R | 6 nimble-0.8.0/nimble/R/RCfunction_compile.R | 35 nimble-0.8.0/nimble/R/RCfunction_core.R | 6 nimble-0.8.0/nimble/R/cppDefs_RCfunction.R | 3 nimble-0.8.0/nimble/R/cppDefs_cppProject.R | 29 nimble-0.8.0/nimble/R/distributions_processInputList.R | 13 nimble-0.8.0/nimble/R/externalCalls.R | 25 nimble-0.8.0/nimble/R/genCpp_eigenization.R | 29 nimble-0.8.0/nimble/R/genCpp_sizeProcessing.R | 32 nimble-0.8.0/nimble/R/initializeModel.R | 14 nimble-0.8.0/nimble/R/miscFunctions.R | 21 nimble-0.8.0/nimble/R/nimbleFunction_core.R | 7 nimble-0.8.0/nimble/R/nimbleFunction_keywordProcessing.R | 7 nimble-0.8.0/nimble/R/options.R | 11 nimble-0.8.0/nimble/R/types_symbolTable.R | 28 nimble-0.8.0/nimble/inst/COPYRIGHTS | 29 nimble-0.8.0/nimble/inst/CppCode/nimbleGraph.cpp | 84 + nimble-0.8.0/nimble/inst/NEWS | 116 + nimble-0.8.0/nimble/inst/include/nimble/nimbleEigen.h | 4 nimble-0.8.0/nimble/inst/include/nimble/nimbleGraph.h | 9 nimble-0.8.0/nimble/inst/tests/graphStructureTestLog_Correct.Rout |only nimble-0.8.0/nimble/inst/tests/mathTestLists.R | 34 nimble-0.8.0/nimble/inst/tests/test-benchmarks.R | 31 nimble-0.8.0/nimble/inst/tests/test-bnp.R | 608 ++++++++-- nimble-0.8.0/nimble/inst/tests/test-coreR.R | 137 ++ nimble-0.8.0/nimble/inst/tests/test-externalCalls.R | 5 nimble-0.8.0/nimble/inst/tests/test-graphStructure.R | 4 nimble-0.8.0/nimble/inst/tests/test-mcmc.R | 48 nimble-0.8.0/nimble/inst/tests/test-mcmcrj.R |only nimble-0.8.0/nimble/inst/tests/test-user.R | 2 nimble-0.8.0/nimble/inst/tests/test_utils.R | 17 nimble-0.8.0/nimble/man/MCMCconf-class.Rd | 15 nimble-0.8.0/nimble/man/MCMCsuite.Rd | 163 -- nimble-0.8.0/nimble/man/buildMCEM.Rd | 7 nimble-0.8.0/nimble/man/compareMCMCs.Rd | 38 nimble-0.8.0/nimble/man/configureMCMC.Rd | 11 nimble-0.8.0/nimble/man/configureRJ.Rd |only nimble-0.8.0/nimble/man/getBUGSexampleDir.Rd | 3 nimble-0.8.0/nimble/man/modelBaseClass-class.Rd | 2 nimble-0.8.0/nimble/man/modelDefClass-class.Rd | 2 nimble-0.8.0/nimble/man/nimbleCode.Rd | 2 nimble-0.8.0/nimble/man/nimbleExternalCall.Rd | 5 nimble-0.8.0/nimble/man/nimbleFunction.Rd | 2 nimble-0.8.0/nimble/man/nimbleMCMC.Rd | 7 nimble-0.8.0/nimble/man/nimbleModel.Rd | 15 nimble-0.8.0/nimble/man/nimbleRcall.Rd | 7 nimble-0.8.0/nimble/man/readBUGSmodel.Rd | 22 nimble-0.8.0/nimble/man/runMCMC.Rd | 7 nimble-0.8.0/nimble/man/samplerAssignmentRules-class.Rd | 6 nimble-0.8.0/nimble/man/samplers.Rd | 31 nimble-0.8.0/nimble/src/nimble.cpp | 1 87 files changed, 1929 insertions(+), 824 deletions(-)
Title: Cosmic Microwave Background Data Analysis
Description: Handling and Analysing Spherical,
HEALPix and Cosmic Microwave Background data on a HEALPix grid.
Author: Daniel Fryer [aut, cre] (<https://orcid.org/0000-0001-6032-0522>),
Andriy Olenko [aut] (<https://orcid.org/0000-0002-0917-7000>),
Ming Li [aut] (<https://orcid.org/0000-0002-1218-2804>),
Yuguang Wang [aut]
Maintainer: Daniel Fryer <d.fryer@latrobe.edu.au>
Diff between rcosmo versions 1.0.0 dated 2018-11-19 and 1.1.0 dated 2019-06-02
DESCRIPTION | 12 +- MD5 | 61 ++++++------ NAMESPACE | 3 NEWS.md | 41 ++++++++ R/CMBDataFrame.R | 212 ++++++++++++++++++++---------------------- R/CMBDataFrameGenerics.R | 122 ++++++++++++++++++++---- R/CMBWindowGenerics.R | 18 ++- R/Conversion.R | 32 ++++++ R/DisplayHEALPix.R | 15 +- R/Downloaders.R | 2 R/Geometry.R | 39 +++++++ R/HPDataFrame.R | 163 ++++++++++++++++++++++++++++---- R/NestSearch.R | 37 ++++++- R/Statistics.R | 8 + R/SubWindow.R | 4 R/rcosmo.R | 4 R/zzz.R | 2 README.md | 103 +++++++++++++++++--- man/CMBDataFrame.Rd | 7 - man/HPDataFrame.Rd | 21 +++- man/as.CMBDataFrame.Rd | 21 +++- man/assumedUniquePix.Rd | 4 man/coords.CMBDataFrame.Rd | 2 man/displayPixelBoundaries.Rd | 6 - man/geoAngle.Rd |only man/healpixCentered.Rd |only man/nestSearch.Rd | 10 + man/numeric2col.Rd |only man/plot.CMBDataFrame.Rd | 11 +- man/plot.CMBWindow.Rd | 7 + man/plot.HPDataFrame.Rd | 11 +- man/rcosmo.Rd | 4 man/subWindow.Rd | 2 33 files changed, 744 insertions(+), 240 deletions(-)
Title: Multi-Scale Motions Separation with Kolmogorov-Zurbenko
Periodogram Signals
Description: Separation of wave motions in different scales and directions based on
Kolmogorov-Zurbenko Periodograms and Kolmogorov-Zurbenko Fourier Transform.
Author: Ming Luo <ml226662@gmail.com> and Igor Zurbenko <IZurbenko@albany.edu>
Maintainer: Ming Luo <ml226662@gmail.com>
Diff between kzfs versions 1.5.0.1 dated 2017-06-08 and 1.5.0.2 dated 2019-06-02
DESCRIPTION | 10 +++++----- MD5 | 32 ++++++++++++++++---------------- R/drsp.R | 2 -- R/eval.R | 4 +--- R/kzp2.R | 4 +--- R/smpg.R | 2 +- R/valid.R | 2 -- man/eval.Rd | 10 ++-------- man/kzft.Rd | 5 +---- man/kzmd.Rd | 4 +--- man/kzp2.QF.Rd | 1 - man/kzp2.Rd | 11 +++-------- man/kzpdr.QF.Rd | 1 - man/kzpdr.Rd | 8 +------- man/kzrc2.Rd | 4 +--- man/smpg.Rd | 4 +--- man/valid.Rd | 8 +------- 17 files changed, 35 insertions(+), 77 deletions(-)
Title: Export or Import Graph and Tables to 'Microsoft' Office
Description: Provides wrap functions to export and import graphics and
data frames in R to 'microsoft' office. And This package also
provide write out figures with lots of different formats.
Since people may work on the platform without GUI support, the package
also provide function to easily write out figures
to lots of different type of formats.
Author: Kai Guo
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between eoffice versions 0.1.5 dated 2019-05-31 and 0.1.6 dated 2019-06-02
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- build/vignette.rds |binary inst/doc/eoffice.Rmd | 2 +- inst/doc/eoffice.html | 4 ++-- vignettes/eoffice.Rmd | 2 +- 6 files changed, 14 insertions(+), 14 deletions(-)
Title: A Suite of R Functions Implementing Spline Smoothing Techniques
Description: A comprehensive package for fitting various non-parametric/semi-parametric linear/nonlinear fixed/mixed smoothing spline models.
Author: Yuedong Wang <yuedong@pstat.ucsb.edu>, and
Chunlei Ke <chunlei_ke@yahoo.com>.
Maintainer: Yuedong Wang <yuedong@pstat.ucsb.edu>
Diff between assist versions 3.1.3 dated 2015-02-24 and 3.1.4 dated 2019-06-02
DESCRIPTION | 8 +-- MD5 | 61 +++++++++++++++--------------- NAMESPACE | 8 +++ man/Polynomial.rd | 2 man/Polynomial2.rd | 2 man/Shrinkage.rd | 2 man/TXtemp.rd | 2 man/anova.ssr.rd | 2 man/canadaTemp.rd | 2 man/intervals.nnr.rd | 5 +- man/intervals.slm.rd | 2 man/intervals.snm.rd | 2 man/kron.rd | 2 man/lspline.rd | 2 man/nnr.control.rd | 2 man/nnr.rd | 2 man/periodic.rd | 2 man/plot.bCI.rd | 6 +- man/predict.slm.rd | 2 man/predict.ssr.rd | 3 - man/rk.prod.rd | 2 man/sine4p.rd | 2 man/slm.rd | 2 man/snm.control.rd | 2 man/snr.control.rd | 2 man/sphere.rd | 2 man/ssr.control.rd | 2 man/ssr.rd | 10 ++-- src/kernel_all.c | 8 +-- src/registerDynamicSymbol.c |only src/rkpk1.f | 89 +++++++++++++------------------------------- src/rkpk2.f | 5 +- 32 files changed, 130 insertions(+), 115 deletions(-)
Title: Spatial Extent Tools
Description: Functions to produce a fully fledged 'geo-spatial' object extent as a
'SpatialPolygonsDataFrame'. Also included are functions to generate polygons
from raster data using 'quadmesh' techniques, a round number buffered extent, and
general spatial-extent and 'raster-like' extent helpers missing from the originating
packages. Some latitude-based tools for polar maps are included.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between spex versions 0.5.0 dated 2018-06-07 and 0.6.0 dated 2019-06-02
spex-0.5.0/spex/tests/testthat/Rplots.pdf |only spex-0.6.0/spex/DESCRIPTION | 14 +- spex-0.6.0/spex/MD5 | 30 ++-- spex-0.6.0/spex/NAMESPACE | 5 spex-0.6.0/spex/NEWS.md | 9 + spex-0.6.0/spex/R/latitude.R | 11 + spex-0.6.0/spex/R/spex.R | 84 +++++++++---- spex-0.6.0/spex/README.md | 140 ++++++++++++---------- spex-0.6.0/spex/man/as_double.Rd | 3 spex-0.6.0/spex/man/polygonize.Rd | 7 - spex-0.6.0/spex/man/spex.Rd | 33 +++-- spex-0.6.0/spex/man/xlim.Rd | 3 spex-0.6.0/spex/tests/testthat/test-buffer.R | 2 spex-0.6.0/spex/tests/testthat/test-latitude.R | 16 +- spex-0.6.0/spex/tests/testthat/test-leafem.R |only spex-0.6.0/spex/tests/testthat/test-spex-any.R | 7 - spex-0.6.0/spex/tests/testthat/test-spex-extent.R | 3 17 files changed, 223 insertions(+), 144 deletions(-)
Title: Fused Sparse Structural Equation Models to Jointly Infer Gene
Regulatory Network
Description: An optimizer of Fused-Sparse Structural Equation Models, which is
the state of the art jointly fused sparse maximum likelihood function
for structural equation models proposed by Xin Zhou and Xiaodong Cai (2018
<doi:10.1101/466623>).
Author: Xin Zhou, Xiaodong Cai
Maintainer: Xin Zhou <xxz220@miami.edu>
Diff between fssemR versions 0.1.4 dated 2019-05-31 and 0.1.5 dated 2019-06-02
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ build/vignette.rds |binary inst/doc/fssemR.R | 6 +++--- inst/doc/fssemR.Rmd | 10 +++++----- inst/doc/fssemR.pdf |binary vignettes/fssemR.Rmd | 10 +++++----- 7 files changed, 22 insertions(+), 22 deletions(-)
Title: Do a Git Style Diff of the Rows Between Two Dataframes with
Similar Structure
Description: Compares two dataframes which have the same column
structure to show the rows that have changed. Also gives a git style diff format
to quickly see what has changes in addition to summary statistics.
Author: Alex Joseph [aut, cre]
Maintainer: Alex Joseph <alexsanjoseph@gmail.com>
Diff between compareDF versions 1.7.3 dated 2019-05-15 and 1.8.0 dated 2019-06-02
DESCRIPTION | 8 ++--- MD5 | 12 ++++---- NEWS.md | 4 ++ R/fnsComparison.R | 23 +++++++++++----- README.md | 2 - man/compare_df.Rd | 13 +++++---- tests/testthat/test-fnsComparison.R | 50 ++++++++++++++++++++++++++++++++++-- 7 files changed, 87 insertions(+), 25 deletions(-)
Title: Common R Scripts and Utilities Used by the Statnet Project
Software
Description: Non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.
Author: Pavel N. Krivitsky [aut, cre] (<https://orcid.org/0000-0002-9101-3362>),
Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky <pavel@uow.edu.au>
Diff between statnet.common versions 4.2.0 dated 2019-01-08 and 4.3.0 dated 2019-06-02
DESCRIPTION | 14 +- MD5 | 52 +++++---- NAMESPACE | 7 + NEWS | 22 ++++ NEWS.md | 14 ++ R/cite.utilities.R | 4 R/control.utilities.R | 18 +-- R/deprecation_utils.R | 16 +-- R/formula.utilities.R | 66 ++++++------ R/logspace.utils.R | 8 - R/mcmc-utils.R | 4 R/misc.utilities.R | 236 ++++++++++++++++++++++++++++++++++++++++++--- R/rle_utils.R | 12 +- R/startup.utilities.R | 17 +-- R/string.utilities.R | 6 - R/wmatrix.R | 4 R/zzz.R | 4 build/statnet.common.pdf |binary inst/CITATION | 10 - man/NVL.Rd | 24 ++++ man/check.control.class.Rd | 4 man/once.Rd |only man/persistEval.Rd |only man/set.control.class.Rd | 2 man/ult.Rd | 4 src/init.c | 4 src/logspace_utils.c | 4 src/rle_utils.c | 4 28 files changed, 422 insertions(+), 138 deletions(-)
More information about statnet.common at CRAN
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Title: Coordinate System Transformations for Map Data
Description: Transform coordinates via 'PROJ' using the library directly, by
wrapping the 'proj4' package. The 'reproj' function handles the need for
radian units for either source or target and allows removing an explicit
source definition in methods that extend the generic. The 'PROJ' library is available
at <https://proj4.org/>.
Author: Michael D. Sumner [aut, cre] (<https://orcid.org/0000-0002-2471-7511>)
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between reproj versions 0.3.0 dated 2019-04-20 and 0.4.0 dated 2019-06-02
DESCRIPTION | 9 +++++---- MD5 | 18 +++++++++++------- NAMESPACE | 2 ++ NEWS.md | 14 ++++++++++++++ R/reproj-external-types.R |only R/reproj.R | 28 +++++++++++++++++++++++----- R/sysdata.rda |only R/utils.R |only R/zzz.R |only README.md | 17 +++++++++++------ man/reproj.Rd | 21 ++++++++++++++++++--- tests/testthat/test-reproj.R | 29 ++++++++++++++++++++++++++++- 12 files changed, 112 insertions(+), 26 deletions(-)
Title: Multiblock Sparse Multivariable Analysis
Description: Several functions can be used to analyze multiblock multivariable data. If the input is a single matrix, then principal components analysis (PCA) is implemented. If the input is a list of matrices, then multiblock PCA is implemented. If the input is two matrices, for exploratory and objective variables, then partial least squares (PLS) analysis is implemented. If the input is two lists of matrices, for exploratory and objective variables, then multiblock PLS analysis is implemented. Additionally, if an extra outcome variable is specified, then a supervised version of the methods above is implemented. For each method, sparse modeling is also incorporated. Functions for selecting the number of components and regularized parameters are also provided.
Author: Atsushi Kawaguchi
Maintainer: Atsushi Kawaguchi <kawa_a24@yahoo.co.jp>
Diff between msma versions 1.1 dated 2018-05-06 and 1.2 dated 2019-06-02
DESCRIPTION | 8 MD5 | 28 R/src.r | 14 build/vignette.rds |binary inst/doc/msma.R | 49 + inst/doc/msma.Rmd | 157 ++++ inst/doc/msma.html | 1643 ++++++++++++++++++++++++++++++++++++++++++++++++--- man/cvmsma.Rd | 4 man/msma-internal.Rd | 6 man/msma.Rd | 9 man/ncompsearch.Rd | 7 man/optparasearch.Rd | 13 man/regparasearch.Rd | 6 man/summary.msma.Rd | 1 vignettes/msma.Rmd | 157 ++++ 15 files changed, 1946 insertions(+), 156 deletions(-)
Title: Treatment of Zeros, Left-Censored and Missing Values in
Compositional Data Sets
Description: Principled methods for the imputation of zeros, left-censored and missing data in
compositional data sets.
Author: Javier Palarea-Albaladejo and Josep Antoni Martin-Fernandez
Maintainer: Javier Palarea-Albaladejo <javier.palarea@bioss.ac.uk>
Diff between zCompositions versions 1.3.1 dated 2019-05-27 and 1.3.2 dated 2019-06-02
DESCRIPTION | 10 +++--- MD5 | 34 ++++++++++----------- NAMESPACE | 3 + NEWS | 11 +++++++ R/lrDA.R | 67 +++++++++++++++++++++++++++---------------- R/lrEM.R | 22 ++------------ R/multRepl.R | 4 +- man/cmultRepl.Rd | 3 + man/lcTest.Rd | 5 +++ man/lrDA.Rd | 27 ++++++++++++----- man/lrEM.Rd | 7 +++- man/lrEMplus.Rd | 3 + man/multKM.Rd | 2 - man/multLN.Rd | 3 + man/multRepl.Rd | 3 + man/multReplus.Rd | 3 + man/zCompositions-package.Rd | 4 +- man/zPatterns.Rd | 9 ++++- 18 files changed, 140 insertions(+), 80 deletions(-)
Title: Relational Query Generator for Data Manipulation at Scale
Description: A piped query generator based on Edgar F. Codd's relational
algebra, and on production experience using 'SQL' and 'dplyr' at big data
scale. The design represents an attempt to make 'SQL' more teachable by
denoting composition by a sequential pipeline notation instead of nested
queries or functions. The implementation delivers reliable high
performance data processing on large data systems such as 'Spark',
databases, and 'data.table'. Package features include: data processing trees
or pipelines as observable objects (able to report both columns
produced and columns used), optimized 'SQL' generation as an explicit
user visible table modeling step, plus explicit query reasoning and checking.
Author: John Mount [aut, cre],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between rquery versions 1.3.2 dated 2019-03-10 and 1.3.3 dated 2019-06-02
DESCRIPTION | 8 MD5 | 24 - NEWS.md | 4 R/tokenize_for_sql.R | 2 README.md | 466 ++++++++++++++++-------- build/vignette.rds |binary inst/doc/AssigmentPartitioner.html | 525 +++++++++++++++++++-------- inst/doc/Parameterized_rquery.html | 462 +++++++++++++++++------- inst/doc/PipeableSQL.html | 701 ++++++++++++++++++++++++------------- inst/doc/QueryGeneration.html | 355 ++++++++++++++---- inst/doc/rquery_intro.html | 505 ++++++++++++++++++-------- inst/doc/rquery_substitution.html | 433 ++++++++++++++++------ inst/doc/sql_quoting.html | 401 ++++++++++++++++----- 13 files changed, 2766 insertions(+), 1120 deletions(-)
Title: Design of Portfolio of Stocks to Track an Index
Description: Computation of sparse portfolios for financial index tracking, i.e., joint
selection of a subset of the assets that compose the index and computation
of their relative weights (capital allocation). The level of sparsity of the
portfolios, i.e., the number of selected assets, is controlled through a
regularization parameter. Different tracking measures are available, namely,
the empirical tracking error (ETE), downside risk (DR), Huber empirical
tracking error (HETE), and Huber downside risk (HDR). See vignette for a
detailed documentation and comparison, with several illustrative examples.
The package is based on the paper:
K. Benidis, Y. Feng, and D. P. Palomar, "Sparse Portfolios for High-Dimensional
Financial Index Tracking," IEEE Trans. on Signal Processing, vol. 66, no. 1,
pp. 155-170, Jan. 2018. <doi:10.1109/TSP.2017.2762286>.
Author: Konstantinos Benidis [aut],
Daniel P. Palomar [cre, aut]
Maintainer: Daniel P. Palomar <daniel.p.palomar@gmail.com>
Diff between sparseIndexTracking versions 0.1.0 dated 2018-05-17 and 0.1.1 dated 2019-06-02
sparseIndexTracking-0.1.0/sparseIndexTracking/inst/doc/SparseIndexTracking-vignette.R |only sparseIndexTracking-0.1.0/sparseIndexTracking/inst/doc/SparseIndexTracking-vignette.Rmd |only sparseIndexTracking-0.1.0/sparseIndexTracking/inst/doc/SparseIndexTracking-vignette.pdf |only sparseIndexTracking-0.1.0/sparseIndexTracking/man/figures/README-unnamed-chunk-6-1.png |only sparseIndexTracking-0.1.0/sparseIndexTracking/man/figures/README-unnamed-chunk-6-2.png |only sparseIndexTracking-0.1.0/sparseIndexTracking/man/figures/README-unnamed-chunk-6-3.png |only sparseIndexTracking-0.1.0/sparseIndexTracking/man/figures/README-unnamed-chunk-6-4.png |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/SparseIndexTracking-vignette.Rmd |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/SparseIndexTracking-vignette.html |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/_removed_parts.txt |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/figures |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/ieee.csl |only sparseIndexTracking-0.1.0/sparseIndexTracking/vignettes/refs.bib |only sparseIndexTracking-0.1.1/sparseIndexTracking/DESCRIPTION | 34 +- sparseIndexTracking-0.1.1/sparseIndexTracking/MD5 | 49 +- sparseIndexTracking-0.1.1/sparseIndexTracking/NEWS.md |only sparseIndexTracking-0.1.1/sparseIndexTracking/R/INDEX_2010.R | 2 sparseIndexTracking-0.1.1/sparseIndexTracking/R/spIndexTrack.R | 66 --- sparseIndexTracking-0.1.1/sparseIndexTracking/R/sparseIndexTracking-package.R | 9 sparseIndexTracking-0.1.1/sparseIndexTracking/README.md | 170 ++++++---- sparseIndexTracking-0.1.1/sparseIndexTracking/build/vignette.rds |binary sparseIndexTracking-0.1.1/sparseIndexTracking/inst/CITATION | 36 +- sparseIndexTracking-0.1.1/sparseIndexTracking/inst/doc/SparseIndexTracking-pdf.pdf |only sparseIndexTracking-0.1.1/sparseIndexTracking/inst/doc/SparseIndexTracking-pdf.pdf.asis |only sparseIndexTracking-0.1.1/sparseIndexTracking/inst/doc/SparseIndexTracking.html |only sparseIndexTracking-0.1.1/sparseIndexTracking/inst/doc/SparseIndexTracking.html.asis |only sparseIndexTracking-0.1.1/sparseIndexTracking/man/INDEX_2010.Rd | 3 sparseIndexTracking-0.1.1/sparseIndexTracking/man/figures/README-unnamed-chunk-9-1.png |only sparseIndexTracking-0.1.1/sparseIndexTracking/man/figures/README-unnamed-chunk-9-2.png |only sparseIndexTracking-0.1.1/sparseIndexTracking/man/figures/README-unnamed-chunk-9-3.png |only sparseIndexTracking-0.1.1/sparseIndexTracking/man/figures/README-unnamed-chunk-9-4.png |only sparseIndexTracking-0.1.1/sparseIndexTracking/man/spIndexTrack.Rd | 4 sparseIndexTracking-0.1.1/sparseIndexTracking/man/sparseIndexTracking-package.Rd | 9 sparseIndexTracking-0.1.1/sparseIndexTracking/vignettes/SparseIndexTracking-pdf.pdf.asis |only sparseIndexTracking-0.1.1/sparseIndexTracking/vignettes/SparseIndexTracking.html.asis |only 35 files changed, 199 insertions(+), 183 deletions(-)
More information about sparseIndexTracking at CRAN
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Title: Colour Schemes for Archaeological Data Visualization
Description: Colour schemes for archaeological data
visualization. This package provides Paul Tol's colour schemes and
several thematic palettes (geologic timescale, land cover FAO soils, etc.)
with scales for 'ggplot2'.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>),
Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>)
Maintainer: Nicolas Frerebeau
<nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between khroma versions 1.1.1 dated 2019-04-10 and 1.1.2 dated 2019-06-02
khroma-1.1.1/khroma/inst/examples/tol.R |only khroma-1.1.1/khroma/man/scale_tol.Rd |only khroma-1.1.1/khroma/tests/testthat/test-ggplot2.R |only khroma-1.1.2/khroma/DESCRIPTION | 18 - khroma-1.1.2/khroma/MD5 | 55 +-- khroma-1.1.2/khroma/NAMESPACE | 12 khroma-1.1.2/khroma/R/colour.R | 62 +--- khroma-1.1.2/khroma/R/ggplot2-science.R | 46 ++- khroma-1.1.2/khroma/R/ggplot2-tol.R | 76 +++-- khroma-1.1.2/khroma/R/ggplot2.R | 73 ---- khroma-1.1.2/khroma/R/khroma.R | 4 khroma-1.1.2/khroma/R/sysdata.rda |binary khroma-1.1.2/khroma/README.md | 63 ++-- khroma-1.1.2/khroma/inst/examples/ex-palettes.R | 8 khroma-1.1.2/khroma/inst/examples/ex-science-land.R |only khroma-1.1.2/khroma/inst/examples/ex-science-soil.R | 11 khroma-1.1.2/khroma/inst/examples/ex-tol-sequential.R | 4 khroma-1.1.2/khroma/man/colour.Rd | 16 - khroma-1.1.2/khroma/man/figures/README-tol-diverging-1.png |binary khroma-1.1.2/khroma/man/figures/README-tol-qualitative-1.png |binary khroma-1.1.2/khroma/man/figures/README-tol-sequential-1.png |binary khroma-1.1.2/khroma/man/khroma-package.Rd | 10 khroma-1.1.2/khroma/man/scale_land.Rd |only khroma-1.1.2/khroma/man/scale_soil.Rd | 14 khroma-1.1.2/khroma/man/scale_stratigraphy.Rd | 5 khroma-1.1.2/khroma/man/scale_tol_discrete.Rd | 12 khroma-1.1.2/khroma/man/scale_tol_diverging.Rd | 2 khroma-1.1.2/khroma/man/scale_tol_sequential.Rd | 16 - khroma-1.1.2/khroma/tests/testthat/test-colour.R | 32 +- khroma-1.1.2/khroma/tests/testthat/test-ggplot2-science.R | 11 khroma-1.1.2/khroma/tests/testthat/test-ggplot2-tol.R | 166 ++++++----- 31 files changed, 400 insertions(+), 316 deletions(-)
Title: A Word Cloud Geom for 'ggplot2'
Description: Provides a word cloud text geom for 'ggplot2'. Texts
are placed so that they do not overlap as in 'ggrepel'. The algorithm
used is a variation around the one of 'wordcloud2.js'.
Author: Erwan Le Pennec [aut, cre],
Kamil Slowikowski [aut]
Maintainer: Erwan Le Pennec <lepennec@gmail.com>
Diff between ggwordcloud versions 0.4.0 dated 2019-04-28 and 0.5.0 dated 2019-06-02
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/geom-text-wordcloud.R | 43 +++++++++++++++++++++++++++---------------- inst/doc/ggwordcloud.html | 4 ++-- man/geom_text_wordcloud.Rd | 4 ++-- 6 files changed, 45 insertions(+), 28 deletions(-)