Title: Tools for Standardizing Variables for Regression in R
Description: Tools which allow regression variables to be placed on similar
scales, offering computational benefits as well as easing interpretation of
regression output.
Author: Christopher D. Eager [aut, cre]
Maintainer: Christopher D. Eager <eagerstats@gmail.com>
Diff between standardize versions 0.1.0 dated 2017-04-04 and 0.1.1 dated 2017-04-18
DESCRIPTION | 8 ++-- MD5 | 20 ++++++------ NEWS.md | 8 ++++ R/standardized-class.R | 2 - R/utilities.R | 8 ++-- inst/CITATION | 12 +++---- inst/doc/using-standardize.R | 4 -- inst/doc/using-standardize.Rmd | 10 ++---- inst/doc/using-standardize.html | 61 +++++++++++++++++++++----------------- tests/testthat/test-standardize.R | 4 +- vignettes/using-standardize.Rmd | 10 ++---- 11 files changed, 79 insertions(+), 68 deletions(-)
Title: Fisheries Stock Assessment Simulation Testing with Stock
Synthesis
Description: Develops a framework for fisheries stock assessment simulation
testing with Stock Synthesis 3 (SS3) as described in Anderson et al.
(2014) <doi:10.1371/journal.pone.0092725>.
Author: Sean Anderson [aut, cre],
Cole Monnahan [aut],
Kelli Johnson [aut],
Kotaro Ono [aut],
Juan Valero [aut],
Curry Cunningham [aut],
Allan Hicks [aut],
Felipe Hurtado-Ferro [aut],
Peter Kuriyama [aut],
Roberto Licandeo [aut],
Carey McGilliard [aut],
Melissa Muradian [ctb],
Merrill Rudd [aut],
Christine Stawitz [aut],
Cody Szuwalski [aut],
Ian Taylor [aut],
Katyana Vert-pre [aut],
Athol Whitten [aut]
Maintainer: Sean Anderson <sean@seananderson.ca>
Diff between ss3sim versions 0.9.3 dated 2016-11-30 and 0.9.5 dated 2017-04-18
DESCRIPTION | 19 ++-- LICENSE | 2 MD5 | 186 ++++++++++++++++++++--------------------- NAMESPACE | 3 NEWS.md | 9 + R/change_em_binning.r | 15 ++- R/change_tv.r | 4 R/sample_agecomp.R | 21 ++-- README.md | 3 build/vignette.rds |binary inst/doc/introduction.Rmd | 6 + inst/doc/introduction.html | 106 +++++++++++------------ inst/doc/making-functions.html | 4 inst/doc/making-models.html | 4 inst/doc/modifying-models.html | 4 man/add_nulls.Rd | 1 man/bias_ss3.Rd | 7 - man/calculate_data_units.Rd | 7 - man/calculate_re.Rd | 7 - man/calculate_runtime.Rd | 1 man/case_comp.Rd | 1 man/case_deparse.Rd | 1 man/case_fishing.Rd | 1 man/case_index.Rd | 1 man/case_tv.Rd | 1 man/change_agecomp.Rd | 1 man/change_data.Rd | 8 - man/change_e.Rd | 8 - man/change_em_binning.Rd | 9 - man/change_f.Rd | 8 - man/change_fltname.Rd | 1 man/change_index.Rd | 1 man/change_lcomp.Rd | 1 man/change_lcomp_constant.Rd | 2 man/change_maturity.Rd | 8 - man/change_rec_devs.Rd | 1 man/change_retro.Rd | 8 - man/change_tail_compression.Rd | 2 man/change_tv.Rd | 8 - man/change_year.Rd | 1 man/check_data.Rd | 1 man/clean_data.Rd | 7 - man/cleanup_ss3.Rd | 1 man/copy_ss3models.Rd | 1 man/create_argfiles.Rd | 1 man/expand_scenarios.Rd | 7 - man/extract_expected_data.Rd | 1 man/facet_form.Rd | 1 man/fill_across.Rd | 7 - man/get_args.Rd | 1 man/get_bin.Rd | 1 man/get_bin_info.Rd | 1 man/get_caseargs.Rd | 1 man/get_caseval.Rd | 1 man/get_fish600_casefolder.Rd | 1 man/get_model_folder.Rd | 1 man/get_nll_components.Rd | 1 man/get_recdevs.Rd | 1 man/get_results_all.Rd | 7 - man/get_results_derived.Rd | 7 - man/get_results_scalar.Rd | 7 - man/get_results_scenario.Rd | 7 - man/get_results_timeseries.Rd | 7 - man/get_sigmar.Rd | 1 man/id_scenarios.Rd | 1 man/pastef.Rd | 1 man/plot_scalar_boxplot.Rd | 2 man/plot_scalar_points.Rd | 2 man/plot_ts_boxplot.Rd | 2 man/plot_ts_lines.Rd | 2 man/plot_ts_points.Rd | 2 man/profile_fmsy.Rd | 1 man/rename_ss3_files.Rd | 1 man/run_bias_ss3.Rd | 7 - man/run_ss3model.Rd | 7 - man/run_ss3sim.Rd | 7 - man/sample_agecomp.Rd | 31 +++--- man/sample_calcomp.Rd | 8 - man/sample_index.Rd | 8 - man/sample_lcomp.Rd | 10 +- man/sample_mlacomp.Rd | 8 - man/sample_wtatage.Rd | 8 - man/sanitize_admb_options.Rd | 1 man/scalar_dat.Rd | 1 man/setup_parallel.Rd | 1 man/ss3sim.Rd | 1 man/ss3sim_base.Rd | 7 - man/standardize_bounds.Rd | 1 man/substr_r.Rd | 1 man/ts_dat.Rd | 1 man/vbgf_func.Rd | 1 man/verify_input.Rd | 1 man/verify_plot_arguments.Rd | 2 vignettes/introduction.Rmd | 6 + 94 files changed, 328 insertions(+), 357 deletions(-)
Title: Calculating Proportionality Between Vectors of Compositional
Data
Description: The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, this approach lacks statistical validity
when applied to relative data. This includes, for example, biological count data
generated by high-throughput RNA-sequencing, chromatin immunoprecipitation (ChIP),
ChIP-sequencing, Methyl-Capture sequencing, and other techniques. This package
implements two metrics, phi [Lovell et al (2015) <DOI:10.1371/journal.pcbi.1004075>]
and rho [Erb and Notredame (2016) <DOI:10.1007/s12064-015-0220-8>], to provide
a valid alternatives to correlation for relative data. Unlike correlation, these
metrics give the same result for both relative and absolute data. Pairs that are
strongly proportional in relative space are also strongly correlated in absolute
space. Proportionality avoids the pitfall of spurious correlation.
Author: Thomas Quinn [aut, cre],
David Lovell [aut],
Ionas Erb [ctb],
Anders Bilgrau [ctb],
Greg Gloor [ctb]
Maintainer: Thomas Quinn <contacttomquinn@gmail.com>
Diff between propr versions 2.1.8 dated 2017-03-12 and 2.2.0 dated 2017-04-18
DESCRIPTION | 30 ++--- MD5 | 120 ++++++++++----------- NEWS.md | 22 +++ R/RcppExports.R | 4 R/aldex2propr.R | 19 +-- R/global.R | 40 ++++--- R/methods.R | 13 +- R/propd.R |only R/propr.R | 217 +++++++++++++++++++------------------- R/proprViz.R | 6 - build/vignette.rds |binary data/caneToad.counts.rda |binary data/datalist | 1 data/marg.abs.rda |only inst/doc/introduction.Rmd | 4 inst/doc/introduction.html | 6 - inst/doc/questions.R | 6 - inst/doc/questions.Rmd | 17 ++ inst/doc/questions.html | 16 +- inst/doc/visualize.Rmd | 6 - inst/doc/visualize.html | 8 - man/abstract.Rd | 1 man/aldex.cor.Rd | 1 man/aldex2propr.Rd | 17 +- man/caneToad.counts.Rd | 8 - man/caneToad.groups.Rd | 6 - man/dendroCheck.Rd | 1 man/differentialCheck.Rd | 1 man/ggdend.Rd | 1 man/lr2cor.Rd | 1 man/mail.Rd | 1 man/marg.abs.Rd |only man/migraph.Rd | 3 man/multiplot.Rd | 1 man/packageCheck.Rd | 1 man/plotCheck.Rd | 1 man/progress.Rd | 1 man/promptCheck.Rd | 1 man/prop2prob.Rd | 1 man/propd.Rd |only man/proportionality.Rd | 74 +++++++----- man/propr.Rd | 24 ++-- man/proprALR.Rd | 1 man/proprCLR.Rd | 1 man/proprPairs.Rd | 1 man/proprPerb.Rd | 7 - man/proprPhit.Rd | 1 man/proprSym.Rd | 1 man/proprTri.Rd | 1 man/proprVLR.Rd | 1 man/top.Rd | 1 man/visualize.Rd | 17 +- src/RcppExports.cpp | 11 - src/backend.cpp | 15 -- src/backend.h | 1 src/lr2propr.cpp | 25 ++++ tests/testthat/test-aldex2propr.R | 166 ++++++++++++++++------------- tests/testthat/test-lr2propr.R | 18 +++ tests/testthat/test-phis.R | 5 tests/testthat/test-phit.R | 12 +- vignettes/introduction.Rmd | 4 vignettes/questions.Rmd | 17 ++ vignettes/visualize.Rmd | 6 - 63 files changed, 550 insertions(+), 442 deletions(-)
Title: Bayesian Measurement Models for Analyzing Endorsement
Experiments
Description: Fit the hierarchical and non-hierarchical Bayesian measurement models proposed by Bullock, Imai, and Shapiro (2011) <DOI:10.1093/pan/mpr031> to analyze endorsement experiments. Endorsement experiments are a survey methodology for eliciting truthful responses to sensitive questions. This methodology is helpful when measuring support for socially sensitive political actors such as militant groups. The model is fitted with a Markov chain Monte Carlo algorithm and produces the output containing draws from the posterior distribution.
Author: Yuki Shiraito [aut, cre], Kosuke Imai [aut], Bryn Rosenfeld [ctb]
Maintainer: Yuki Shiraito <shiraito@princeton.edu>
Diff between endorse versions 1.5.1 dated 2017-03-19 and 1.5.2 dated 2017-04-18
endorse-1.5.1/endorse/README.md |only endorse-1.5.2/endorse/ChangeLog | 1 endorse-1.5.2/endorse/DESCRIPTION | 8 ++-- endorse-1.5.2/endorse/MD5 | 15 +++----- endorse-1.5.2/endorse/R/GeoCount.R | 65 +++++++++++++++++------------------- endorse-1.5.2/endorse/R/endorse.R | 2 - endorse-1.5.2/endorse/src/geodist.c | 38 --------------------- endorse-1.5.2/endorse/src/geodist.h | 4 +- endorse-1.5.2/endorse/src/init.c | 52 ++++++++++++++++++++++------ 9 files changed, 89 insertions(+), 96 deletions(-)
Title: Kalman Filter and Smoother for Exponential Family State Space
Models
Description: State space modelling is an efficient and flexible method for
statistical inference of a broad class of time series and other data. KFAS
includes fast functions for Kalman filtering, smoothing, forecasting, and
simulation of multivariate exponential family state space models, with
observations from Gaussian, Poisson, binomial, negative binomial, and gamma
distributions.
Author: Jouni Helske <jouni.helske@jyu.fi>
Maintainer: Jouni Helske <jouni.helske@jyu.fi>
Diff between KFAS versions 1.2.5 dated 2016-12-23 and 1.2.6 dated 2017-04-18
ChangeLog | 16 + DESCRIPTION | 8 MD5 | 54 ++--- NAMESPACE | 156 +++++++-------- R/KFAS-defunct.R | 8 R/SSModel.R | 5 R/SSMseasonal.R | 18 + R/checkModel.R | 35 ++- R/internalResids.R | 196 +++++++------------ R/ldl.R | 6 R/mvInnovations.R | 17 + R/residuals.KFS.R | 54 ++--- R/rstandard.KFS.R | 14 - inst/doc/KFAS.Rnw | 4 inst/doc/KFAS.pdf |binary man/KFAS-defunct.Rd | 5 man/KFAS.Rd | 3 man/KFS.Rd | 18 - man/SSModel.Rd | 513 +++++++++++++++++++++++++------------------------- man/artransform.Rd | 70 +++--- man/boat.Rd | 4 man/fitSSM.Rd | 266 ++++++++++++------------- man/logLik.SSModel.Rd | 244 +++++++++++------------ man/mvInnovations.Rd | 18 + man/rename_states.Rd | 64 +++--- man/residuals.KFS.Rd | 11 - man/rstandard.KFS.Rd | 7 vignettes/KFAS.Rnw | 4 28 files changed, 930 insertions(+), 888 deletions(-)
Title: 'Htmlwidget' for 'Kerry Rodden' 'd3.js' Sequence Sunburst
Description: Make interactive 'd3.js' sequence sunburst diagrams in R with the
convenience and infrastructure of an 'htmlwidget'.
Author: Mike Bostock [aut, cph] (d3.js library, http://d3js.org),
Kerry Rodden [aut, cph] (sequences library in htmlwidgets/lib,
https://gist.github.com/kerryrodden/7090426),
Kent Russell [aut, cre] (R interface),
Florian Breitwieser [ctb] (R interface)
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>
Diff between sunburstR versions 0.6.4 dated 2017-04-07 and 0.6.5 dated 2017-04-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 6 ++++++ inst/htmlwidgets/sunburst.js | 4 +++- 4 files changed, 16 insertions(+), 8 deletions(-)
Title: Interface to the Global 'Biodiversity' Information Facility
'API'
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility ('GBIF';
<http://www.gbif.org/developer/summary>). 'GBIF' is a database
of species occurrence records from sources all over the globe.
'rgbif' includes functions for searching for taxonomic names,
retrieving information on data providers, getting species occurrence
records, and getting counts of occurrence records.
Author: Scott Chamberlain [aut, cre],
Vijay Barve [ctb],
Dan Mcglinn [ctb]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rgbif versions 0.9.7 dated 2017-01-20 and 0.9.8 dated 2017-04-18
rgbif-0.9.7/rgbif/R/on_load.R |only rgbif-0.9.7/rgbif/R/read_wkt.R |only rgbif-0.9.7/rgbif/inst/js |only rgbif-0.9.7/rgbif/man/read_wkt.Rd |only rgbif-0.9.7/rgbif/tests/testthat/test-read_wkt.R |only rgbif-0.9.8/rgbif/DESCRIPTION | 29 - rgbif-0.9.8/rgbif/MD5 | 303 +++++------ rgbif-0.9.8/rgbif/NAMESPACE | 21 rgbif-0.9.8/rgbif/NEWS.md | 133 +++-- rgbif-0.9.8/rgbif/R/bbox.R | 49 - rgbif-0.9.8/rgbif/R/check_wkt.r | 65 +- rgbif-0.9.8/rgbif/R/count_facet.r | 14 rgbif-0.9.8/rgbif/R/dataset_metrics.r | 18 rgbif-0.9.8/rgbif/R/dataset_search.r | 68 +- rgbif-0.9.8/rgbif/R/dataset_suggest.r | 71 +- rgbif-0.9.8/rgbif/R/datasets.r | 52 +- rgbif-0.9.8/rgbif/R/downloads.R | 31 - rgbif-0.9.8/rgbif/R/elevation.r | 77 +-- rgbif-0.9.8/rgbif/R/enumeration.R | 15 rgbif-0.9.8/rgbif/R/gbif_citation.R | 90 ++- rgbif-0.9.8/rgbif/R/gbif_issues.R | 3 rgbif-0.9.8/rgbif/R/gbif_names.R | 4 rgbif-0.9.8/rgbif/R/gbif_photos.r | 13 rgbif-0.9.8/rgbif/R/gbifmap.r | 15 rgbif-0.9.8/rgbif/R/geometry_utils.R | 8 rgbif-0.9.8/rgbif/R/installations.r | 37 - rgbif-0.9.8/rgbif/R/many-values.R |only rgbif-0.9.8/rgbif/R/name_backbone.r | 84 +-- rgbif-0.9.8/rgbif/R/name_lookup.r | 58 +- rgbif-0.9.8/rgbif/R/name_suggest.r | 80 ++- rgbif-0.9.8/rgbif/R/name_usage.r | 70 +- rgbif-0.9.8/rgbif/R/networks.r | 34 - rgbif-0.9.8/rgbif/R/nodes.r | 87 ++- rgbif-0.9.8/rgbif/R/oai-pmh.R | 6 rgbif-0.9.8/rgbif/R/occ_count.r | 52 -- rgbif-0.9.8/rgbif/R/occ_data.R | 96 ++- rgbif-0.9.8/rgbif/R/occ_download.R | 113 ++-- rgbif-0.9.8/rgbif/R/occ_download_cancel.R | 16 rgbif-0.9.8/rgbif/R/occ_download_get.r | 40 - rgbif-0.9.8/rgbif/R/occ_download_import.R | 30 - rgbif-0.9.8/rgbif/R/occ_download_list.R | 23 rgbif-0.9.8/rgbif/R/occ_download_meta.R | 21 rgbif-0.9.8/rgbif/R/occ_facet.R | 16 rgbif-0.9.8/rgbif/R/occ_get.r | 39 - rgbif-0.9.8/rgbif/R/occ_issues.r | 30 - rgbif-0.9.8/rgbif/R/occ_metadata.r | 32 - rgbif-0.9.8/rgbif/R/occ_search.r | 122 ++-- rgbif-0.9.8/rgbif/R/occ_spellcheck.R | 24 rgbif-0.9.8/rgbif/R/organizations.r | 67 +- rgbif-0.9.8/rgbif/R/parsenames.R | 35 - rgbif-0.9.8/rgbif/R/print_gbif.R | 26 - rgbif-0.9.8/rgbif/R/rgb_country_codes.r | 8 rgbif-0.9.8/rgbif/R/rgbif-package.r | 48 + rgbif-0.9.8/rgbif/R/taxrank.R | 3 rgbif-0.9.8/rgbif/R/zzz.r | 70 +- rgbif-0.9.8/rgbif/README.md | 205 ++++---- rgbif-0.9.8/rgbif/build/vignette.rds |binary rgbif-0.9.8/rgbif/inst/assets/img/unnamed-chunk-10-1.png |only rgbif-0.9.8/rgbif/inst/doc/issues_vignette.Rmd | 261 +++++----- rgbif-0.9.8/rgbif/inst/doc/issues_vignette.html | 261 +++++----- rgbif-0.9.8/rgbif/inst/doc/rgbif_vignette.Rmd | 378 +++++++------- rgbif-0.9.8/rgbif/inst/doc/rgbif_vignette.html | 380 +++++++-------- rgbif-0.9.8/rgbif/inst/doc/taxonomic_names.Rmd | 12 rgbif-0.9.8/rgbif/inst/doc/taxonomic_names.html | 12 rgbif-0.9.8/rgbif/inst/vign/figure/gbifmap1-1.png |binary rgbif-0.9.8/rgbif/inst/vign/issues_vignette.md | 261 +++++----- rgbif-0.9.8/rgbif/inst/vign/rgbif_vignette.md | 378 +++++++------- rgbif-0.9.8/rgbif/inst/vign/taxonomic_names.Rmd | 20 rgbif-0.9.8/rgbif/inst/vign/taxonomic_names.md | 12 rgbif-0.9.8/rgbif/man/blanktheme.Rd | 1 rgbif-0.9.8/rgbif/man/check_wkt.Rd | 44 + rgbif-0.9.8/rgbif/man/count_facet.Rd | 10 rgbif-0.9.8/rgbif/man/create_gist.Rd | 1 rgbif-0.9.8/rgbif/man/dataset_metrics.Rd | 14 rgbif-0.9.8/rgbif/man/dataset_search.Rd | 96 ++- rgbif-0.9.8/rgbif/man/dataset_suggest.Rd | 90 +-- rgbif-0.9.8/rgbif/man/datasets.Rd | 29 - rgbif-0.9.8/rgbif/man/density_spplist.Rd | 3 rgbif-0.9.8/rgbif/man/densitylist.Rd | 3 rgbif-0.9.8/rgbif/man/downloads.Rd | 29 - rgbif-0.9.8/rgbif/man/elevation.Rd | 44 - rgbif-0.9.8/rgbif/man/enumeration.Rd | 14 rgbif-0.9.8/rgbif/man/gbif_bbox2wkt.Rd | 34 - rgbif-0.9.8/rgbif/man/gbif_citation.Rd | 27 - rgbif-0.9.8/rgbif/man/gbif_issues.Rd | 10 rgbif-0.9.8/rgbif/man/gbif_names.Rd | 3 rgbif-0.9.8/rgbif/man/gbif_oai.Rd | 7 rgbif-0.9.8/rgbif/man/gbif_photos.Rd | 7 rgbif-0.9.8/rgbif/man/gbifdata.Rd | 1 rgbif-0.9.8/rgbif/man/gbifmap.Rd | 31 - rgbif-0.9.8/rgbif/man/gbifmap_dens.Rd | 1 rgbif-0.9.8/rgbif/man/gbifmap_list.Rd | 1 rgbif-0.9.8/rgbif/man/get_credentials.Rd | 1 rgbif-0.9.8/rgbif/man/gist.Rd | 1 rgbif-0.9.8/rgbif/man/installations.Rd | 53 +- rgbif-0.9.8/rgbif/man/isocodes.Rd | 9 rgbif-0.9.8/rgbif/man/many-values.Rd |only rgbif-0.9.8/rgbif/man/name_backbone.Rd | 85 +-- rgbif-0.9.8/rgbif/man/name_lookup.Rd | 161 +++--- rgbif-0.9.8/rgbif/man/name_suggest.Rd | 77 +-- rgbif-0.9.8/rgbif/man/name_usage.Rd | 90 ++- rgbif-0.9.8/rgbif/man/networks.Rd | 55 +- rgbif-0.9.8/rgbif/man/nodes.Rd | 86 ++- rgbif-0.9.8/rgbif/man/occ_count.Rd | 109 ++-- rgbif-0.9.8/rgbif/man/occ_data.Rd | 314 +++--------- rgbif-0.9.8/rgbif/man/occ_download.Rd | 99 +-- rgbif-0.9.8/rgbif/man/occ_download_cancel.Rd | 7 rgbif-0.9.8/rgbif/man/occ_download_get.Rd | 20 rgbif-0.9.8/rgbif/man/occ_download_import.Rd | 14 rgbif-0.9.8/rgbif/man/occ_download_list.Rd | 7 rgbif-0.9.8/rgbif/man/occ_download_meta.Rd | 11 rgbif-0.9.8/rgbif/man/occ_facet.Rd | 17 rgbif-0.9.8/rgbif/man/occ_fields.Rd | 6 rgbif-0.9.8/rgbif/man/occ_get.Rd | 43 - rgbif-0.9.8/rgbif/man/occ_issues.Rd | 27 - rgbif-0.9.8/rgbif/man/occ_issues_lookup.Rd | 1 rgbif-0.9.8/rgbif/man/occ_metadata.Rd | 30 - rgbif-0.9.8/rgbif/man/occ_search.Rd | 294 ++--------- rgbif-0.9.8/rgbif/man/occ_spellcheck.Rd | 9 rgbif-0.9.8/rgbif/man/occurrencecount.Rd | 1 rgbif-0.9.8/rgbif/man/occurrencedensity.Rd | 3 rgbif-0.9.8/rgbif/man/occurrenceget.Rd | 1 rgbif-0.9.8/rgbif/man/occurrencelist.Rd | 1 rgbif-0.9.8/rgbif/man/occurrencelist_all.Rd | 1 rgbif-0.9.8/rgbif/man/occurrencelist_many.Rd | 1 rgbif-0.9.8/rgbif/man/organizations.Rd | 38 - rgbif-0.9.8/rgbif/man/parsenames.Rd | 25 rgbif-0.9.8/rgbif/man/pipe.Rd | 1 rgbif-0.9.8/rgbif/man/providers.Rd | 1 rgbif-0.9.8/rgbif/man/resources.Rd | 1 rgbif-0.9.8/rgbif/man/rgb_country_codes.Rd | 1 rgbif-0.9.8/rgbif/man/rgbif-defunct.Rd | 29 - rgbif-0.9.8/rgbif/man/rgbif-package.Rd | 41 + rgbif-0.9.8/rgbif/man/stylegeojson.Rd | 1 rgbif-0.9.8/rgbif/man/suggestfields.Rd | 1 rgbif-0.9.8/rgbif/man/taxoncount.Rd | 1 rgbif-0.9.8/rgbif/man/taxonget.Rd | 3 rgbif-0.9.8/rgbif/man/taxonsearch.Rd | 1 rgbif-0.9.8/rgbif/man/taxrank.Rd | 5 rgbif-0.9.8/rgbif/man/togeojson.Rd | 1 rgbif-0.9.8/rgbif/man/typestatus.Rd | 5 rgbif-0.9.8/rgbif/man/wkt_parse.Rd | 1 rgbif-0.9.8/rgbif/tests/testthat/test-check_wkt.r |only rgbif-0.9.8/rgbif/tests/testthat/test-dataset_search.r | 43 + rgbif-0.9.8/rgbif/tests/testthat/test-dataset_suggest.r | 12 rgbif-0.9.8/rgbif/tests/testthat/test-enumeration.r | 3 rgbif-0.9.8/rgbif/tests/testthat/test-name_lookup.r | 24 rgbif-0.9.8/rgbif/tests/testthat/test-name_suggest.r | 10 rgbif-0.9.8/rgbif/tests/testthat/test-name_usage.r | 20 rgbif-0.9.8/rgbif/tests/testthat/test-occ_data.R | 55 ++ rgbif-0.9.8/rgbif/tests/testthat/test-occ_facet.R | 2 rgbif-0.9.8/rgbif/tests/testthat/test-occ_issues.R | 2 rgbif-0.9.8/rgbif/tests/testthat/test-occ_search.r | 53 +- rgbif-0.9.8/rgbif/vignettes/issues_vignette.Rmd | 261 +++++----- rgbif-0.9.8/rgbif/vignettes/rgbif_vignette.Rmd | 378 +++++++------- rgbif-0.9.8/rgbif/vignettes/taxonomic_names.Rmd | 12 156 files changed, 4163 insertions(+), 3628 deletions(-)
Title: Generative Mechanism Estimation in Temporal Complex Networks
Description: Statistical methods for estimating preferential attachment and node fitness generative mechanisms in temporal complex networks are provided.
Author: Thong Pham, Paul Sheridan, Hidetoshi Shimodaira
Maintainer: Thong Pham <thongpham@thongpham.net>
Diff between PAFit versions 0.9.8.8 dated 2017-04-17 and 0.9.9.0 dated 2017-04-18
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/perform_CV_core.R | 16 ++++++++-------- inst/NEWS.Rd | 9 +++++++++ inst/doc/Tutorial.pdf |binary man/PAFit-package.Rd | 2 +- 6 files changed, 27 insertions(+), 18 deletions(-)
Title: Factors with Levels
Description: Provides an extension to factors called 'lfactor' that are similar
to factors but allow users to refer to 'lfactor' levels by either the level or
the label.
Author: Paul Bailey [aut, cre]
Maintainer: Paul Bailey <pbailey@air.org>
Diff between lfactors versions 1.0.0 dated 2016-12-16 and 1.0.1 dated 2017-04-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/lfactor.R | 6 +++--- inst/NEWS.Rd | 7 +++++++ tests/testthat/test-equals.R | 2 +- 5 files changed, 19 insertions(+), 12 deletions(-)
Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'camel style' was consequently applied to functions borrowed from contributed R packages as well.
Author: Andri Signorell. Includes R source code and/or documentation previously published by (in alphabetical order): Ken Aho, Andreas Alfons, Nanina Anderegg, Tomas Aragon, Antti Arppe, Adrian Baddeley, Kamil Barton, Ben Bolker, Frederico Caeiro, Stephane Champely, Daniel Chessel, Leanne Chhay, Clint Cummins, Michael Dewey, Harold C. Doran, Stephane Dray, Charles Dupont, Dirk Eddelbuettel, Jeff Enos, Claus Ekstrom, Martin Elff, Kamil Erguler, Richard W. Farebrother, John Fox, Romain Francois, Michael Friendly, Tal Galili, Matthias Gamer, Joseph L. Gastwirth, Yulia R. Gel, Juergen Gross, Gabor Grothendieck, Frank E. Harrell Jr, Richard Heiberger, Michael Hoehle, Christian W. Hoffmann, Torsten Hothorn, Markus Huerzeler, Wallace W. Hui, Pete Hurd, Rob J. Hyndman, Pablo J. Villacorta Iglesias, Matthias Kohl, Mikko Korpela, Max Kuhn, Detlew Labes, Friederich Leisch, Jim Lemon, Dong Li, Martin Maechler, Arni Magnusson, Daniel Malter, George Marsaglia, John Marsaglia, Alina Matei, David Meyer, Weiwen Miao, Giovanni Millo, Yongyi Min, David Mitchell, Markus Naepflin, Daniel Navarro, Henric Nilsson, Klaus Nordhausen, Derek Ogle, Hong Ooi, Nick Parsons, Sandrine Pavoine, Tony Plate, Roland Rapold, William Revelle, Tyler Rinker, Brian D. Ripley, Caroline Rodriguez, Nathan Russell, Nick Sabbe, Venkatraman E. Seshan, Greg Snow, Michael Smithson, Werner A. Stahel, Mark Stevenson, Matthias Templ, Terry Therneau, Yves Tille, Adrian Trapletti, Kevin Ushey, Jeremy VanDerWal, Bill Venables, John Verzani, Gregory R. Warnes, Stefan Wellek, Hadley Wickham, Rand R. Wilcox, Peter Wolf, Daniel Wollschlaeger, Thomas Yee, Achim Zeileis
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.19 dated 2017-02-11 and 0.99.20 dated 2017-04-18
DescTools-0.99.19/DescTools/man/GetNewPP.Rd |only DescTools-0.99.19/DescTools/man/median.factor.Rd |only DescTools-0.99.20/DescTools/DESCRIPTION | 15 DescTools-0.99.20/DescTools/MD5 | 97 +- DescTools-0.99.20/DescTools/NAMESPACE | 74 +- DescTools-0.99.20/DescTools/NEWS | 30 DescTools-0.99.20/DescTools/R/Desc.R | 37 - DescTools-0.99.20/DescTools/R/DescTools.r | 392 +++++++----- DescTools-0.99.20/DescTools/R/Dialogs.r |only DescTools-0.99.20/DescTools/R/LinMod.R | 6 DescTools-0.99.20/DescTools/R/StatsAndCIs.r | 76 +- DescTools-0.99.20/DescTools/R/Tables.r | 4 DescTools-0.99.20/DescTools/R/Tests.r | 260 +++++++ DescTools-0.99.20/DescTools/build/vignette.rds |binary DescTools-0.99.20/DescTools/data/d.units.rda |binary DescTools-0.99.20/DescTools/inst/doc/Combinatorics.pdf |binary DescTools-0.99.20/DescTools/inst/doc/DescToolsCompanion.pdf |binary DescTools-0.99.20/DescTools/inst/doc/TablesInR.pdf |binary DescTools-0.99.20/DescTools/man/Abstract.Rd | 4 DescTools-0.99.20/DescTools/man/AddMonthsYM.Rd | 2 DescTools-0.99.20/DescTools/man/BarText.Rd | 16 DescTools-0.99.20/DescTools/man/BarnardTest.Rd | 2 DescTools-0.99.20/DescTools/man/BartelsRankTest.Rd | 18 DescTools-0.99.20/DescTools/man/BinTree.Rd | 8 DescTools-0.99.20/DescTools/man/BinomCI.Rd | 8 DescTools-0.99.20/DescTools/man/ConoverTest.Rd |only DescTools-0.99.20/DescTools/man/DescTools-package.Rd | 7 DescTools-0.99.20/DescTools/man/Format.Rd | 9 DescTools-0.99.20/DescTools/man/IdentifyA.Rd | 2 DescTools-0.99.20/DescTools/man/InsRow.Rd |only DescTools-0.99.20/DescTools/man/JarqueBeraTest.Rd | 2 DescTools-0.99.20/DescTools/man/LOCF.Rd | 21 DescTools-0.99.20/DescTools/man/Large.Rd | 5 DescTools-0.99.20/DescTools/man/Lookup.Rd | 4 DescTools-0.99.20/DescTools/man/Mean.Rd | 2 DescTools-0.99.20/DescTools/man/Median.Rd | 16 DescTools-0.99.20/DescTools/man/MultinomCI.Rd | 34 - DescTools-0.99.20/DescTools/man/NemenyiTest.Rd | 15 DescTools-0.99.20/DescTools/man/PDFManual.Rd | 4 DescTools-0.99.20/DescTools/man/PercTable.Rd | 4 DescTools-0.99.20/DescTools/man/PlotDev.Rd | 4 DescTools-0.99.20/DescTools/man/PlotFdist.Rd | 19 DescTools-0.99.20/DescTools/man/PlotQQ.Rd | 14 DescTools-0.99.20/DescTools/man/PpPlot.Rd | 56 + DescTools-0.99.20/DescTools/man/SelectVarDlg.Rd | 12 DescTools-0.99.20/DescTools/man/TextContrastColor.Rd | 32 DescTools-0.99.20/DescTools/man/TitleRect.Rd | 17 DescTools-0.99.20/DescTools/man/VecRot.Rd | 15 DescTools-0.99.20/DescTools/man/VonNeumannTest.Rd |only DescTools-0.99.20/DescTools/man/XLGetRange.Rd | 3 DescTools-0.99.20/DescTools/src/init.c |only DescTools-0.99.20/DescTools/src/robustbase.h | 15 DescTools-0.99.20/DescTools/src/wgt_himed.c | 7 53 files changed, 915 insertions(+), 453 deletions(-)
Title: Data Checking
Description: Checks column names, classes, values, keys and joins in data frames.
Also checks length, class and values of vectors and scalars.
Returns an informative error message if user-defined conditions are not met.
Author: Joe Thorley [aut, cre]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between datacheckr versions 0.1.2 dated 2016-11-06 and 0.2.0 dated 2017-04-18
datacheckr-0.1.2/datacheckr/R/check-data.R |only datacheckr-0.1.2/datacheckr/R/package.R |only datacheckr-0.1.2/datacheckr/build |only datacheckr-0.1.2/datacheckr/inst |only datacheckr-0.1.2/datacheckr/man/datacheckr.Rd |only datacheckr-0.1.2/datacheckr/vignettes |only datacheckr-0.2.0/datacheckr/DESCRIPTION | 22 - datacheckr-0.2.0/datacheckr/LICENSE | 4 datacheckr-0.2.0/datacheckr/MD5 | 91 ++--- datacheckr-0.2.0/datacheckr/NAMESPACE | 3 datacheckr-0.2.0/datacheckr/NEWS.md | 6 datacheckr-0.2.0/datacheckr/R/check-cols.R | 1 datacheckr-0.2.0/datacheckr/R/check-data-frame.R | 1 datacheckr-0.2.0/datacheckr/R/check-data1.R |only datacheckr-0.2.0/datacheckr/R/check-data2.R | 1 datacheckr-0.2.0/datacheckr/R/check-data3.R | 3 datacheckr-0.2.0/datacheckr/R/check-join.R | 23 + datacheckr-0.2.0/datacheckr/R/check-key.R | 1 datacheckr-0.2.0/datacheckr/R/check-rows.R | 1 datacheckr-0.2.0/datacheckr/R/check-scalar.R | 8 datacheckr-0.2.0/datacheckr/R/check-unique.R | 1 datacheckr-0.2.0/datacheckr/R/check-values.R | 1 datacheckr-0.2.0/datacheckr/R/check-vector.R | 1 datacheckr-0.2.0/datacheckr/R/utils.R | 3 datacheckr-0.2.0/datacheckr/README.md | 307 +++++++++++++++----- datacheckr-0.2.0/datacheckr/man/check_cols.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_count.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_data1.Rd | 7 datacheckr-0.2.0/datacheckr/man/check_data2.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_data3.Rd | 6 datacheckr-0.2.0/datacheckr/man/check_data_frame.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_date.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_flag.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_int.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_join.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_key.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_number.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_rows.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_scalar.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_string.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_time.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_unique.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_values.Rd | 4 datacheckr-0.2.0/datacheckr/man/check_vector.Rd | 4 datacheckr-0.2.0/datacheckr/man/max_integer.Rd | 4 datacheckr-0.2.0/datacheckr/man/max_nrow.Rd | 4 datacheckr-0.2.0/datacheckr/man/min_integer.Rd | 4 47 files changed, 319 insertions(+), 252 deletions(-)
Title: 'd3.js' Utilities for R
Description: Helper functions for using 'd3.js' in R.
Author: Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib,
http://d3js.org),
Kent Russell [aut, cre] (R interface)
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>
Diff between d3r versions 0.6.2 dated 2017-03-02 and 0.6.3 dated 2017-04-18
DESCRIPTION | 10 +++++----- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 7 +++++++ R/dependencies.R | 4 ++-- inst/examples/example_d3_v8.R | 41 +++++++++++++++++++++++++++++++++++++++++ inst/www/d3/v4/API.md | 1 + inst/www/d3/v4/LICENSE | 2 +- inst/www/d3/v4/dist/d3.min.js | 16 ++++++++-------- man/change_to_name.Rd | 1 - man/d3_dep_v3.Rd | 1 - man/d3_dep_v4.Rd | 1 - man/d3_igraph.Rd | 1 - man/d3_json.Rd | 1 - man/d3_nest.Rd | 1 - man/d3_party.Rd | 1 - man/d3_v8.Rd | 42 +++++++++++++++++++++++++++++++++++++++++- man/promote_na.Rd | 1 - man/promote_na_one.Rd | 1 - 18 files changed, 123 insertions(+), 43 deletions(-)
Title: Alternative Factor Coding Matrices for Linear Model Formulae
Description: A collection of coding functions as alternatives to the standard
functions in the stats package, which have names starting with 'contr.'. Their
main advantage is that they provide a consistent method for defining marginal
effects in factorial models. In a simple one-way ANOVA model the
intercept term is always the simple average of the class means.
Author: Bill Venables
Maintainer: Bill Venables <Bill.Venables@gmail.com>
Diff between codingMatrices versions 0.2.2 dated 2017-02-23 and 0.3.0 dated 2017-04-18
codingMatrices-0.2.2/codingMatrices/vignettes/codingMatrices-concordance.tex |only codingMatrices-0.3.0/codingMatrices/DESCRIPTION | 8 +- codingMatrices-0.3.0/codingMatrices/MD5 | 14 ++--- codingMatrices-0.3.0/codingMatrices/build/vignette.rds |binary codingMatrices-0.3.0/codingMatrices/inst/doc/codingMatrices.R | 28 +++++----- codingMatrices-0.3.0/codingMatrices/inst/doc/codingMatrices.Rnw | 28 +++++----- codingMatrices-0.3.0/codingMatrices/inst/doc/codingMatrices.pdf |binary codingMatrices-0.3.0/codingMatrices/vignettes/Chicago.bst |only codingMatrices-0.3.0/codingMatrices/vignettes/codingMatrices.Rnw | 28 +++++----- 9 files changed, 53 insertions(+), 53 deletions(-)
More information about codingMatrices at CRAN
Permanent link
Title: Unconditional Quantile Regression
Description: Estimation and Inference for Unconditional Quantile Regression for cross-sectional and panel data (see Firpo et al. (2009) <DOI:10.3982/ECTA6822>).
Author: Stefano Nembrini <stefanonembrini@gmail.com>
Maintainer: Stefano Nembrini <stefanonembrini@gmail.com>
Diff between uqr versions 0.2.0 dated 2016-11-19 and 1.0.0 dated 2017-04-18
DESCRIPTION | 12 ++++++------ MD5 | 18 +++++++++--------- R/urq.R | 2 +- R/urqCI.R | 52 +++++++++++++++++++++++++++++++++++++++++++--------- R/urqb.R | 4 ++-- man/Engel-Data.Rd | 1 - man/Trust-Data.Rd | 1 - man/urq.Rd | 3 +-- man/urqCI.Rd | 15 +++++++++------ man/urqb.Rd | 1 - 10 files changed, 71 insertions(+), 38 deletions(-)
Title: Web Application Framework for R
Description: Makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive pre-built widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: Winston Chang [aut, cre],
Joe Cheng [aut],
JJ Allaire [aut],
Yihui Xie [aut],
Jonathan McPherson [aut],
RStudio [cph],
jQuery Foundation [cph] (jQuery library and jQuery UI library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/www/shared/jquery-AUTHORS.txt),
jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in
inst/www/shared/jqueryui/AUTHORS.txt),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library),
Alexander Farkas [ctb, cph] (html5shiv library),
Scott Jehl [ctb, cph] (Respond.js library),
Stefan Petre [ctb, cph] (Bootstrap-datepicker library),
Andrew Rowls [ctb, cph] (Bootstrap-datepicker library),
Dave Gandy [ctb, cph] (Font-Awesome font),
Brian Reavis [ctb, cph] (selectize.js library),
Kristopher Michael Kowal [ctb, cph] (es5-shim library),
es5-shim contributors [ctb, cph] (es5-shim library),
Denis Ineshin [ctb, cph] (ion.rangeSlider library),
Sami Samhuri [ctb, cph] (Javascript strftime library),
SpryMedia Limited [ctb, cph] (DataTables library),
John Fraser [ctb, cph] (showdown.js library),
John Gruber [ctb, cph] (showdown.js library),
Ivan Sagalaev [ctb, cph] (highlight.js library),
R Core Team [ctb, cph] (tar implementation from R)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shiny versions 1.0.1 dated 2017-04-01 and 1.0.2 dated 2017-04-18
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- NEWS.md | 22 +++++++++++++++++++++- R/input-checkboxgroup.R | 5 +++++ R/reactives.R | 2 +- R/shinyui.R | 2 +- R/showcase.R | 3 ++- README.md | 2 +- inst/www/shared/shiny-showcase.css | 1 + inst/www/shared/shiny.js | 1 + inst/www/shared/shiny.js.map | 2 +- inst/www/shared/shiny.min.js | 4 ++-- inst/www/shared/shiny.min.js.map | 2 +- man/reactiveFileReader.Rd | 2 +- tests/testthat/test-bootstrap.r | 18 ++++++++++++++++++ 15 files changed, 73 insertions(+), 27 deletions(-)
More information about ReinforcementLearning at CRAN
Permanent link
More information about RcppQuantuccia at CRAN
Permanent link
Title: Working with Frequency Tables
Description: The frequency of a particular data value is the number of times it
occurs. A frequency table is a table of values with their corresponding
frequencies. Frequency weights are integer numbers that indicate how many
cases each case represents. This package provides some functions to work
with such type of collected data.
Author: Emilio Torres-Manzanera
Maintainer: Emilio Torres-Manzanera <torres@uniovi.es>
Diff between freqweights versions 1.0.2 dated 2015-06-22 and 1.0.3 dated 2017-04-18
freqweights-1.0.2/freqweights/R/preprocesshflights.R |only freqweights-1.0.2/freqweights/man/preprocesshflights.Rd |only freqweights-1.0.3/freqweights/DESCRIPTION | 9 +-- freqweights-1.0.3/freqweights/MD5 | 40 +++++++-------- freqweights-1.0.3/freqweights/NAMESPACE | 11 +++- freqweights-1.0.3/freqweights/NEWS | 10 +++ freqweights-1.0.3/freqweights/R/biglmfreq.R | 5 + freqweights-1.0.3/freqweights/R/evaldp.R | 39 ++++++++++++++ freqweights-1.0.3/freqweights/R/lmfreq.R | 3 - freqweights-1.0.3/freqweights/R/meanfreq.R | 5 + freqweights-1.0.3/freqweights/R/tablefreq.R | 7 -- freqweights-1.0.3/freqweights/man/biglmfreq.Rd | 2 freqweights-1.0.3/freqweights/man/clarachunk.Rd | 2 freqweights-1.0.3/freqweights/man/evaldp.Rd | 2 freqweights-1.0.3/freqweights/man/freqweights-package.Rd | 2 freqweights-1.0.3/freqweights/man/hclustvfreq.Rd | 2 freqweights-1.0.3/freqweights/man/lmfreq.Rd | 7 +- freqweights-1.0.3/freqweights/man/make.readchunk.Rd | 7 +- freqweights-1.0.3/freqweights/man/pcafreq.Rd | 2 freqweights-1.0.3/freqweights/man/quickround.Rd | 2 freqweights-1.0.3/freqweights/man/statsfreq.Rd | 6 +- freqweights-1.0.3/freqweights/man/tablefreq.Rd | 6 -- 22 files changed, 111 insertions(+), 58 deletions(-)
Title: Segregation Measures for Multitype Spatial Point Patterns
Description: Summaries for measuring segregation/mingling in multitype spatial
point patterns with graph based neighbourhood description. Included indices:
Mingling, Shannon, Simpson (also the non-spatial) Included functionals:
Mingling, Shannon, Simpson, ISAR, MCI. Included neighbourhoods: Geometric, k-
nearest neighbours, Gabriel, Delaunay. Dixon's test.
Author: Tuomas Rajala
Maintainer: Tuomas Rajala <tuomas.rajala@iki.fi>
Diff between spatialsegregation versions 2.43 dated 2016-10-11 and 2.44 dated 2017-04-18
DESCRIPTION | 10 +++++----- MD5 | 33 +++++++++++++++++---------------- R/fun.R | 4 ++-- man/biomassF.Rd | 1 - man/dixon.Rd | 1 - man/isarF.Rd | 4 ++-- man/mciF.Rd | 1 - man/minglingF.Rd | 4 ++-- man/print.segtest.Rd | 1 - man/segregationFun.Rd | 5 +++-- man/sg.modify.pp.Rd | 1 - man/shannonF.Rd | 4 ++-- man/simpsonF.Rd | 5 +++-- man/spatialsegregation-exposurepps.Rd | 1 - man/spatialsegregation-helpers.Rd | 1 - man/spatialsegregation-package.Rd | 1 - src/Fun.cpp | 2 +- src/init.c |only 18 files changed, 37 insertions(+), 42 deletions(-)
More information about spatialsegregation at CRAN
Permanent link
Title: Spatial Graph Based Clustering Summaries for Spatial Point
Patterns
Description: Graph based clustering summaries for spatial point patterns.
Includes Connectivity function, Cumulative connectivity function and clustering
function, plus the triangle/triplet intensity function T.
Author: Tuomas Rajala
Maintainer: Tuomas Rajala <tuomas.rajala@iki.fi>
Diff between SGCS versions 2.5 dated 2016-10-11 and 2.6 dated 2017-04-18
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- NAMESPACE | 2 +- R/pairwise-distances.R | 2 +- src/init.c |only 5 files changed, 10 insertions(+), 9 deletions(-)
Title: MCMC Sampling of Gene Genealogies Conditional on Genetic Data
Description: Sample ancestral trees conditional on phased or unphased SNP genotype data. The actual tree sampling is done using a C++ program that is launched within R. The package also contains functions for specifying the tree-sampling settings (pre-processing) and for storing and manipulating the sampled trees (post-processing). More information about 'sampletrees' can be found at <http://stat.sfu.ca/statgen/research/sampletrees.html>.
Author: Kelly Burkett, Brad McNeney, Jinko Graham, Jean-Francois Lefebvre
Maintainer: Jean-Francois Lefebvre <jflefebvre27@gmail.com>
Diff between Rsampletrees versions 0.1 dated 2015-02-02 and 1.0 dated 2017-04-18
Rsampletrees-0.1/Rsampletrees/R/haplo_initialization.r |only Rsampletrees-0.1/Rsampletrees/R/post_sampletrees.r |only Rsampletrees-0.1/Rsampletrees/R/pre_sampletrees.r |only Rsampletrees-0.1/Rsampletrees/inst/Examples |only Rsampletrees-0.1/Rsampletrees/inst/Output |only Rsampletrees-0.1/Rsampletrees/man/setWeights.Rd |only Rsampletrees-0.1/Rsampletrees/man/summary.treeoutput.Rd |only Rsampletrees-0.1/Rsampletrees/man/treeapply.Rd |only Rsampletrees-0.1/Rsampletrees/man/writeArgs.Rd |only Rsampletrees-0.1/Rsampletrees/man/writeTreeoutput.Rd |only Rsampletrees-1.0/Rsampletrees/DESCRIPTION | 23 +- Rsampletrees-1.0/Rsampletrees/MD5 | 145 +++++++------ Rsampletrees-1.0/Rsampletrees/NAMESPACE | 18 - Rsampletrees-1.0/Rsampletrees/R/haplo_initialization.R |only Rsampletrees-1.0/Rsampletrees/R/post_sampletrees.R |only Rsampletrees-1.0/Rsampletrees/R/pre_sampletrees.R |only Rsampletrees-1.0/Rsampletrees/inst/extdata |only Rsampletrees-1.0/Rsampletrees/man/Rsampletrees-package.Rd | 19 - Rsampletrees-1.0/Rsampletrees/man/addTreeStats.Rd | 38 +-- Rsampletrees-1.0/Rsampletrees/man/addTrees.Rd | 24 +- Rsampletrees-1.0/Rsampletrees/man/changeArgs.treeoutput.Rd | 14 - Rsampletrees-1.0/Rsampletrees/man/checkArgs.Rd | 13 - Rsampletrees-1.0/Rsampletrees/man/estimateHap.Rd | 14 - Rsampletrees-1.0/Rsampletrees/man/example_g_pars.Rd |only Rsampletrees-1.0/Rsampletrees/man/launch.sampletrees.Rd |only Rsampletrees-1.0/Rsampletrees/man/merge.treeoutput.Rd | 23 +- Rsampletrees-1.0/Rsampletrees/man/newArgs.Rd | 4 Rsampletrees-1.0/Rsampletrees/man/pkg-internal.Rd |only Rsampletrees-1.0/Rsampletrees/man/plot.treeoutput.Rd | 15 - Rsampletrees-1.0/Rsampletrees/man/print.pars.Rd | 2 Rsampletrees-1.0/Rsampletrees/man/print.treeoutput.Rd | 15 - Rsampletrees-1.0/Rsampletrees/man/readArgs.Rd | 9 Rsampletrees-1.0/Rsampletrees/man/readOutput.Rd | 14 - Rsampletrees-1.0/Rsampletrees/man/readTrees.Rd | 9 Rsampletrees-1.0/Rsampletrees/man/restartRun.Rd | 13 - Rsampletrees-1.0/Rsampletrees/src |only 36 files changed, 253 insertions(+), 159 deletions(-)
Title: Analise multivariada (brazilian portuguese)
Description: Pacote para analise multivariada, que possui funcoes que executam analise de correspondencia simples (CA) e multipla (MCA), analise de componentes principais (PCA), analise de correlacao canonica (CCA), analise fatorial (FA), escalonamento multidimensional (MDS), analise de cluster hierarquico e nao hierarquico, regressao linear, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos. Tambem possui outras funcoes uteis para a analise multivariada.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar.pt versions 1.9.7 dated 2017-03-02 and 1.9.8 dated 2017-04-18
DESCRIPTION | 8 ++--- MD5 | 38 +++++++++++------------ R/Biplot.R | 4 +- R/CA.R | 5 +-- R/Cluster.R | 8 ++--- R/FA.R | 2 + R/IM.R | 2 - R/MDS.R | 4 +- R/MFA.R | 78 ++++++++++++++++++++++++------------------------- R/NormData.R | 10 +++--- R/Plot.CA.R | 2 - R/Plot.CCA.R | 4 +- R/Plot.FA.R | 2 - R/Plot.MFA.R | 10 +++--- R/Plot.PCA.R | 2 - R/Plot.Regressao.R | 8 ++--- R/Regressao.R | 4 -- man/Data_Cafes.Rd | 3 + man/Data_Individuos.Rd | 5 +-- man/MVar.pt-package.Rd | 4 +- 20 files changed, 105 insertions(+), 98 deletions(-)
Title: Global Triangular and Penta-Hexagonal Grids Based on Tessellated
Icosahedra
Description: Employs triangular tessellation to refine icosahedra
defined in 3d space. The procedures can be set to provide a grid with a
custom resolution. Both the primary triangular and their inverted penta-
hexagonal grids are available for implementation. Additional functions
are provided to position points (latitude-longitude data) on the grids,
to allow 2D and 3D plotting, use raster data and shapefiles.
Author: Adam T. Kocsis [aut, cre]
Maintainer: Adam T. Kocsis <adam.kocsis@outlook.com>
Diff between icosa versions 0.9.80 dated 2017-04-17 and 0.9.81 dated 2017-04-18
icosa-0.9.80/icosa/inst/doc/icosaIntro.R |only icosa-0.9.80/icosa/inst/doc/icosaIntro.Rmd |only icosa-0.9.80/icosa/inst/doc/icosaIntro.pdf |only icosa-0.9.80/icosa/vignettes/icosaIntro.Rmd |only icosa-0.9.81/icosa/DESCRIPTION | 6 - icosa-0.9.81/icosa/MD5 | 26 +++--- icosa-0.9.81/icosa/NEWS.md | 16 ++-- icosa-0.9.81/icosa/R/application.R | 6 - icosa-0.9.81/icosa/R/grids.r | 5 - icosa-0.9.81/icosa/R/layers.R | 2 icosa-0.9.81/icosa/R/sp2d.r | 69 ++++++++++-------- icosa-0.9.81/icosa/build/vignette.rds |binary icosa-0.9.81/icosa/inst/doc/icosaIntroShort.R |only icosa-0.9.81/icosa/inst/doc/icosaIntroShort.Rmd |only icosa-0.9.81/icosa/inst/doc/icosaIntroShort.pdf |only icosa-0.9.81/icosa/src/PointInTetra.cpp | 8 +- icosa-0.9.81/icosa/src/RccpSource_.cpp | 86 +++++++++++------------ icosa-0.9.81/icosa/vignettes/icosaIntroShort.Rmd |only 18 files changed, 121 insertions(+), 103 deletions(-)
Title: Patterns and Statistical Differences Between Two Groups of
Strings
Description: Methods include converting series of event names to strings, finding common patterns
in a group of strings, discovering "unique" patterns when comparing two groups of strings as well
as the number and starting position of each pattern in each string, obtaining transition matrix,
computing transition entropy, statistically comparing the difference between two groups of strings,
and clustering string groups.Event names can be any action names or labels such as events in log files
or areas of interest (AOIs) in eye tracking research.
Author: Hui Tang, Norbert J. Pienta
Maintainer: Hui (Tom) Tang <htang2013@gmail.com>
Diff between GrpString versions 0.2.1 dated 2017-03-15 and 0.3.1 dated 2017-04-18
DESCRIPTION | 23 ++++++++++++----------- MD5 | 45 ++++++++++++++++++++++++++++----------------- NAMESPACE | 5 +++++ NEWS.md | 24 +++++++++++++++++++++++- R/DupRm.R |only R/StrHclust.R |only R/StrKclust.R |only R/TransEntro.R |only R/TransEntropy.R |only R/TransInfo.R | 11 +++++++++-- R/TransMx.R | 45 ++++++++++++++++++++++++--------------------- README.md |only man/CommonPatt.Rd | 4 ++-- man/CommonPattern.Rd | 6 +++--- man/DupRm.Rd |only man/EveStr.Rd | 2 +- man/EveString.Rd | 10 +++++----- man/GrpString-package.Rd | 23 ++++++++++++----------- man/HistDif.Rd | 8 ++++---- man/PatternInfo.Rd | 6 +++--- man/StrDif.Rd | 12 ++++++------ man/StrHclust.Rd |only man/StrKclust.Rd |only man/TransEntro.Rd |only man/TransEntropy.Rd |only man/TransInfo.Rd | 5 ++++- man/TransMx.Rd | 11 +++++++++-- man/UniPatterns.Rd | 4 +++- man/event1s.df.Rd | 8 +++++--- 29 files changed, 158 insertions(+), 94 deletions(-)
Title: PDF Tools Based on Poppler
Description: PDF tools based on the Poppler PDF rendering library.
See <http://poppler.freedesktop.org/> for more information on Poppler.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between Rpoppler versions 0.0-3 dated 2017-01-22 and 0.1-0 dated 2017-04-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/Rpoppler.c | 45 +++++++++++++++++++++++++-------------------- 3 files changed, 30 insertions(+), 25 deletions(-)
Title: Nonparametric Preprocessing for Parametric Casual Inference
Description: Selects matched samples of the original treated and
control groups with similar covariate distributions -- can be
used to match exactly on covariates, to match on propensity
scores, or perform a variety of other matching procedures. The
package also implements a series of recommendations offered in
Ho, Imai, King, and Stuart (2007) <DOI:10.1093/pan/mpl013>.
Author: Daniel Ho [aut],
Kosuke Imai [aut, cre],
Gary King [aut],
Elizabeth Stuart [aut],
Alex Whitworth [ctb]
Maintainer: Kosuke Imai <kimai@Princeton.Edu>
Diff between MatchIt versions 2.4-22 dated 2017-02-22 and 3.0.1 dated 2017-04-18
MatchIt-2.4-22/MatchIt/R/plot.matchit.R |only MatchIt-2.4-22/MatchIt/R/plot.matchit.subclass.R |only MatchIt-2.4-22/MatchIt/R/plot.summary.matchit.R |only MatchIt-2.4-22/MatchIt/R/print.matchit.R |only MatchIt-2.4-22/MatchIt/R/print.matchit.exact.R |only MatchIt-2.4-22/MatchIt/R/print.matchit.full.R |only MatchIt-2.4-22/MatchIt/R/print.matchit.subclass.R |only MatchIt-2.4-22/MatchIt/R/print.summary.matchit.R |only MatchIt-2.4-22/MatchIt/R/print.summary.matchit.exact.R |only MatchIt-2.4-22/MatchIt/R/print.summary.matchit.subclass.R |only MatchIt-2.4-22/MatchIt/R/summary.matchit.R |only MatchIt-2.4-22/MatchIt/R/summary.matchit.exact.R |only MatchIt-2.4-22/MatchIt/R/summary.matchit.full.R |only MatchIt-2.4-22/MatchIt/R/summary.matchit.subclass.R |only MatchIt-3.0.1/MatchIt/DESCRIPTION | 42 +++++++----- MatchIt-3.0.1/MatchIt/MD5 | 36 ++++------ MatchIt-3.0.1/MatchIt/NAMESPACE | 46 +++++++------- MatchIt-3.0.1/MatchIt/R/class_functions.R |only MatchIt-3.0.1/MatchIt/R/help.matchit.R | 1 MatchIt-3.0.1/MatchIt/R/match.data.R | 1 MatchIt-3.0.1/MatchIt/R/matchit.R | 1 MatchIt-3.0.1/MatchIt/R/matchit2full.R | 3 MatchIt-3.0.1/MatchIt/R/matchit2genetic.R | 3 MatchIt-3.0.1/MatchIt/R/user.prompt.R | 1 MatchIt-3.0.1/MatchIt/README.md |only MatchIt-3.0.1/MatchIt/man/get_matches.Rd |only MatchIt-3.0.1/MatchIt/man/is.matchit.Rd |only MatchIt-3.0.1/MatchIt/tests |only 28 files changed, 70 insertions(+), 64 deletions(-)
Title: Tools for General Maximum Likelihood Estimation
Description: Methods and functions for fitting maximum likelihood models in R.
This package modifies and extends the 'mle' classes in the 'stats4' package.
Author: Ben Bolker <bolker@mcmaster.ca>, R Development Core Team
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between bbmle versions 1.0.18 dated 2016-02-11 and 1.0.19 dated 2017-04-18
bbmle-1.0.18/bbmle/NEWS |only bbmle-1.0.18/bbmle/inst/unitTests |only bbmle-1.0.18/bbmle/tests/Makefile |only bbmle-1.0.18/bbmle/tests/doRUnit.R |only bbmle-1.0.18/bbmle/vignettes/chicago.bst |only bbmle-1.0.18/bbmle/vignettes/clean |only bbmle-1.0.19/bbmle/DESCRIPTION | 6 bbmle-1.0.19/bbmle/MD5 | 62 -- bbmle-1.0.19/bbmle/NAMESPACE | 7 bbmle-1.0.19/bbmle/R/IC.R | 8 bbmle-1.0.19/bbmle/R/mle.R | 49 + bbmle-1.0.19/bbmle/R/mle2-methods.R | 6 bbmle-1.0.19/bbmle/R/profile.R | 568 +++++++++---------- bbmle-1.0.19/bbmle/build/vignette.rds |binary bbmle-1.0.19/bbmle/inst/NEWS.Rd | 16 bbmle-1.0.19/bbmle/inst/doc/mle2.R | 13 bbmle-1.0.19/bbmle/inst/doc/mle2.Rnw | 19 bbmle-1.0.19/bbmle/inst/doc/mle2.pdf |binary bbmle-1.0.19/bbmle/inst/doc/quasi.Rnw | 17 bbmle-1.0.19/bbmle/inst/doc/quasi.pdf |binary bbmle-1.0.19/bbmle/man/as.data.frame.profile.mle2.Rd | 7 bbmle-1.0.19/bbmle/man/mle-class.Rd | 7 bbmle-1.0.19/bbmle/man/mle2.Rd | 4 bbmle-1.0.19/bbmle/man/profile-methods.Rd | 16 bbmle-1.0.19/bbmle/man/profile.mle-class.Rd | 2 bbmle-1.0.19/bbmle/tests/ICtab.R | 6 bbmle-1.0.19/bbmle/tests/ICtab.Rout.save | 16 bbmle-1.0.19/bbmle/tests/boundstest.R |only bbmle-1.0.19/bbmle/tests/grtest1.R | 11 bbmle-1.0.19/bbmle/tests/grtest1.Rout.save | 44 - bbmle-1.0.19/bbmle/tests/prof_newmin.R |only bbmle-1.0.19/bbmle/tests/prof_spec.R |only bbmle-1.0.19/bbmle/tests/testenv.R | 16 bbmle-1.0.19/bbmle/tests/testenv.Rout.save | 32 - bbmle-1.0.19/bbmle/vignettes/mle2.Rnw | 19 bbmle-1.0.19/bbmle/vignettes/quasi.Rnw | 17 36 files changed, 539 insertions(+), 429 deletions(-)
Title: Package for Plotting Categorical Longitudinal and Time-Series
Data
Description: Methods for plotting categorical longitudinal and time-series data by mapping individuals to the vertical space (each horizontal line represents a participant), time (or repeated measures) to the horizontal space, categorical (or discrete) states as facets using color or shade, and events to points using plotting characters. Sorting individuals in the vertical space and (or) stratifying them by groups can reveal patterns in the changes over time.
Author: Stephen Tueller. Funded by the National Institute on Drug Abuse (NIDA) Award number 1R03DA030850, the National Institute on Alcohol Abuse and Alcoholism (NIAAA) Award Number R03 AA019775, and the National Institute of Justice Award Number 2011-RY-BX-0003.
Maintainer: Stephen Tueller <stueller@rti.org>
Diff between longCatEDA versions 0.30 dated 2017-01-21 and 0.31 dated 2017-04-18
longCatEDA-0.30/longCatEDA/R/longCatEDA_0.30.r |only longCatEDA-0.31/longCatEDA/DESCRIPTION | 8 ++++---- longCatEDA-0.31/longCatEDA/MD5 | 10 +++++----- longCatEDA-0.31/longCatEDA/NEWS | 3 +++ longCatEDA-0.31/longCatEDA/R/longCatEDA_0.31.r |only longCatEDA-0.31/longCatEDA/man/longCat-class.Rd | 2 +- longCatEDA-0.31/longCatEDA/man/longCatEDA-package.Rd | 2 +- 7 files changed, 14 insertions(+), 11 deletions(-)
Title: Generate, Visualise, and Compare Fast and Frugal Decision Trees
Description: Create, visualise, and test fast and frugal decision trees (FFTrees). FFTrees are very simple decision trees for
classifying cases (i.e.; breast cancer patients) into one of two classes (e.g.;
no cancer vs. true cancer) based on a small number of cues (e.g.; test results). FFTrees can be preferable to more complex algorithms because they are easy to communicate, require very little information, and are
robust against overfitting.
Author: Nathaniel Phillips [aut, cre]
Maintainer: Nathaniel Phillips <Nathaniel.D.Phillips.is@gmail.com>
Diff between FFTrees versions 1.1.8 dated 2016-10-08 and 1.2.2 dated 2017-04-18
FFTrees-1.1.8/FFTrees/R/cartpred_function.R |only FFTrees-1.1.8/FFTrees/R/depreciated.R |only FFTrees-1.1.8/FFTrees/R/iris_doc.R |only FFTrees-1.1.8/FFTrees/R/lrpred_function.R |only FFTrees-1.1.8/FFTrees/R/minorfunctions.R |only FFTrees-1.1.8/FFTrees/data/iris.RData |only FFTrees-1.1.8/FFTrees/man/cart.pred.Rd |only FFTrees-1.1.8/FFTrees/man/deprecated.Rd |only FFTrees-1.1.8/FFTrees/man/iris.Rd |only FFTrees-1.1.8/FFTrees/man/lr.pred.Rd |only FFTrees-1.2.2/FFTrees/DESCRIPTION | 21 FFTrees-1.2.2/FFTrees/MD5 | 150 - FFTrees-1.2.2/FFTrees/NAMESPACE | 23 FFTrees-1.2.2/FFTrees/R/FFForest.R |only FFTrees-1.2.2/FFTrees/R/FFTrees.R | 378 +++- FFTrees-1.2.2/FFTrees/R/applytree_function.R |only FFTrees-1.2.2/FFTrees/R/auc_function.R | 36 FFTrees-1.2.2/FFTrees/R/classtable_function.R | 93 - FFTrees-1.2.2/FFTrees/R/comppred_function.R |only FFTrees-1.2.2/FFTrees/R/cuerank_function.R | 183 +- FFTrees-1.2.2/FFTrees/R/growFFTrees_function.R | 271 +-- FFTrees-1.2.2/FFTrees/R/helper.R | 138 - FFTrees-1.2.2/FFTrees/R/irisv_doc.R |only FFTrees-1.2.2/FFTrees/R/plotFFForest.R |only FFTrees-1.2.2/FFTrees/R/plotFFTrees_function.R | 1587 ++++++++++-------- FFTrees-1.2.2/FFTrees/R/predictFFForest_function.R |only FFTrees-1.2.2/FFTrees/R/predictFFTrees_function.R | 62 FFTrees-1.2.2/FFTrees/R/printFFForest_function.R |only FFTrees-1.2.2/FFTrees/R/printFFTrees_function.R | 115 - FFTrees-1.2.2/FFTrees/R/showcues_function.R | 238 +- FFTrees-1.2.2/FFTrees/R/zzz.R | 11 FFTrees-1.2.2/FFTrees/README.md | 46 FFTrees-1.2.2/FFTrees/build/vignette.rds |binary FFTrees-1.2.2/FFTrees/data/irisv.RData |only FFTrees-1.2.2/FFTrees/inst/FFTrees_Logo.jpg |only FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_algorithm.R | 70 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_algorithm.Rmd | 122 + FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_algorithm.html | 195 ++ FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_examples.R | 6 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_examples.Rmd | 12 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_examples.html | 53 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_function.R | 32 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_function.Rmd | 60 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_function.html | 305 +-- FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_plot.R | 8 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_plot.Rmd | 10 FFTrees-1.2.2/FFTrees/inst/doc/FFTrees_plot.html | 20 FFTrees-1.2.2/FFTrees/inst/doc/guide.R | 17 FFTrees-1.2.2/FFTrees/inst/doc/guide.Rmd | 34 FFTrees-1.2.2/FFTrees/inst/doc/guide.html | 69 FFTrees-1.2.2/FFTrees/man/FFForest.Rd |only FFTrees-1.2.2/FFTrees/man/FFTrees.Rd | 69 FFTrees-1.2.2/FFTrees/man/FFTrees.guide.Rd | 1 FFTrees-1.2.2/FFTrees/man/apply.tree.Rd |only FFTrees-1.2.2/FFTrees/man/auc.Rd | 9 FFTrees-1.2.2/FFTrees/man/bank.Rd | 1 FFTrees-1.2.2/FFTrees/man/blood.Rd | 1 FFTrees-1.2.2/FFTrees/man/breastcancer.Rd | 1 FFTrees-1.2.2/FFTrees/man/car.Rd | 1 FFTrees-1.2.2/FFTrees/man/classtable.Rd | 5 FFTrees-1.2.2/FFTrees/man/comp.pred.Rd |only FFTrees-1.2.2/FFTrees/man/contraceptive.Rd | 1 FFTrees-1.2.2/FFTrees/man/creditapproval.Rd | 1 FFTrees-1.2.2/FFTrees/man/cuerank.Rd | 22 FFTrees-1.2.2/FFTrees/man/factclean.Rd | 1 FFTrees-1.2.2/FFTrees/man/fertility.Rd | 1 FFTrees-1.2.2/FFTrees/man/forestfires.Rd | 1 FFTrees-1.2.2/FFTrees/man/grow.FFTrees.Rd | 35 FFTrees-1.2.2/FFTrees/man/heartdisease.Rd | 1 FFTrees-1.2.2/FFTrees/man/income.Rd | 1 FFTrees-1.2.2/FFTrees/man/iris.v.Rd |only FFTrees-1.2.2/FFTrees/man/mushrooms.Rd | 1 FFTrees-1.2.2/FFTrees/man/plot.FFForest.Rd |only FFTrees-1.2.2/FFTrees/man/plot.FFTrees.Rd | 26 FFTrees-1.2.2/FFTrees/man/predict.FFForest.Rd |only FFTrees-1.2.2/FFTrees/man/predict.FFTrees.Rd | 42 FFTrees-1.2.2/FFTrees/man/print.FFForest.Rd |only FFTrees-1.2.2/FFTrees/man/print.FFTrees.Rd | 7 FFTrees-1.2.2/FFTrees/man/showcues.Rd | 14 FFTrees-1.2.2/FFTrees/man/sonar.Rd | 1 FFTrees-1.2.2/FFTrees/man/summary.FFTrees.Rd | 1 FFTrees-1.2.2/FFTrees/man/titanic.Rd | 1 FFTrees-1.2.2/FFTrees/man/voting.Rd | 1 FFTrees-1.2.2/FFTrees/man/wine.Rd | 1 FFTrees-1.2.2/FFTrees/vignettes/FFTrees_algorithm.Rmd | 122 + FFTrees-1.2.2/FFTrees/vignettes/FFTrees_examples.Rmd | 12 FFTrees-1.2.2/FFTrees/vignettes/FFTrees_function.Rmd | 60 FFTrees-1.2.2/FFTrees/vignettes/FFTrees_plot.Rmd | 10 FFTrees-1.2.2/FFTrees/vignettes/guide.Rmd | 34 89 files changed, 3035 insertions(+), 1815 deletions(-)
Title: Causal Modeling with Coincidence Analysis
Description: Provides comprehensive functionalities for causal modeling with Coincidence Analysis (CNA), which is a configurational comparative method of causal data analysis that was first introduced in Baumgartner (2009) <doi:10.1177/0049124109339369>. CNA is related to Qualitative Comparative Analysis (QCA), but contrary to the latter, it is custom-built for uncovering causal structures with multiple outcomes. While previous versions have only been capable of processing dichotomous variables, the current version generalizes CNA for multi-value and continuous variables whose values are interpreted as membership scores in fuzzy sets.
Author: Mathias Ambuehl [aut, cre, cph],
Michael Baumgartner [aut, cph],
Ruedi Epple [ctb],
Alrik Thiem [ctb]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>
Diff between cna versions 1.0-3 dated 2015-04-18 and 2.0.0 dated 2017-04-18
cna-1.0-3/cna/INDEX |only cna-1.0-3/cna/R/onAttach.R |only cna-1.0-3/cna/inst/CITATION |only cna-1.0-3/cna/inst/ChangeLog |only cna-1.0-3/cna/man/cna.package.Rd |only cna-2.0.0/cna/DESCRIPTION | 34 - cna-2.0.0/cna/MD5 | 73 ++ cna-2.0.0/cna/NAMESPACE | 51 +- cna-2.0.0/cna/R/RcppExports.R |only cna-2.0.0/cna/R/allCombs_makefuzzy.r |only cna-2.0.0/cna/R/cna.r | 471 ++++++++----------- cna-2.0.0/cna/R/cna_accel.r |only cna-2.0.0/cna/R/cna_aux.r | 309 ++++++------ cna-2.0.0/cna/R/coherence.r |only cna-2.0.0/cna/R/condTbl.r | 267 ++++++---- cna-2.0.0/cna/R/condition.r | 673 ++++++++++++++++++++++----- cna-2.0.0/cna/R/group.by.outcome.r |only cna-2.0.0/cna/R/onUnload.R |only cna-2.0.0/cna/R/print.cna.r |only cna-2.0.0/cna/R/selectCases.r |only cna-2.0.0/cna/R/some.r |only cna-2.0.0/cna/R/truthTab.r | 351 +++++++++++--- cna-2.0.0/cna/R/tt2df.r |only cna-2.0.0/cna/data/d.autonomy.tab.gz |only cna-2.0.0/cna/data/d.jobsecurity.tab.gz |only cna-2.0.0/cna/data/d.minaret.tab.gz |binary cna-2.0.0/cna/data/d.pacts.tab.gz |only cna-2.0.0/cna/data/d.pban.tab.gz |only cna-2.0.0/cna/inst/NEWS |only cna-2.0.0/cna/man/allCombs.Rd |only cna-2.0.0/cna/man/cna-package.Rd |only cna-2.0.0/cna/man/cna.Rd | 784 ++++++++++++++++---------------- cna-2.0.0/cna/man/coherence.Rd |only cna-2.0.0/cna/man/condTbl.Rd | 269 +++++----- cna-2.0.0/cna/man/condition.Rd | 335 +++++++------ cna-2.0.0/cna/man/d.autonomy.Rd |only cna-2.0.0/cna/man/d.educate.Rd | 4 cna-2.0.0/cna/man/d.irrigate.Rd | 2 cna-2.0.0/cna/man/d.jobsecurity.Rd |only cna-2.0.0/cna/man/d.minaret.Rd | 18 cna-2.0.0/cna/man/d.pacts.Rd |only cna-2.0.0/cna/man/d.pban.Rd |only cna-2.0.0/cna/man/d.performance.Rd | 4 cna-2.0.0/cna/man/d.volatile.Rd | 4 cna-2.0.0/cna/man/d.women.Rd | 2 cna-2.0.0/cna/man/makeFuzzy.Rd |only cna-2.0.0/cna/man/selectCases.Rd |only cna-2.0.0/cna/man/some.Rd |only cna-2.0.0/cna/man/truthTab.Rd | 300 +++++++----- cna-2.0.0/cna/man/tt2df.Rd |only cna-2.0.0/cna/src |only 51 files changed, 2413 insertions(+), 1538 deletions(-)
Title: Time Series Analysis and Computational Finance
Description: Time series analysis and computational finance.
Author: Adrian Trapletti [aut],
Kurt Hornik [aut, cre],
Blake LeBaron [ctb] (BDS test code)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tseries versions 0.10-38 dated 2017-02-20 and 0.10-39 dated 2017-04-18
ChangeLog | 8 +++ DESCRIPTION | 6 +- MD5 | 24 ++++----- R/finance.R | 129 +++++++++++++++++++++++++------------------------- data/NelPlo.rda |binary data/USeconomic.rda |binary data/bev.rda |binary data/camp.rda |binary data/ice.river.rda |binary data/nino.rda |binary data/tcm.rda |binary data/tcmd.rda |binary man/get.hist.quote.Rd | 19 +------ 13 files changed, 95 insertions(+), 91 deletions(-)
Title: Functions from "Reinsurance: Actuarial and Statistical Aspects"
Description: Functions from the book "Reinsurance: Actuarial and Statistical Aspects" (Wiley, 2017, forthcoming) by Hansjoerg Albrecher, Jan Beirlant and Jef Teugels.
Author: Tom Reynkens [aut, cre],
Roel Verbelen [aut] (R code for Mixed Erlang distribution),
Anastasios Bardoutsos [ctb] (Original R code for cEPD estimator),
Dries Cornilly [ctb] (Original R code for EVT estimators for truncated
data),
Yuri Goegebeur [ctb] (Original S-Plus code for basic EVT estimators),
Klaus Herrmann [ctb] (Original R code for GPD estimator)
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>
Diff between ReIns versions 1.0.2 dated 2017-02-15 and 1.0.3 dated 2017-04-18
ReIns-1.0.2/ReIns/src/RcppExports.h |only ReIns-1.0.2/ReIns/src/ReIns_init.cpp |only ReIns-1.0.3/ReIns/DESCRIPTION | 11 ReIns-1.0.3/ReIns/MD5 | 306 +- ReIns-1.0.3/ReIns/NAMESPACE | 266 +- ReIns-1.0.3/ReIns/R/Approximations.R | 618 ++--- ReIns-1.0.3/ReIns/R/CensRegression.R | 422 +-- ReIns-1.0.3/ReIns/R/Censoring.R | 690 ++--- ReIns-1.0.3/ReIns/R/Censoring_PQ.R | 854 +++---- ReIns-1.0.3/ReIns/R/Cpp_export.R | 228 - ReIns-1.0.3/ReIns/R/Distributions.R | 2572 +++++++++++----------- ReIns-1.0.3/ReIns/R/EPD.R | 784 +++--- ReIns-1.0.3/ReIns/R/GPD.R | 536 ++-- ReIns-1.0.3/ReIns/R/GenHill.R | 308 +- ReIns-1.0.3/ReIns/R/Hill.R | 344 +- ReIns-1.0.3/ReIns/R/Hill2oQV.R | 458 +-- ReIns-1.0.3/ReIns/R/IntervalCensoring.R | 788 +++--- ReIns-1.0.3/ReIns/R/LStail.R | 256 +- ReIns-1.0.3/ReIns/R/ME.R | 1526 ++++++------- ReIns-1.0.3/ReIns/R/Moment.R | 264 +- ReIns-1.0.3/ReIns/R/QQplots.R | 578 ++-- ReIns-1.0.3/ReIns/R/Raux.R | 428 +-- ReIns-1.0.3/ReIns/R/RcppExports.R | 46 ReIns-1.0.3/ReIns/R/Regression.R | 296 +- ReIns-1.0.3/ReIns/R/RiskMeasures.R | 1238 +++++----- ReIns-1.0.3/ReIns/R/Scale.R | 190 - ReIns-1.0.3/ReIns/R/Splicing.R | 2276 +++++++++---------- ReIns-1.0.3/ReIns/R/Splicing_EM.R | 2270 +++++++++---------- ReIns-1.0.3/ReIns/R/Splicing_plots.R | 800 +++--- ReIns-1.0.3/ReIns/R/Truncation.R | 722 +++--- ReIns-1.0.3/ReIns/R/TruncationMLE.R |only ReIns-1.0.3/ReIns/R/Turnbull_KM.R | 578 ++-- ReIns-1.0.3/ReIns/R/cEPD.R | 518 ++-- ReIns-1.0.3/ReIns/R/stdf.R | 36 ReIns-1.0.3/ReIns/build/vignette.rds |binary ReIns-1.0.3/ReIns/inst/NEWS.Rd | 67 ReIns-1.0.3/ReIns/inst/doc/ReIns.R | 614 ++--- ReIns-1.0.3/ReIns/inst/doc/ReIns.Rmd | 1188 +++++----- ReIns-1.0.3/ReIns/inst/doc/ReIns.html | 1160 ++++----- ReIns-1.0.3/ReIns/man/Burr.Rd | 174 - ReIns-1.0.3/ReIns/man/CTE.Rd | 140 - ReIns-1.0.3/ReIns/man/EPD.Rd | 190 - ReIns-1.0.3/ReIns/man/EPDfit.Rd | 112 ReIns-1.0.3/ReIns/man/EPdist.Rd | 180 - ReIns-1.0.3/ReIns/man/EVTfit.Rd | 126 - ReIns-1.0.3/ReIns/man/ExcessEPD.Rd | 188 - ReIns-1.0.3/ReIns/man/ExcessGPD.Rd | 182 - ReIns-1.0.3/ReIns/man/ExcessPareto.Rd | 194 - ReIns-1.0.3/ReIns/man/ExcessSplice.Rd | 136 - ReIns-1.0.3/ReIns/man/ExpQQ.Rd | 134 - ReIns-1.0.3/ReIns/man/Frechet.Rd | 166 - ReIns-1.0.3/ReIns/man/GPD.Rd | 176 - ReIns-1.0.3/ReIns/man/GPDfit.Rd | 106 ReIns-1.0.3/ReIns/man/GPDmle.Rd | 176 - ReIns-1.0.3/ReIns/man/GPDresiduals.Rd | 156 - ReIns-1.0.3/ReIns/man/Hill.Rd | 154 - ReIns-1.0.3/ReIns/man/Hill.kopt.Rd | 158 - ReIns-1.0.3/ReIns/man/Hill2oQV.Rd | 150 - ReIns-1.0.3/ReIns/man/KaplanMeier.Rd | 130 - ReIns-1.0.3/ReIns/man/LStail.Rd | 168 - ReIns-1.0.3/ReIns/man/LognormalQQ.Rd | 130 - ReIns-1.0.3/ReIns/man/LognormalQQ_der.Rd | 128 - ReIns-1.0.3/ReIns/man/MEfit.Rd | 150 - ReIns-1.0.3/ReIns/man/MeanExcess.Rd | 140 - ReIns-1.0.3/ReIns/man/MeanExcess_TB.Rd | 200 - ReIns-1.0.3/ReIns/man/Moment.Rd | 162 - ReIns-1.0.3/ReIns/man/Pareto.Rd | 156 - ReIns-1.0.3/ReIns/man/ParetoQQ.Rd | 134 - ReIns-1.0.3/ReIns/man/ParetoQQ_der.Rd | 134 - ReIns-1.0.3/ReIns/man/Prob.Rd | 202 - ReIns-1.0.3/ReIns/man/ProbEPD.Rd | 184 - ReIns-1.0.3/ReIns/man/ProbGH.Rd | 172 - ReIns-1.0.3/ReIns/man/ProbGPD.Rd | 174 - ReIns-1.0.3/ReIns/man/ProbMOM.Rd | 170 - ReIns-1.0.3/ReIns/man/ProbReg.Rd | 164 - ReIns-1.0.3/ReIns/man/Quant.Rd | 182 - ReIns-1.0.3/ReIns/man/Quant2o.Rd | 194 - ReIns-1.0.3/ReIns/man/QuantGH.Rd | 158 - ReIns-1.0.3/ReIns/man/QuantGPD.Rd | 154 - ReIns-1.0.3/ReIns/man/QuantMOM.Rd | 154 - ReIns-1.0.3/ReIns/man/QuantReg.Rd | 162 - ReIns-1.0.3/ReIns/man/Scale.2o.Rd | 176 - ReIns-1.0.3/ReIns/man/Scale.Rd | 168 - ReIns-1.0.3/ReIns/man/ScaleEPD.Rd | 172 - ReIns-1.0.3/ReIns/man/ScaleReg.Rd | 168 - ReIns-1.0.3/ReIns/man/Splice.Rd | 228 - ReIns-1.0.3/ReIns/man/SpliceECDF.Rd | 188 - ReIns-1.0.3/ReIns/man/SpliceFit.Rd | 174 - ReIns-1.0.3/ReIns/man/SpliceFitGPD.Rd | 244 +- ReIns-1.0.3/ReIns/man/SpliceFitPareto.Rd | 284 +- ReIns-1.0.3/ReIns/man/SpliceFiticPareto.Rd | 302 +- ReIns-1.0.3/ReIns/man/SpliceLL.Rd | 216 - ReIns-1.0.3/ReIns/man/SpliceLL_TB.Rd | 274 +- ReIns-1.0.3/ReIns/man/SplicePP.Rd | 218 - ReIns-1.0.3/ReIns/man/SplicePP_TB.Rd | 274 +- ReIns-1.0.3/ReIns/man/SpliceQQ.Rd | 194 - ReIns-1.0.3/ReIns/man/SpliceQQ_TB.Rd | 254 +- ReIns-1.0.3/ReIns/man/SpliceTB.Rd | 228 - ReIns-1.0.3/ReIns/man/Turnbull.Rd | 166 - ReIns-1.0.3/ReIns/man/VaR.Rd | 142 - ReIns-1.0.3/ReIns/man/WeibullQQ.Rd | 122 - ReIns-1.0.3/ReIns/man/WeibullQQ_der.Rd | 130 - ReIns-1.0.3/ReIns/man/cEPD.Rd | 184 - ReIns-1.0.3/ReIns/man/cExpQQ.Rd | 154 - ReIns-1.0.3/ReIns/man/cGPD.Rd | 186 - ReIns-1.0.3/ReIns/man/cHill.Rd | 168 - ReIns-1.0.3/ReIns/man/cLognormalQQ.Rd | 154 - ReIns-1.0.3/ReIns/man/cMoment.Rd | 160 - ReIns-1.0.3/ReIns/man/cParetoQQ.Rd | 152 - ReIns-1.0.3/ReIns/man/cProb.Rd | 196 - ReIns-1.0.3/ReIns/man/cProbEPD.Rd | 214 - ReIns-1.0.3/ReIns/man/cProbGH.Rd | 194 - ReIns-1.0.3/ReIns/man/cProbGPD.Rd | 204 - ReIns-1.0.3/ReIns/man/cProbMOM.Rd | 200 - ReIns-1.0.3/ReIns/man/cQuant.Rd | 174 - ReIns-1.0.3/ReIns/man/cQuantGH.Rd | 178 - ReIns-1.0.3/ReIns/man/cQuantGPD.Rd | 184 - ReIns-1.0.3/ReIns/man/cQuantMOM.Rd | 178 - ReIns-1.0.3/ReIns/man/cWeibullQQ.Rd | 156 - ReIns-1.0.3/ReIns/man/cgenHill.Rd | 154 - ReIns-1.0.3/ReIns/man/crHill.Rd | 208 - ReIns-1.0.3/ReIns/man/crParetoQQ.Rd | 228 - ReIns-1.0.3/ReIns/man/crSurv.Rd | 182 - ReIns-1.0.3/ReIns/man/genHill.Rd | 174 - ReIns-1.0.3/ReIns/man/genQQ.Rd | 150 - ReIns-1.0.3/ReIns/man/icHill.Rd | 218 - ReIns-1.0.3/ReIns/man/icParetoQQ.Rd | 186 - ReIns-1.0.3/ReIns/man/norwegianfire.Rd | 72 ReIns-1.0.3/ReIns/man/pClas.Rd | 212 - ReIns-1.0.3/ReIns/man/pEdge.Rd | 194 - ReIns-1.0.3/ReIns/man/pGC.Rd | 196 - ReIns-1.0.3/ReIns/man/secura.Rd | 74 ReIns-1.0.3/ReIns/man/soa.Rd | 82 ReIns-1.0.3/ReIns/man/stdf.Rd | 154 - ReIns-1.0.3/ReIns/man/tBurr.Rd | 168 - ReIns-1.0.3/ReIns/man/tExp.Rd | 154 - ReIns-1.0.3/ReIns/man/tFrechet.Rd | 172 - ReIns-1.0.3/ReIns/man/tGPD.Rd | 170 - ReIns-1.0.3/ReIns/man/tPareto.Rd | 158 - ReIns-1.0.3/ReIns/man/tWeibull.Rd | 158 - ReIns-1.0.3/ReIns/man/tlnorm.Rd | 160 - ReIns-1.0.3/ReIns/man/trDT.Rd | 148 - ReIns-1.0.3/ReIns/man/trDTMLE.Rd |only ReIns-1.0.3/ReIns/man/trEndpoint.Rd | 148 - ReIns-1.0.3/ReIns/man/trEndpointMLE.Rd |only ReIns-1.0.3/ReIns/man/trHill.Rd | 184 - ReIns-1.0.3/ReIns/man/trMLE.Rd |only ReIns-1.0.3/ReIns/man/trParetoQQ.Rd | 186 - ReIns-1.0.3/ReIns/man/trProb.Rd | 166 - ReIns-1.0.3/ReIns/man/trProbMLE.Rd |only ReIns-1.0.3/ReIns/man/trQuant.Rd | 216 - ReIns-1.0.3/ReIns/man/trQuantMLE.Rd |only ReIns-1.0.3/ReIns/man/trTest.Rd | 178 - ReIns-1.0.3/ReIns/man/trTestMLE.Rd |only ReIns-1.0.3/ReIns/src/init.c |only ReIns-1.0.3/ReIns/tests/testthat.R | 10 ReIns-1.0.3/ReIns/tests/testthat/testDist.R | 448 +-- ReIns-1.0.3/ReIns/tests/testthat/testVectorised.R | 832 +++---- ReIns-1.0.3/ReIns/vignettes/ReIns.Rmd | 1188 +++++----- 159 files changed, 22820 insertions(+), 22802 deletions(-)
Title: Annotated Copy-Number Regions
Description: Provides SNP array data from different types of
copy-number regions. These regions were identified manually by the authors
of the package and may be used to generate realistic data sets with known
truth.
Author: Morgane Pierre-Jean [aut, cre],
Pierre Neuvial [aut]
Maintainer: Morgane Pierre-Jean <morgane.pierrejean@genopole.cnrs.fr>
Diff between acnr versions 0.2.4 dated 2014-11-19 and 1.0.0 dated 2017-04-18
acnr-0.2.4/acnr/NEWS |only acnr-0.2.4/acnr/inst/doc/acnr.Rnw |only acnr-0.2.4/acnr/inst/doc/acnr.pdf |only acnr-0.2.4/acnr/inst/extdata/GenomeWideSNP_6 |only acnr-0.2.4/acnr/inst/extdata/HumanCNV370v1 |only acnr-0.2.4/acnr/vignettes/acnr.Rnw |only acnr-1.0.0/acnr/DESCRIPTION | 33 - acnr-1.0.0/acnr/MD5 | 84 ++- acnr-1.0.0/acnr/NAMESPACE | 9 acnr-1.0.0/acnr/NEWS.md |only acnr-1.0.0/acnr/R/extdata.R |only acnr-1.0.0/acnr/R/getMinorMajorCopyNumbers.R |only acnr-1.0.0/acnr/R/listDataSets.R |only acnr-1.0.0/acnr/R/listTumorFractions.R |only acnr-1.0.0/acnr/R/loadCnRegionData.R | 132 ++--- acnr-1.0.0/acnr/R/loadDataSet.R |only acnr-1.0.0/acnr/README.md |only acnr-1.0.0/acnr/build/vignette.rds |binary acnr-1.0.0/acnr/inst/CITATION |only acnr-1.0.0/acnr/inst/doc/acnr.R | 37 - acnr-1.0.0/acnr/inst/doc/acnr.Rmd |only acnr-1.0.0/acnr/inst/doc/acnr.html |only acnr-1.0.0/acnr/inst/doc/autocorrelation.R |only acnr-1.0.0/acnr/inst/doc/autocorrelation.Rmd |only acnr-1.0.0/acnr/inst/doc/autocorrelation.html |only acnr-1.0.0/acnr/inst/extdata/GSE11976_CRL2324.rds |only acnr-1.0.0/acnr/inst/extdata/GSE13372_HCC1143.rds |only acnr-1.0.0/acnr/inst/extdata/GSE29172_H1395.rds |only acnr-1.0.0/acnr/inst/preprocessing/GSE11976/00.PrepareData.R | 74 +- acnr-1.0.0/acnr/inst/preprocessing/GSE11976/01.defineCopyNumberSegments.R | 1 acnr-1.0.0/acnr/inst/preprocessing/GSE11976/02.exportRegionData.R | 59 +- acnr-1.0.0/acnr/inst/preprocessing/GSE11976/03.mergeCnRegionData.R | 61 +- acnr-1.0.0/acnr/inst/preprocessing/GSE11976/03.plotRegions.R | 6 acnr-1.0.0/acnr/inst/preprocessing/GSE13372 |only acnr-1.0.0/acnr/inst/preprocessing/GSE29172/03.writeWholeGenomeData.R | 54 +- acnr-1.0.0/acnr/inst/preprocessing/GSE29172/04.plotTracks.R | 13 acnr-1.0.0/acnr/inst/preprocessing/GSE29172/06.plotCopyNumberSegments.R | 258 ++++------ acnr-1.0.0/acnr/inst/preprocessing/GSE29172/07.exportRegionData.R | 119 ++-- acnr-1.0.0/acnr/inst/preprocessing/GSE29172/08.mergeCnRegionData.R | 81 +-- acnr-1.0.0/acnr/inst/preprocessing/GSE29172/09.LightCnRegionData.R | 2 acnr-1.0.0/acnr/man/GSE11976_CRL2324.Rd |only acnr-1.0.0/acnr/man/GSE13372_HCC1143.Rd |only acnr-1.0.0/acnr/man/GSE29172_H1395.Rd |only acnr-1.0.0/acnr/man/getMinorMajorCopyNumbers.Rd |only acnr-1.0.0/acnr/man/listDataSets.Rd |only acnr-1.0.0/acnr/man/listTumorFractions.Rd |only acnr-1.0.0/acnr/man/loadCnRegionData.Rd | 123 ++-- acnr-1.0.0/acnr/tests |only acnr-1.0.0/acnr/vignettes/acnr.Rmd |only acnr-1.0.0/acnr/vignettes/autocorrelation.Rmd |only 50 files changed, 592 insertions(+), 554 deletions(-)
Title: Topic Models
Description: Provides an interface to the C code for Latent Dirichlet
Allocation (LDA) models and Correlated Topics Models
(CTM) by David M. Blei and co-authors and the C++ code
for fitting LDA models using Gibbs sampling by Xuan-Hieu
Phan and co-authors.
Author: Bettina Grün [aut, cre],
Kurt Hornik [aut]
Maintainer: Bettina Grün <Bettina.Gruen@jku.at>
Diff between topicmodels versions 0.2-5 dated 2017-02-28 and 0.2-6 dated 2017-04-18
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- build/vignette.rds |binary data/AssociatedPress.rda |binary inst/NEWS.Rd | 6 ++++++ inst/doc/topicmodels.pdf |binary src/rctm.c | 21 +++++++++++++-------- src/rlda.c | 14 +++++++++----- 8 files changed, 38 insertions(+), 23 deletions(-)
Title: Read Excel Files
Description: Import excel files into R. Supports '.xls' via the embedded
'libxls' C library <https://sourceforge.net/projects/libxls/> and '.xlsx' via
the embedded 'RapidXML' C++ library <https://rapidxml.sourceforge.net>. Works on
Windows, Mac and Linux without external dependencies.
Author: Hadley Wickham [aut],
Jennifer Bryan [aut, cre],
RStudio [cph] (Copyright holder of all R code and all C/C++ code
without explicit copyright attribution),
Marcin Kalicinski [ctb, cph] (Author of included RapidXML code),
Komarov Valery [ctb, cph] (Author of included libxls code),
Christophe Leitienne [ctb, cph] (Author of included libxls code),
Bob Colbert [ctb, cph] (Author of included libxls code),
David Hoerl [ctb, cph] (Author of included libxls code)
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between readxl versions 0.1.1 dated 2016-03-28 and 1.0.0 dated 2017-04-18
readxl-0.1.1/readxl/LICENSE |only readxl-0.1.1/readxl/R/xlsx.R |only readxl-0.1.1/readxl/src/CellType.h |only readxl-0.1.1/readxl/src/benchmarks.cpp |only readxl-0.1.1/readxl/tests/testthat/blanks.xls |only readxl-0.1.1/readxl/tests/testthat/blanks.xlsx |only readxl-0.1.1/readxl/tests/testthat/context-compat.R |only readxl-0.1.1/readxl/tests/testthat/dates-1900.xls |only readxl-0.1.1/readxl/tests/testthat/dates-1904.xls |only readxl-0.1.1/readxl/tests/testthat/empty-named-column.xls |only readxl-0.1.1/readxl/tests/testthat/empty-named-column.xlsx |only readxl-0.1.1/readxl/tests/testthat/inlineStr.xlsx |only readxl-0.1.1/readxl/tests/testthat/inlineStr2.xlsx |only readxl-0.1.1/readxl/tests/testthat/iris-excel.xlsx |only readxl-0.1.1/readxl/tests/testthat/iris-google-doc.xlsx |only readxl-0.1.1/readxl/tests/testthat/missing-first-column.xlsx |only readxl-0.1.1/readxl/tests/testthat/missing-values.xls |only readxl-0.1.1/readxl/tests/testthat/missing-values.xlsx |only readxl-0.1.1/readxl/tests/testthat/new_line_errors.xlsx |only readxl-0.1.1/readxl/tests/testthat/richtext-coloured.xlsx |only readxl-0.1.1/readxl/tests/testthat/types.xlsx |only readxl-0.1.1/readxl/tests/testthat/utf8-sheets.xls |only readxl-0.1.1/readxl/tests/testthat/utf8-sheets.xlsx |only readxl-1.0.0/readxl/DESCRIPTION | 33 readxl-1.0.0/readxl/LICENSE.note |only readxl-1.0.0/readxl/MD5 | 205 ++- readxl-1.0.0/readxl/NAMESPACE | 15 readxl-1.0.0/readxl/NEWS.md | 76 + readxl-1.0.0/readxl/R/RcppExports.R | 50 readxl-1.0.0/readxl/R/cell-specification.R |only readxl-1.0.0/readxl/R/example.R |only readxl-1.0.0/readxl/R/excel-sheets.R | 7 readxl-1.0.0/readxl/R/read_excel.R | 288 ++++- readxl-1.0.0/readxl/R/readxl.R |only readxl-1.0.0/readxl/R/utils.R | 4 readxl-1.0.0/readxl/R/xlsx-zip.R |only readxl-1.0.0/readxl/README.md | 207 +++ readxl-1.0.0/readxl/build |only readxl-1.0.0/readxl/inst/doc |only readxl-1.0.0/readxl/inst/extdata/clippy.xls |only readxl-1.0.0/readxl/inst/extdata/clippy.xlsx |only readxl-1.0.0/readxl/inst/extdata/datasets.xls |binary readxl-1.0.0/readxl/inst/extdata/deaths.xls |only readxl-1.0.0/readxl/inst/extdata/deaths.xlsx |only readxl-1.0.0/readxl/inst/extdata/geometry.xls |only readxl-1.0.0/readxl/inst/extdata/geometry.xlsx |only readxl-1.0.0/readxl/inst/extdata/type-me.xls |only readxl-1.0.0/readxl/inst/extdata/type-me.xlsx |only readxl-1.0.0/readxl/man/cell-specification.Rd |only readxl-1.0.0/readxl/man/excel_sheets.Rd | 7 readxl-1.0.0/readxl/man/read_excel.Rd | 113 +- readxl-1.0.0/readxl/man/readxl-package.Rd |only readxl-1.0.0/readxl/man/readxl_example.Rd |only readxl-1.0.0/readxl/src/CellLimits.h |only readxl-1.0.0/readxl/src/ColSpec.h |only readxl-1.0.0/readxl/src/Makevars | 1 readxl-1.0.0/readxl/src/Makevars.win | 7 readxl-1.0.0/readxl/src/RcppExports.cpp | 215 +--- readxl-1.0.0/readxl/src/StringSet.h |only readxl-1.0.0/readxl/src/XlsCell.h |only readxl-1.0.0/readxl/src/XlsWorkBook.cpp | 24 readxl-1.0.0/readxl/src/XlsWorkBook.h | 114 +- readxl-1.0.0/readxl/src/XlsWorkSheet.cpp | 78 - readxl-1.0.0/readxl/src/XlsWorkSheet.h | 475 +++++++-- readxl-1.0.0/readxl/src/XlsxCell.h | 374 +++++-- readxl-1.0.0/readxl/src/XlsxWorkBook.cpp | 4 readxl-1.0.0/readxl/src/XlsxWorkBook.h | 230 +++- readxl-1.0.0/readxl/src/XlsxWorkSheet.cpp | 96 - readxl-1.0.0/readxl/src/XlsxWorkSheet.h | 522 ++++++---- readxl-1.0.0/readxl/src/cran.h | 9 readxl-1.0.0/readxl/src/endian.c | 7 readxl-1.0.0/readxl/src/init.c |only readxl-1.0.0/readxl/src/libxls/xlstool.h | 3 readxl-1.0.0/readxl/src/libxls/xlstypes.h | 16 readxl-1.0.0/readxl/src/ole.c | 2 readxl-1.0.0/readxl/src/rapidxml.h | 46 readxl-1.0.0/readxl/src/unix/config.h | 7 readxl-1.0.0/readxl/src/utils.h | 142 ++ readxl-1.0.0/readxl/src/windows/config.h | 6 readxl-1.0.0/readxl/src/xls.c | 21 readxl-1.0.0/readxl/src/xlstool.c | 20 readxl-1.0.0/readxl/src/zip.cpp | 2 readxl-1.0.0/readxl/tests/BIFF5-LABEL-record-string-read-mac-10-11.supp |only readxl-1.0.0/readxl/tests/testthat/helper.R |only readxl-1.0.0/readxl/tests/testthat/sheets |only readxl-1.0.0/readxl/tests/testthat/test-col-names.R |only readxl-1.0.0/readxl/tests/testthat/test-col-types.R |only readxl-1.0.0/readxl/tests/testthat/test-compatibility.R |only readxl-1.0.0/readxl/tests/testthat/test-dates.R | 46 readxl-1.0.0/readxl/tests/testthat/test-empty.R |only readxl-1.0.0/readxl/tests/testthat/test-encoding.R |only readxl-1.0.0/readxl/tests/testthat/test-geometry.R |only readxl-1.0.0/readxl/tests/testthat/test-missing-values.R | 117 +- readxl-1.0.0/readxl/tests/testthat/test-n-max.R |only readxl-1.0.0/readxl/tests/testthat/test-problems.R |only readxl-1.0.0/readxl/tests/testthat/test-read-excel.R | 83 + readxl-1.0.0/readxl/tests/testthat/test-return.R |only readxl-1.0.0/readxl/tests/testthat/test-richtext.R | 12 readxl-1.0.0/readxl/tests/testthat/test-shared-string-table.R |only readxl-1.0.0/readxl/tests/testthat/test-sheets.R | 85 + readxl-1.0.0/readxl/tests/testthat/test-skipping.R |only readxl-1.0.0/readxl/tests/testthat/test-trim-ws.R |only readxl-1.0.0/readxl/tests/testthat/test-xml-namespaces.R |only readxl-1.0.0/readxl/tools |only readxl-1.0.0/readxl/vignettes |only 105 files changed, 2673 insertions(+), 1096 deletions(-)
Title: Estimate the Coefficients for Non-Convex Penalized Quantile
Regression Model by using QICD Algorithm
Description: Extremely fast algorithm "QICD", Iterative Coordinate
Descent Algorithm for High-dimensional Nonconvex Penalized Quantile
Regression. This algorithm combines the coordinate descent algorithm
in the inner iteration with the majorization minimization step
in the outside step. For each inner univariate minimization problem,
we only need to compute a one-dimensional weighted median,
which ensures fast computation. Tuning parameter selection is based
on two different method: the cross validation and BIC for
quantile regression model. Details are described in Peng,B and Wang,L. (2015)
<DOI:10.1080/10618600.2014.913516>.
Author: Bo Peng [aut, cre],
Rondall E. Jones [ctb],
John A. Wisniewski [ctb]
Maintainer: Bo Peng <peng0199@umn.edu>
Diff between QICD versions 1.1.1 dated 2016-05-30 and 1.2.0 dated 2017-04-18
DESCRIPTION | 13 +-- MD5 | 20 ++-- NAMESPACE | 16 ++- R/BIC_QICD.R | 144 +++++++++++++++++---------------- R/QICD.R | 223 ++++++++++++++++++++++++++-------------------------- R/cv_QICD.R | 203 +++++++++++++++++++++++------------------------ README.md |only build/partial.rdb |binary build/vignette.rds |binary man/QICD-package.Rd | 152 +++++++++++++++++------------------ src/QCD.cpp | 1 src/QICD_init.c |only 12 files changed, 393 insertions(+), 379 deletions(-)
Title: Time Series Missing Value Imputation
Description: Imputation (replacement) of missing values in univariate time
series.
Author: Steffen Moritz
Maintainer: Steffen Moritz <steffen.moritz10@gmail.com>
Diff between imputeTS versions 2.0 dated 2017-04-08 and 2.1 dated 2017-04-18
DESCRIPTION | 8 +++---- MD5 | 14 ++++++------ NEWS | 7 ++++++ README.md | 2 - inst/doc/Introduction.Rnw | 44 ++++++++++++++++++++-------------------- inst/doc/Introduction.pdf |binary tests/testthat/test-na.kalman.R | 16 +++----------- vignettes/Introduction.Rnw | 44 ++++++++++++++++++++-------------------- 8 files changed, 67 insertions(+), 68 deletions(-)
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and
regression models.
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams, Chris Keefer, Allan Engelhardt, Tony Cooper, Zachary Mayer,
Brenton Kenkel, the R Core Team, Michael Benesty, Reynald Lescarbeau,
Andrew Ziem, Luca Scrucca, Yuan Tang, Can Candan, and Tyler Hunt.
Maintainer: Max Kuhn <mxkuhn@gmail.com>
Diff between caret versions 6.0-73 dated 2016-11-10 and 6.0-76 dated 2017-04-18
DESCRIPTION | 9 MD5 | 273 +++++++++-------- NAMESPACE | 4 R/aaa.R | 3 R/confusionMatrix.R | 5 R/createDataPartition.R | 81 +++-- R/createModel.R | 4 R/dummyVar.R | 55 ++- R/filterVarImp.R | 3 R/gafs.R | 12 R/ggplot.R | 9 R/misc.R | 320 ++++++++++---------- R/modelLookup.R | 2 R/postResample.R | 101 +++--- R/preProcess.R | 20 - R/predict.train.R | 4 R/print.train.R | 7 R/rfe.R | 21 - R/safs.R | 33 +- R/selectByFilter.R | 10 R/selection.R | 2 R/train.default.R | 489 ++++++++++++++++---------------- R/trainControl.R | 43 ++ R/varImp.R | 20 + R/workflows.R | 202 ++++++++++--- build/vignette.rds |binary inst/NEWS.Rd | 32 ++ inst/doc/caret.R | 1 inst/doc/caret.Rnw | 1 inst/doc/caret.pdf |binary inst/models/models.RData |binary inst/models/sampling.RData |binary man/BloodBrain.Rd | 1 man/BoxCoxTrans.Rd | 17 - man/GermanCredit.Rd | 1 man/Sacramento.Rd | 1 man/as.matrix.confusionMatrix.Rd | 1 man/avNNet.Rd | 16 - man/bag.Rd | 20 - man/bagEarth.Rd | 14 man/bagFDA.Rd | 14 man/calibration.Rd | 19 - man/caret-internal.Rd | 37 +- man/caretFuncs.Rd | 23 + man/caretSBF.Rd | 19 - man/cars.Rd | 1 man/classDist.Rd | 13 man/confusionMatrix.Rd | 15 man/confusionMatrix.train.Rd | 9 man/cox2.Rd | 1 man/createDataPartition.Rd | 49 ++- man/densityplot.rfe.Rd | 11 man/dhfr.Rd | 1 man/diff.resamples.Rd | 15 man/dotPlot.Rd | 7 man/dotplot.diff.resamples.Rd | 11 man/downSample.Rd | 1 man/dummyVars.Rd | 62 ++-- man/featurePlot.Rd | 1 man/filterVarImp.Rd | 1 man/findCorrelation.Rd | 7 man/findLinearCombos.Rd | 7 man/format.bagEarth.Rd | 1 man/gafs.default.Rd | 17 - man/gafs_initial.Rd | 31 +- man/getSamplingInfo.Rd | 1 man/histogram.train.Rd | 9 man/icr.formula.Rd | 15 man/index2vec.Rd | 1 man/knn3.Rd | 7 man/knnreg.Rd | 8 man/learing_curve_dat.Rd | 7 man/lift.Rd | 18 - man/maxDissim.Rd | 13 man/mdrr.Rd | 1 man/modelLookup.Rd | 13 man/models.Rd | 41 ++ man/nearZeroVar.Rd | 7 man/nullModel.Rd | 7 man/oil.Rd | 3 man/oneSE.Rd | 12 man/panel.lift2.Rd | 9 man/panel.needle.Rd | 7 man/pcaNNet.Rd | 18 - man/plot.gafs.Rd | 7 man/plot.rfe.Rd | 12 man/plot.train.Rd | 20 - man/plot.varImp.train.Rd | 10 man/plotClassProbs.Rd | 1 man/plotObsVsPred.Rd | 1 man/plsda.Rd | 13 man/postResample.Rd | 19 - man/pottery.Rd | 1 man/prcomp.resamples.Rd | 22 - man/preProcess.Rd | 17 - man/predict.bagEarth.Rd | 7 man/predict.gafs.Rd | 7 man/predict.knn3.Rd | 1 man/predict.knnreg.Rd | 1 man/predict.train.Rd | 14 man/predictors.Rd | 7 man/print.confusionMatrix.Rd | 7 man/print.train.Rd | 7 man/recall.Rd | 23 - man/resampleHist.Rd | 7 man/resampleSummary.Rd | 7 man/resamples.Rd | 25 - man/rfe.Rd | 26 - man/rfeControl.Rd | 11 man/safs.Rd | 31 +- man/safsControl.Rd | 20 - man/safs_initial.Rd | 22 - man/sbf.Rd | 26 - man/sbfControl.Rd | 9 man/scat.Rd | 1 man/segmentationData.Rd | 1 man/sensitivity.Rd | 29 + man/spatialSign.Rd | 9 man/summary.bagEarth.Rd | 2 man/tecator.Rd | 3 man/train.Rd | 59 ++- man/trainControl.Rd | 40 +- man/twoClassSim.Rd | 13 man/update.safs.Rd | 9 man/update.train.Rd | 7 man/varImp.Rd | 68 +++- man/varImp.gafs.Rd | 7 man/var_seq.Rd | 1 man/xyplot.resamples.Rd | 28 + src/caret.c | 1 tests/testthat/test_classDist.R |only tests/testthat/test_data_spliting.R |only tests/testthat/test_gafs.R |only tests/testthat/test_ggplot.R |only tests/testthat/test_minimal.R | 24 + tests/testthat/test_misc.R |only tests/testthat/test_multiclassSummary.R |only tests/testthat/test_safs.R |only tests/testthat/test_sampling_options.R | 29 + tests/testthat/test_spatialSign.R |only tests/testthat/test_twoClassSummary.R | 2 tests/testthat/test_varImp.R |only 142 files changed, 1848 insertions(+), 1273 deletions(-)
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 5.29 dated 2016-09-04 and 5.33 dated 2017-04-18
DESCRIPTION | 8 +- MD5 | 56 +++++++++--------- NAMESPACE | 3 R/anova.R | 2 R/boot.R | 23 ++++--- R/combos.R | 3 R/crq.R | 27 ++++---- R/kuantile.R | 3 R/nlrq.R | 2 R/quantreg.R | 163 ++++++++++++++++++++++++++++++++---------------------- R/rqss.R | 8 +- R/sfn.R | 6 - build |only demo/00Index | 2 demo/Mel2.R |only demo/stack.R |only inst/ChangeLog | 46 +++++++++++++++ inst/FAQ | 15 ++++ inst/doc/crq.pdf |binary inst/doc/rq.R | 4 - inst/doc/rq.Rnw | 12 +-- inst/doc/rq.pdf |binary man/boot.rq.Rd | 6 + man/predict.rq.Rd | 10 +-- man/qss.Rd | 3 man/rq.fit.fnb.Rd | 5 + man/summary.rq.Rd | 18 +++++ src/cholesky.f | 5 - src/crq.f | 7 -- src/init.c |only vignettes/rq.Rnw | 2 31 files changed, 280 insertions(+), 159 deletions(-)
Title: Efficiently Read Sequence Data (VCF Format, BCF Format and METAL
Format) into R
Description: Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R. This package can help you (1) read VCF/BCF files by chromosomal ranges (e.g. 1:100-200); (2) read RareMETAL summary statistics files; (3) read tables from a tabix-indexed files; (4) annotate VCF/BCF files; (5) create customized workflow based on Makefile.
Author: Xiaowei Zhan [aut, cre],
Dajiang Liu [aut],
Attractive Chaos [cph] (We have used the following software and made
minimal necessary changes: Tabix, Heng Li <lh3@live.co.uk> (MIT
license). We removed standard IO related functions, e.g. printf,
fprintf ; also changed its un-safe pointer arithmetics.),
Broad Institute / Massachusetts Institute of Technology [cph],
Genome Research Ltd (GRL) [cph]
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Diff between seqminer versions 5.7 dated 2017-01-13 and 5.9 dated 2017-04-18
seqminer-5.7/seqminer/inst/tests/testthat.R |only seqminer-5.7/seqminer/tests/tests.R |only seqminer-5.9/seqminer/ChangeLog | 13 seqminer-5.9/seqminer/DESCRIPTION | 12 seqminer-5.9/seqminer/MD5 | 122 ++++--- seqminer-5.9/seqminer/NAMESPACE | 4 seqminer-5.9/seqminer/R/seqminer.R | 48 +- seqminer-5.9/seqminer/README.md | 7 seqminer-5.9/seqminer/inst/test-triallelic |only seqminer-5.9/seqminer/man/SeqMiner.Rd | 3 seqminer-5.9/seqminer/man/addJob.Rd | 3 seqminer-5.9/seqminer/man/annotateGene.Rd | 3 seqminer-5.9/seqminer/man/annotatePlain.Rd | 3 seqminer-5.9/seqminer/man/annotateVcf.Rd | 3 seqminer-5.9/seqminer/man/download.annotation.resource.Rd | 3 seqminer-5.9/seqminer/man/getCovPair.Rd | 3 seqminer-5.9/seqminer/man/getRefBase.Rd | 3 seqminer-5.9/seqminer/man/hasIndex.Rd | 3 seqminer-5.9/seqminer/man/isDirWritable.Rd | 3 seqminer-5.9/seqminer/man/isInRange.Rd | 3 seqminer-5.9/seqminer/man/isTabixRange.Rd | 3 seqminer-5.9/seqminer/man/isURL.Rd | 3 seqminer-5.9/seqminer/man/makeAnnotationParameter.Rd | 3 seqminer-5.9/seqminer/man/newJob.Rd | 3 seqminer-5.9/seqminer/man/newWorkflow.Rd | 3 seqminer-5.9/seqminer/man/readVCFToListByGene.Rd | 3 seqminer-5.9/seqminer/man/readVCFToListByRange.Rd | 3 seqminer-5.9/seqminer/man/readVCFToMatrixByGene.Rd | 3 seqminer-5.9/seqminer/man/readVCFToMatrixByRange.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.readCovByRange.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.readDataByGene.Rd | 8 seqminer-5.9/seqminer/man/rvmeta.readDataByRange.Rd | 7 seqminer-5.9/seqminer/man/rvmeta.readNullModel.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.readScoreByRange.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.readSkewByRange.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.writeCovData.Rd | 3 seqminer-5.9/seqminer/man/rvmeta.writeScoreData.Rd | 3 seqminer-5.9/seqminer/man/tabix.createIndex.Rd | 3 seqminer-5.9/seqminer/man/tabix.createIndex.meta.Rd | 3 seqminer-5.9/seqminer/man/tabix.createIndex.vcf.Rd | 3 seqminer-5.9/seqminer/man/tabix.read.Rd | 11 seqminer-5.9/seqminer/man/tabix.read.header.Rd | 3 seqminer-5.9/seqminer/man/tabix.read.table.Rd | 3 seqminer-5.9/seqminer/man/validateAnnotationParameter.Rd | 3 seqminer-5.9/seqminer/man/verifyFilename.Rd | 3 seqminer-5.9/seqminer/man/writeWorkflow.Rd | 3 seqminer-5.9/seqminer/src/R_CPP_interface.cpp | 206 +++++++----- seqminer-5.9/seqminer/src/R_CPP_interface.h | 1 seqminer-5.9/seqminer/src/RangeList.cpp | 2 seqminer-5.9/seqminer/src/rvMetaLoader.cpp | 231 +++++++++----- seqminer-5.9/seqminer/src/rvMetaLoader.h | 8 seqminer-5.9/seqminer/src/seqminer.c | 21 - seqminer-5.9/seqminer/src/seqminer_init.c |only seqminer-5.9/seqminer/tests/testthat |only seqminer-5.9/seqminer/tests/testthat.R |only 55 files changed, 485 insertions(+), 318 deletions(-)
Title: Partial Autoregression
Description: A time series is said to be partially autoregressive if it can be represented as a sum of a random walk and an autoregressive sequence without unit roots. This package fits partially autoregressive time series, where the autoregressive component is AR(1). This may be of use in modeling certain financial time series.
Author: Matthew Clegg [aut, cre, cph]
Maintainer: Matthew Clegg <matthewcleggphd@gmail.com>
Diff between partialAR versions 1.0.5 dated 2015-02-04 and 1.0.10 dated 2017-04-18
DESCRIPTION | 16 ++++++++-------- MD5 | 5 +++-- NAMESPACE | 34 +++++++++++++++++++++++++++++++--- src/registerDynamicSymbol.c |only 4 files changed, 42 insertions(+), 13 deletions(-)
Title: A Generalization of the Dirichlet Distribution
Description: A suite of routines for the hyperdirichlet distribution.
Author: Robin K.S. Hankin
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between hyperdirichlet versions 1.4-9 dated 2013-12-10 and 1.5-0 dated 2017-04-18
DESCRIPTION | 12 ++++++------ MD5 | 34 +++++++++++++++++----------------- NAMESPACE | 2 ++ build/vignette.rds |binary data/doubles.rda |binary data/paulino.rda |binary data/pollen.rda |binary data/serum.rda |binary data/volleyball.rda |binary inst/doc/correspondence.R | 2 +- inst/doc/correspondence.Rnw | 24 ++++++++++-------------- inst/doc/correspondence.pdf |binary inst/doc/hyperdirichlet.R | 4 ++-- inst/doc/hyperdirichlet.Rnw | 10 ++++------ inst/doc/hyperdirichlet.pdf |binary vignettes/correspondence.Rnw | 24 ++++++++++-------------- vignettes/hyperdirichlet.Rnw | 10 ++++------ vignettes/hyperdirichlet.bib | 32 +++++++++++++++++++++++--------- 18 files changed, 79 insertions(+), 75 deletions(-)
More information about hyperdirichlet at CRAN
Permanent link
Title: Analysis of Geostatistical Count Data using Gaussian Copulas
Description: Provides a variety of functions to analyze and model
geostatistical count data with Gaussian copulas, including
1) data simulation and visualization;
2) correlation structure assessment (here also known as the Normal To Anything);
3) calculate multivariate normal rectangle probabilities;
4) likelihood inference and parallel prediction at predictive locations.
Author: Zifei Han
Maintainer: Zifei Han <hanzifei1@gmail.com>
Diff between gcKrig versions 1.0.1 dated 2016-12-07 and 1.0.2 dated 2017-04-18
DESCRIPTION | 13 +- MD5 | 33 +++---- NAMESPACE | 4 R/Plotgc.R |only R/S3Methods.R | 10 +- R/TwoMethods.R | 248 +++++++++++++++++++++++++++--------------------------- R/gcgcClass.R | 4 R/predGHK.R | 53 +++++++---- R/predGQT.R | 46 ++++++---- R/simFHUB.R | 8 - data/Weed95.RData |binary inst |only man/Plotgc.Rd |only man/Weed95.Rd | 77 ++++++++-------- man/beta.gc1.Rd | 4 man/corrTG.Rd | 91 ++++++++++--------- man/plotsimgc.Rd | 2 man/predgc.Rd | 17 ++- src/gcgcFun.cpp | 5 - 19 files changed, 332 insertions(+), 283 deletions(-)
Title: Bayesian Ordination and Regression AnaLysis
Description: Bayesian approaches for analyzing multivariate data in ecology. Estimation is performed using Markov Chain Monte Carlo (MCMC) methods via JAGS. Three types of models may be fitted: 1) With explanatory variables only, boral fits independent column Generalized Linear Models (GLMs) to each column of the response matrix; 2) With latent variables only, boral fits a purely latent variable model for model-based unconstrained ordination; 3) With explanatory and latent variables, boral fits correlated column GLMs with latent variables to account for any residual correlation between the columns of the response matrix.
Author: Francis K.C. Hui
Maintainer: Francis Hui <fhui28@gmail.com>
Diff between boral versions 1.3 dated 2017-04-15 and 1.3.1 dated 2017-04-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/auxilaryfunctions.R | 2 +- R/boral.jags.R | 4 +++- 4 files changed, 11 insertions(+), 9 deletions(-)