Title: A General-Purpose Package for Dynamic Report Generation in R
Description: Provides a general-purpose tool for dynamic report generation in R
using Literate Programming techniques.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Adam Vogt [ctb],
Alastair Andrew [ctb],
Alex Zvoleff [ctb],
Andre Simon [ctb] (the CSS files under inst/themes/ were derived from
the Highlight package http://www.andre-simon.de),
Aron Atkins [ctb],
Aaron Wolen [ctb],
Ashley Manton [ctb],
Ben Baumer [ctb],
Brian Diggs [ctb],
Brian Zhang [ctb],
Cassio Pereira [ctb],
Christophe Dervieux [ctb],
David Hugh-Jones [ctb],
David Robinson [ctb],
Donald Arseneau [ctb, cph] (the framed package at inst/misc/framed.sty),
Doug Hemken [ctb],
Duncan Murdoch [ctb],
Elio Campitelli [ctb],
Fabian Hirschmann [ctb],
Fitch Simeon [ctb],
Forest Fang [ctb],
Frank E Harrell Jr [ctb] (the Sweavel package at inst/misc/Sweavel.sty),
Garrick Aden-Buie [ctb],
Gregoire Detrez [ctb],
Hadley Wickham [ctb],
Hao Zhu [ctb],
Heewon Jeon [ctb],
Henrik Bengtsson [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
Hodges Daniel [ctb],
Jake Burkhead [ctb],
James Manton [ctb],
Jared Lander [ctb],
Jason Punyon [ctb],
Javier Luraschi [ctb],
Jeff Arnold [ctb],
Jenny Bryan [ctb],
Jeremy Ashkenas [ctb, cph] (the CSS file at
inst/misc/docco-classic.css),
Jeremy Stephens [ctb],
Jim Hester [ctb],
Joe Cheng [ctb],
Johannes Ranke [ctb],
John Honaker [ctb],
John Muschelli [ctb],
Jonathan Keane [ctb],
JJ Allaire [ctb],
Johan Toloe [ctb],
Jonathan Sidi [ctb],
Joseph Larmarange [ctb],
Julien Barnier [ctb],
Kaiyin Zhong [ctb],
Kamil Slowikowski [ctb],
Karl Forner [ctb],
Kevin K. Smith [ctb],
Kirill Mueller [ctb],
Kohske Takahashi [ctb],
Lorenz Walthert [ctb],
Lucas Gallindo [ctb],
Martin Modrák [ctb],
Michael Chirico [ctb],
Michael Friendly [ctb],
Michal Bojanowski [ctb],
Michel Kuhlmann [ctb],
Nacho Caballero [ctb],
Nick Salkowski [ctb],
Noam Ross [ctb],
Obada Mahdi [ctb],
Qiang Li [ctb],
Ramnath Vaidyanathan [ctb],
Richard Cotton [ctb],
Robert Krzyzanowski [ctb],
Romain Francois [ctb],
Ruaridh Williamson [ctb],
Scott Kostyshak [ctb],
Sebastian Meyer [ctb],
Sietse Brouwer [ctb],
Simon de Bernard [ctb],
Sylvain Rousseau [ctb],
Taiyun Wei [ctb],
Thibaut Assus [ctb],
Thibaut Lamadon [ctb],
Thomas Leeper [ctb],
Tim Mastny [ctb],
Tom Torsney-Weir [ctb],
Trevor Davis [ctb],
Viktoras Veitas [ctb],
Weicheng Zhu [ctb],
Wush Wu [ctb],
Zachary Foster [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between knitr versions 1.20 dated 2018-02-20 and 1.21 dated 2018-12-10
knitr-1.20/knitr/inst/NEWS.Rd |only knitr-1.20/knitr/tools |only knitr-1.21/knitr/DESCRIPTION | 27 - knitr-1.21/knitr/MD5 | 92 ++- knitr-1.21/knitr/NAMESPACE | 14 knitr-1.21/knitr/NEWS.md |only knitr-1.21/knitr/R/block.R | 40 + knitr-1.21/knitr/R/citation.R | 2 knitr-1.21/knitr/R/defaults.R | 5 knitr-1.21/knitr/R/engine.R | 89 ++- knitr-1.21/knitr/R/highlight.R | 2 knitr-1.21/knitr/R/hooks-html.R | 51 +- knitr-1.21/knitr/R/hooks-latex.R | 5 knitr-1.21/knitr/R/hooks-md.R | 15 knitr-1.21/knitr/R/output.R | 11 knitr-1.21/knitr/R/package.R | 14 knitr-1.21/knitr/R/pandoc.R | 4 knitr-1.21/knitr/R/params.R | 4 knitr-1.21/knitr/R/plot.R | 2 knitr-1.21/knitr/R/spin.R | 68 ++ knitr-1.21/knitr/R/table.R | 8 knitr-1.21/knitr/R/template.R | 6 knitr-1.21/knitr/R/utils-conversion.R | 6 knitr-1.21/knitr/R/utils-upload.R | 8 knitr-1.21/knitr/R/utils-vignettes.R | 15 knitr-1.21/knitr/R/utils.R | 89 +-- knitr-1.21/knitr/README.md | 52 +- knitr-1.21/knitr/build/vignette.rds |binary knitr-1.21/knitr/inst/doc/knit_expand.html | 4 knitr-1.21/knitr/inst/doc/knit_print.R | 10 knitr-1.21/knitr/inst/doc/knit_print.Rmd | 25 - knitr-1.21/knitr/inst/doc/knit_print.html | 578 ++++++++++++++++++------- knitr-1.21/knitr/inst/doc/knitr-html.html | 8 knitr-1.21/knitr/inst/doc/knitr-intro.html | 378 +++++++++++++--- knitr-1.21/knitr/inst/doc/knitr-markdown.html | 2 knitr-1.21/knitr/inst/doc/knitr-refcard.pdf |binary knitr-1.21/knitr/inst/examples/knitr-spin.Rmd | 1 knitr-1.21/knitr/inst/examples/knitr-spin.html | 2 knitr-1.21/knitr/inst/misc/knitr.css | 8 knitr-1.21/knitr/man/cache_engines.Rd |only knitr-1.21/knitr/man/hook_animation.Rd | 8 knitr-1.21/knitr/man/kable.Rd | 2 knitr-1.21/knitr/man/knit_print.Rd | 6 knitr-1.21/knitr/man/knitr-package.Rd | 8 knitr-1.21/knitr/man/raw_block.Rd |only knitr-1.21/knitr/man/spin.Rd | 20 knitr-1.21/knitr/tests/testit/test-spin.R |only knitr-1.21/knitr/tests/testit/test-table.R | 15 knitr-1.21/knitr/tests/testit/test-utils.R | 19 knitr-1.21/knitr/vignettes/knit_print.Rmd | 25 - 50 files changed, 1258 insertions(+), 490 deletions(-)
Title: A Pipeline Toolkit for Reproducible Computation at Scale
Description: A general-purpose computational engine for data analysis,
drake rebuilds intermediate data objects when their dependencies change,
and it skips work when the results are already up to date.
Not every execution starts from scratch,
there is native support for parallel and distributed computing,
and completed projects have tangible evidence
that they are reproducible.
Extensive documentation, from beginner-friendly tutorials
to practical examples and more, is available at the reference website
<https://ropensci.github.io/drake/> and the online manual
<https://ropenscilabs.github.io/drake-manual/>.
Author: William Michael Landau [aut, cre]
(<https://orcid.org/0000-0003-1878-3253>),
Alex Axthelm [ctb],
Jasper Clarkberg [ctb],
Kirill Müller [ctb],
Ben Marwick [rev],
Peter Slaughter [rev],
Ben Bond-Lamberty [ctb] (<https://orcid.org/0000-0001-9525-4633>),
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between drake versions 6.1.0 dated 2018-10-26 and 6.2.1 dated 2018-12-10
drake-6.1.0/drake/R/build_drake_graph.R |only drake-6.1.0/drake/R/tidyselect_reexport.R |only drake-6.1.0/drake/man/prune_envir.Rd |only drake-6.1.0/drake/man/reexports.Rd |only drake-6.2.1/drake/DESCRIPTION | 34 drake-6.2.1/drake/MD5 | 424 ++++---- drake-6.2.1/drake/NAMESPACE | 74 - drake-6.2.1/drake/NEWS.md | 39 drake-6.2.1/drake/R/Makefile.R | 64 - drake-6.2.1/drake/R/attempt.R | 4 drake-6.2.1/drake/R/build.R | 73 - drake-6.2.1/drake/R/build_times.R | 61 - drake-6.2.1/drake/R/cache.R | 171 +-- drake-6.2.1/drake/R/cache_log.R | 25 drake-6.2.1/drake/R/cache_namespaces.R | 36 drake-6.2.1/drake/R/cache_ui.R | 74 - drake-6.2.1/drake/R/check.R | 72 - drake-6.2.1/drake/R/checksums.R | 42 drake-6.2.1/drake/R/clean.R | 94 + drake-6.2.1/drake/R/clustermq.R | 73 - drake-6.2.1/drake/R/code_analysis.R |only drake-6.2.1/drake/R/code_to_plan.R | 61 - drake-6.2.1/drake/R/color.R | 10 drake-6.2.1/drake/R/commands.R | 101 -- drake-6.2.1/drake/R/config.R | 204 ++-- drake-6.2.1/drake/R/console.R | 168 +-- drake-6.2.1/drake/R/create_drake_graph.R |only drake-6.2.1/drake/R/create_drake_layout.R |only drake-6.2.1/drake/R/dependencies.R | 386 +------ drake-6.2.1/drake/R/deprecate.R | 484 ++++++---- drake-6.2.1/drake/R/diagnose.R | 21 drake-6.2.1/drake/R/distributed.R | 23 drake-6.2.1/drake/R/drake_debug.R | 46 drake-6.2.1/drake/R/drake_graph_info.R | 48 drake-6.2.1/drake/R/drake_graph_info_utils.R | 173 +-- drake-6.2.1/drake/R/drake_plan.R | 178 +-- drake-6.2.1/drake/R/drake_plan_source.R | 62 - drake-6.2.1/drake/R/envir.R | 118 +- drake-6.2.1/drake/R/examples.R | 138 -- drake-6.2.1/drake/R/expose_imports.R | 20 drake-6.2.1/drake/R/find.R | 10 drake-6.2.1/drake/R/future.R | 120 +- drake-6.2.1/drake/R/future_lapply.R | 8 drake-6.2.1/drake/R/ggraph.R | 6 drake-6.2.1/drake/R/handlers.R | 37 drake-6.2.1/drake/R/hash.R | 26 drake-6.2.1/drake/R/hasty.R | 67 - drake-6.2.1/drake/R/igraph_utils.R | 74 - drake-6.2.1/drake/R/knitr.R | 25 drake-6.2.1/drake/R/loop.R | 4 drake-6.2.1/drake/R/make.R | 117 +- drake-6.2.1/drake/R/map_reduce.R | 197 ++-- drake-6.2.1/drake/R/mc_utils.R | 84 - drake-6.2.1/drake/R/mclapply.R | 32 drake-6.2.1/drake/R/meta.R | 96 - drake-6.2.1/drake/R/outdated.R | 34 drake-6.2.1/drake/R/package.R | 39 drake-6.2.1/drake/R/parLapply.R | 37 drake-6.2.1/drake/R/parallel.R | 38 drake-6.2.1/drake/R/parallel_ui.R | 15 drake-6.2.1/drake/R/predict_runtime.R | 237 +--- drake-6.2.1/drake/R/priority_queue.R | 149 +-- drake-6.2.1/drake/R/progress.R | 81 - drake-6.2.1/drake/R/random.R | 12 drake-6.2.1/drake/R/read.R | 149 +-- drake-6.2.1/drake/R/recipe.R | 13 drake-6.2.1/drake/R/run.R | 89 + drake-6.2.1/drake/R/sanitize.R | 29 drake-6.2.1/drake/R/sankey_drake_graph.R | 8 drake-6.2.1/drake/R/session.R |only drake-6.2.1/drake/R/shape.R | 2 drake-6.2.1/drake/R/staged.R | 109 +- drake-6.2.1/drake/R/store.R | 37 drake-6.2.1/drake/R/strings.R | 24 drake-6.2.1/drake/R/subspace.R | 22 drake-6.2.1/drake/R/test.R | 108 +- drake-6.2.1/drake/R/test_scenarios.R | 27 drake-6.2.1/drake/R/timestamp.R | 28 drake-6.2.1/drake/R/tips.R | 14 drake-6.2.1/drake/R/triggers.R | 96 - drake-6.2.1/drake/R/utils.R | 247 +++-- drake-6.2.1/drake/R/vis_drake_graph.R | 24 drake-6.2.1/drake/R/wildcards.R | 199 ++-- drake-6.2.1/drake/R/withr.R |only drake-6.2.1/drake/R/zzz.R | 6 drake-6.2.1/drake/build/vignette.rds |binary drake-6.2.1/drake/inst/WORDLIST | 29 drake-6.2.1/drake/inst/doc/drake.Rmd | 7 drake-6.2.1/drake/inst/doc/drake.html | 431 +++----- drake-6.2.1/drake/inst/hpc_template_files/lsf_batchtools.tmpl |only drake-6.2.1/drake/inst/hpc_template_files/sge_batchtools.tmpl | 9 drake-6.2.1/drake/man/backend.Rd | 15 drake-6.2.1/drake/man/bind_plans.Rd | 4 drake-6.2.1/drake/man/build_drake_graph.Rd | 69 - drake-6.2.1/drake/man/build_graph.Rd | 67 + drake-6.2.1/drake/man/build_times.Rd | 20 drake-6.2.1/drake/man/built.Rd | 12 drake-6.2.1/drake/man/cached.Rd | 14 drake-6.2.1/drake/man/check_plan.Rd | 12 drake-6.2.1/drake/man/clean.Rd | 22 drake-6.2.1/drake/man/clean_main_example.Rd | 26 drake-6.2.1/drake/man/code_to_plan.Rd | 6 drake-6.2.1/drake/man/configure_cache.Rd | 12 drake-6.2.1/drake/man/debug_and_run.Rd | 4 drake-6.2.1/drake/man/default_Makefile_args.Rd | 12 drake-6.2.1/drake/man/default_graph_title.Rd | 2 drake-6.2.1/drake/man/default_hasty_build.Rd |only drake-6.2.1/drake/man/default_verbose.Rd | 2 drake-6.2.1/drake/man/dependency_profile.Rd | 2 drake-6.2.1/drake/man/deps_code.Rd | 6 drake-6.2.1/drake/man/deps_target.Rd | 2 drake-6.2.1/drake/man/diagnose.Rd | 23 drake-6.2.1/drake/man/drake-package.Rd | 10 drake-6.2.1/drake/man/drake_build.Rd | 2 drake-6.2.1/drake/man/drake_cache_log.Rd | 12 drake-6.2.1/drake/man/drake_cache_log_file.Rd | 12 drake-6.2.1/drake/man/drake_config.Rd | 148 +-- drake-6.2.1/drake/man/drake_debug.Rd | 8 drake-6.2.1/drake/man/drake_envir.Rd |only drake-6.2.1/drake/man/drake_gc.Rd | 12 drake-6.2.1/drake/man/drake_get_session_info.Rd |only drake-6.2.1/drake/man/drake_graph_info.Rd | 7 drake-6.2.1/drake/man/drake_hpc_template_files.Rd | 2 drake-6.2.1/drake/man/drake_plan.Rd | 24 drake-6.2.1/drake/man/drake_plan_source.Rd | 9 drake-6.2.1/drake/man/drake_quotes.Rd | 2 drake-6.2.1/drake/man/drake_session.Rd | 34 drake-6.2.1/drake/man/drake_strings.Rd | 2 drake-6.2.1/drake/man/drake_unquote.Rd | 4 drake-6.2.1/drake/man/eager_load_target.Rd | 12 drake-6.2.1/drake/man/evaluate_plan.Rd | 54 - drake-6.2.1/drake/man/expand_plan.Rd | 10 drake-6.2.1/drake/man/expose_imports.Rd | 8 drake-6.2.1/drake/man/failed.Rd | 14 drake-6.2.1/drake/man/gather_by.Rd | 16 drake-6.2.1/drake/man/gather_plan.Rd | 4 drake-6.2.1/drake/man/get_cache.Rd | 30 drake-6.2.1/drake/man/ignore.Rd | 2 drake-6.2.1/drake/man/imported.Rd | 12 drake-6.2.1/drake/man/in_progress.Rd | 14 drake-6.2.1/drake/man/load_basic_example.Rd | 3 drake-6.2.1/drake/man/load_main_example.Rd | 37 drake-6.2.1/drake/man/load_mtcars_example.Rd | 11 drake-6.2.1/drake/man/long_hash.Rd | 12 drake-6.2.1/drake/man/make.Rd | 150 +-- drake-6.2.1/drake/man/manage_memory.Rd |only drake-6.2.1/drake/man/map_plan.Rd | 15 drake-6.2.1/drake/man/new_cache.Rd | 26 drake-6.2.1/drake/man/outdated.Rd | 2 drake-6.2.1/drake/man/plan_analyses.Rd | 9 drake-6.2.1/drake/man/plan_summaries.Rd | 9 drake-6.2.1/drake/man/plan_to_code.Rd | 6 drake-6.2.1/drake/man/plan_to_notebook.Rd | 6 drake-6.2.1/drake/man/plot_graph.Rd | 2 drake-6.2.1/drake/man/predict_load_balancing.Rd | 12 drake-6.2.1/drake/man/predict_runtime.Rd | 12 drake-6.2.1/drake/man/progress.Rd | 14 drake-6.2.1/drake/man/prune_drake_graph.Rd | 6 drake-6.2.1/drake/man/read_drake_config.Rd | 12 drake-6.2.1/drake/man/read_drake_graph.Rd | 12 drake-6.2.1/drake/man/read_drake_plan.Rd | 12 drake-6.2.1/drake/man/read_drake_seed.Rd | 18 drake-6.2.1/drake/man/readd.Rd | 39 drake-6.2.1/drake/man/recover_cache.Rd | 26 drake-6.2.1/drake/man/reduce_by.Rd | 15 drake-6.2.1/drake/man/reduce_plan.Rd | 8 drake-6.2.1/drake/man/remote_hasty_build.Rd | 2 drake-6.2.1/drake/man/render_graph.Rd | 2 drake-6.2.1/drake/man/rescue_cache.Rd | 16 drake-6.2.1/drake/man/session.Rd | 16 drake-6.2.1/drake/man/short_hash.Rd | 12 drake-6.2.1/drake/man/show_source.Rd | 2 drake-6.2.1/drake/man/summaries.Rd | 2 drake-6.2.1/drake/man/target.Rd | 16 drake-6.2.1/drake/man/test_with_dir.Rd | 2 drake-6.2.1/drake/man/this_cache.Rd | 31 drake-6.2.1/drake/man/tracked.Rd | 2 drake-6.2.1/drake/man/trigger.Rd | 6 drake-6.2.1/drake/tests/scenarios/all.Rout | 6 drake-6.2.1/drake/tests/scenarios/one.R | 2 drake-6.2.1/drake/tests/scenarios/results.sh |only drake-6.2.1/drake/tests/testthat/test-Makefile.R | 32 drake-6.2.1/drake/tests/testthat/test-always-skipped.R | 12 drake-6.2.1/drake/tests/testthat/test-cache.R | 91 + drake-6.2.1/drake/tests/testthat/test-clustermq.R | 12 drake-6.2.1/drake/tests/testthat/test-command-changes.R | 20 drake-6.2.1/drake/tests/testthat/test-custom-caches.R | 4 drake-6.2.1/drake/tests/testthat/test-dbi-cache.R | 2 drake-6.2.1/drake/tests/testthat/test-dependencies.R | 47 drake-6.2.1/drake/tests/testthat/test-deprecate.R | 105 +- drake-6.2.1/drake/tests/testthat/test-edge-cases.R | 16 drake-6.2.1/drake/tests/testthat/test-envir.R | 133 ++ drake-6.2.1/drake/tests/testthat/test-examples.R | 81 - drake-6.2.1/drake/tests/testthat/test-expose-imports.R | 4 drake-6.2.1/drake/tests/testthat/test-full-build.R | 2 drake-6.2.1/drake/tests/testthat/test-future.R | 6 drake-6.2.1/drake/tests/testthat/test-graph.R | 50 - drake-6.2.1/drake/tests/testthat/test-hash.R | 2 drake-6.2.1/drake/tests/testthat/test-hasty.R | 61 - drake-6.2.1/drake/tests/testthat/test-import-object.R | 10 drake-6.2.1/drake/tests/testthat/test-intermediate-file.R | 13 drake-6.2.1/drake/tests/testthat/test-knitr.R | 14 drake-6.2.1/drake/tests/testthat/test-lazy-load.R | 11 drake-6.2.1/drake/tests/testthat/test-map-reduce.R | 85 + drake-6.2.1/drake/tests/testthat/test-memory-cache.R | 19 drake-6.2.1/drake/tests/testthat/test-namespaced.R | 29 drake-6.2.1/drake/tests/testthat/test-other-features.R | 6 drake-6.2.1/drake/tests/testthat/test-parallel.R | 6 drake-6.2.1/drake/tests/testthat/test-plans.R | 74 - drake-6.2.1/drake/tests/testthat/test-priority-queue.R | 70 - drake-6.2.1/drake/tests/testthat/test-random.R | 12 drake-6.2.1/drake/tests/testthat/test-retry.R | 12 drake-6.2.1/drake/tests/testthat/test-testing.R | 45 drake-6.2.1/drake/tests/testthat/test-tidy-eval.R | 6 drake-6.2.1/drake/tests/testthat/test-time.R | 62 - drake-6.2.1/drake/tests/testthat/test-triggers.R | 56 - drake-6.2.1/drake/tests/testthat/test-utils.R |only drake-6.2.1/drake/tests/testthat/test-visuals.R | 10 drake-6.2.1/drake/tests/testthat/test-wildcards.R | 134 ++ drake-6.2.1/drake/tests/testthat/test-with-processx.R | 4 drake-6.2.1/drake/vignettes/drake.Rmd | 7 221 files changed, 5050 insertions(+), 4555 deletions(-)
Title: Cancer Registry Data Analysis and Visualisation
Description: Tools for basic and advance cancer statistics and graphics.
Calculates age-specific rate, age-standardized rate, estimated annual
percentage rate with standards error. Creates graphics across variable and
time, such as age-specific trends and period-cohort trends.
Author: Mathieu Laversanne [aut, cre],
Cancer Surveillance Unit [cph]
Maintainer: Mathieu Laversanne <laversannem@iarc.fr>
Diff between Rcan versions 1.3.61 dated 2018-10-16 and 1.3.62 dated 2018-12-10
DESCRIPTION | 12 +++++------ MD5 | 10 ++++----- R/helper.r | 43 +++++++++++++++++++++++++++++----------- build/partial.rdb |binary inst/testdata/csu_asr_test1.rds |binary tests/testthat/test-Rcan.R | 37 +++++++++++++++++----------------- 6 files changed, 62 insertions(+), 40 deletions(-)
Title: Meta-Analysis of Studies with Non-Statistically Significant
Unreported Effects
Description: Novel method to unbiasedly include studies with Non-statistically Significant Unreported Effects (NSUEs) in a meta-analysis <doi:10.1001/jamapsychiatry.2015.2196> and <doi:10.1177/0962280218811349>. Briefly, the method first calculates the interval where the unreported effects (e.g. t-values) should be according to the threshold of statistical significance used in each study. Afterwards, maximum likelihood techniques are used to impute the expected effect size of each study with NSUEs, accounting for between-study heterogeneity and potential covariates. Multiple imputations of the NSUEs are then randomly created based on the expected value, variance and statistical significance bounds. Finally, a restricted-maximum likelihood random-effects meta-analysis is separately conducted for each set of imputations, and estimations from these meta-analyses are pooled. Please read the reference in 'metansue' for details of the procedure.
Author: Joaquim Radua
Maintainer: Joaquim Radua <radua@clinic.cat>
Diff between metansue versions 2.2 dated 2018-07-11 and 2.3 dated 2018-12-10
DESCRIPTION | 15 +++++++-------- MD5 | 22 +++++++++++----------- NAMESPACE | 22 +++++++++++----------- NEWS | 8 ++++++++ R/source.R | 6 +++--- inst/CITATION | 51 +++++++++++++++++++++++++++++++-------------------- man/forest.Rd | 2 +- man/funnel.Rd | 2 +- man/leave1out.Rd | 8 ++++++-- man/meta.Rd | 10 +++++++--- man/metabias.Rd | 9 +++++++-- man/nsue.Rd | 12 ++++++++---- 12 files changed, 101 insertions(+), 66 deletions(-)
Title: Depth-Based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely non-parametric, in particular the DDalpha-procedure (Lange, Mosler and Mozharovskyi, 2014 <doi:10.1007/s00362-012-0488-4>). The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre],
Pavlo Mozharovskyi [aut],
Rainer Dyckerhoff [aut],
Stanislav Nagy [aut]
Maintainer: Oleksii Pokotylo <alexey.pokotylo@gmail.com>
Diff between ddalpha versions 1.3.4 dated 2018-06-23 and 1.3.7 dated 2018-12-10
ddalpha-1.3.4/ddalpha/R/depth.fd.r |only ddalpha-1.3.4/ddalpha/R/dknn.r |only ddalpha-1.3.4/ddalpha/R/getdata.r |only ddalpha-1.3.7/ddalpha/DESCRIPTION | 8 ddalpha-1.3.7/ddalpha/MD5 | 150 ddalpha-1.3.7/ddalpha/R/compclassf.r | 806 ++-- ddalpha-1.3.7/ddalpha/R/ddalpha-internal.r | 31 ddalpha-1.3.7/ddalpha/R/ddalpha.train.r | 974 ++--- ddalpha-1.3.7/ddalpha/R/ddalphaf.r | 1894 +++++------ ddalpha-1.3.7/ddalpha/R/depth.L2.r | 60 ddalpha-1.3.7/ddalpha/R/depth.betaSkeleton.r | 101 ddalpha-1.3.7/ddalpha/R/depth.contours.r | 664 +-- ddalpha-1.3.7/ddalpha/R/depth.fd.R |only ddalpha-1.3.7/ddalpha/R/depth.qhpeeling.r | 127 ddalpha-1.3.7/ddalpha/R/dknn.R |only ddalpha-1.3.7/ddalpha/R/draw.ddplot.r | 183 - ddalpha-1.3.7/ddalpha/R/getdata.R |only ddalpha-1.3.7/ddalpha/R/routines.r | 101 ddalpha-1.3.7/ddalpha/data/baby.txt.gz |binary ddalpha-1.3.7/ddalpha/data/banknoten.txt.gz |binary ddalpha-1.3.7/ddalpha/data/biomed.txt.gz |binary ddalpha-1.3.7/ddalpha/data/bloodtransfusion.txt.gz |binary ddalpha-1.3.7/ddalpha/data/breast_cancer_wisconsin.txt.gz |binary ddalpha-1.3.7/ddalpha/data/bupa.txt.gz |binary ddalpha-1.3.7/ddalpha/data/chemdiab_1vs2.txt.gz |binary ddalpha-1.3.7/ddalpha/data/chemdiab_1vs3.txt.gz |binary ddalpha-1.3.7/ddalpha/data/chemdiab_2vs3.txt.gz |binary ddalpha-1.3.7/ddalpha/data/cloud.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crabB_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crabF_BvsO.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crabM_BvsO.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crabO_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crab_BvsO.txt.gz |binary ddalpha-1.3.7/ddalpha/data/crab_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/cricket_CvsP.txt.gz |binary ddalpha-1.3.7/ddalpha/data/diabetes.txt.gz |binary ddalpha-1.3.7/ddalpha/data/ecoli_cpvsim.txt.gz |binary ddalpha-1.3.7/ddalpha/data/ecoli_cpvspp.txt.gz |binary ddalpha-1.3.7/ddalpha/data/ecoli_imvspp.txt.gz |binary ddalpha-1.3.7/ddalpha/data/gemsen_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/glass.txt.gz |binary ddalpha-1.3.7/ddalpha/data/groessen_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/haberman.txt.gz |binary ddalpha-1.3.7/ddalpha/data/heart.txt.gz |binary ddalpha-1.3.7/ddalpha/data/hemophilia.txt.gz |binary ddalpha-1.3.7/ddalpha/data/indian_liver_patient_1vs2.txt.gz |binary ddalpha-1.3.7/ddalpha/data/indian_liver_patient_FvsM.txt.gz |binary ddalpha-1.3.7/ddalpha/data/iris_setosavsversicolor.txt.gz |binary ddalpha-1.3.7/ddalpha/data/iris_setosavsvirginica.txt.gz |binary ddalpha-1.3.7/ddalpha/data/iris_versicolorvsvirginica.txt.gz |binary ddalpha-1.3.7/ddalpha/data/irish_ed_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/kidney.txt.gz |binary ddalpha-1.3.7/ddalpha/data/pima.txt.gz |binary ddalpha-1.3.7/ddalpha/data/plasma_retinol_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/segmentation.txt.gz |binary ddalpha-1.3.7/ddalpha/data/socmob_IvsNI.txt.gz |binary ddalpha-1.3.7/ddalpha/data/socmob_WvsB.txt.gz |binary ddalpha-1.3.7/ddalpha/data/tae.txt.gz |binary ddalpha-1.3.7/ddalpha/data/tennis_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/tips_DvsN.txt.gz |binary ddalpha-1.3.7/ddalpha/data/tips_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/uscrime_SvsN.txt.gz |binary ddalpha-1.3.7/ddalpha/data/vertebral_column.txt.gz |binary ddalpha-1.3.7/ddalpha/data/veteran_lung_cancer.txt.gz |binary ddalpha-1.3.7/ddalpha/data/vowel_MvsF.txt.gz |binary ddalpha-1.3.7/ddalpha/data/wine_1vs2.txt.gz |binary ddalpha-1.3.7/ddalpha/data/wine_1vs3.txt.gz |binary ddalpha-1.3.7/ddalpha/data/wine_2vs3.txt.gz |binary ddalpha-1.3.7/ddalpha/man/L2metric.Rd | 6 ddalpha-1.3.7/ddalpha/man/ddalpha-package.Rd | 4 ddalpha-1.3.7/ddalpha/man/ddalpha.train.Rd | 6 ddalpha-1.3.7/ddalpha/man/depth..Rd | 217 - ddalpha-1.3.7/ddalpha/man/depthf.ABD.Rd | 2 ddalpha-1.3.7/ddalpha/man/depthf.fd1.Rd | 2 ddalpha-1.3.7/ddalpha/man/depthf.fd2.Rd | 2 ddalpha-1.3.7/ddalpha/man/draw.ddplot.Rd | 5 ddalpha-1.3.7/ddalpha/man/infimalRank.Rd | 2 ddalpha-1.3.7/ddalpha/man/shape.fd.analysis.Rd | 2 ddalpha-1.3.7/ddalpha/man/shape.fd.outliers.Rd | 2 79 files changed, 2798 insertions(+), 2551 deletions(-)
Title: Access Data from the Oregon State Prism Climate Project
Description: Allows users to access the Oregon State Prism climate data. Using
the web service API data can easily downloaded in bulk and loaded into R for
spatial analysis. Some user friendly visualizations are also provided.
Author: Hart Edmund [aut, ccp],
Kendon Bell [aut],
Alan Butler [ctb, cre]
Maintainer: Alan Butler <rabutler@usbr.gov>
Diff between prism versions 0.0.7 dated 2015-11-16 and 0.1.0 dated 2018-12-10
DESCRIPTION | 34 +-- LICENSE | 2 MD5 | 91 +++++--- NAMESPACE | 50 ++-- NEWS.md |only R/check_corrupt.R |only R/del_early_prov.R |only R/get_prism_annual.R | 197 ++++++++++-------- R/get_prism_dailys.R | 131 +++++++----- R/get_prism_monthlys.R | 241 +++++++++++----------- R/get_prism_normals.R | 98 ++++----- R/global_variables.R |only R/ls_prism_data.R | 84 +++---- R/prism_image.R | 76 +++---- R/prism_md.R | 176 ++++++++-------- R/prism_slice.R | 100 +++++---- R/prism_stack.R | 36 +-- R/prism_station_md.R |only R/prism_webservice.R | 114 +++++----- R/utility_functions.R | 421 ++++++++++++++++++++++++++------------- README.md |only build/vignette.rds |binary inst/CITATION | 20 - inst/doc/prism.Rmd | 24 +- inst/doc/prism.html | 286 +++++++++++++++++++++----- man/check_corrupt.Rd |only man/del_early_prov.Rd |only man/figures |only man/get_metadata.Rd |only man/get_prism_annual.Rd | 69 +++--- man/get_prism_dailys.Rd | 81 ++++--- man/get_prism_monthlys.Rd | 85 +++---- man/get_prism_normals.Rd | 69 +++--- man/get_prism_station_md.Rd |only man/ls_prism_data.Rd | 65 ++---- man/mon_to_string.Rd | 47 ++-- man/path_check.Rd | 23 +- man/pr_parse.Rd | 40 +-- man/prism_check.Rd | 40 ++- man/prism_image.Rd | 55 ++--- man/prism_md.Rd | 40 +-- man/prism_slice.Rd | 65 +++--- man/prism_stack.Rd | 41 +-- man/prism_webservice.Rd | 52 ++-- man/process_zip.Rd | 53 ++-- man/subset_prism_folders.Rd |only tests/testthat/prism_test |only tests/testthat/test-station_md.R |only tests/testthat/test_gen_dates.R |only tests/testthat/testdownloads.R | 122 +++++------ vignettes/prism.Rmd | 24 +- 51 files changed, 1833 insertions(+), 1319 deletions(-)
Title: Item Response Models for Multiple Ratings
Description: Implements some item response models for multiple
ratings, including the hierarchical rater model,
conditional maximum likelihood estimation of linear
logistic partial credit model and a wrapper function
to the commercial FACETS program. See Robitzsch and
Steinfeld (2018) for a description of the functionality
of the package.
See Wang, Su & Qiu (2014; <doi:10.1111/jedm.12045>)
for an overview of modeling alternatives.
Author: Alexander Robitzsch [aut, cre], Jan Steinfeld [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between immer versions 1.0-138 dated 2018-04-24 and 1.1-35 dated 2018-12-10
immer-1.0-138/immer/src/immer_ccml_rcpp.cpp |only immer-1.0-138/immer/src/immer_cml_helper_rcpp.cpp |only immer-1.0-138/immer/src/immer_cmml_pbivnorm_rcpp.cpp |only immer-1.0-138/immer/src/immer_hrm_rcpp.cpp |only immer-1.0-138/immer/src/immer_irt_likelihood_rcpp.cpp |only immer-1.0-138/immer/src/immer_jml_rcpp.cpp |only immer-1.1-35/immer/DESCRIPTION | 15 immer-1.1-35/immer/MD5 | 322 ++--- immer-1.1-35/immer/R/IRT.likelihood.immer_hrm.R | 30 immer-1.1-35/immer/R/IRT.likelihood_immer.R | 20 immer-1.1-35/immer/R/MHprop_hrm.R | 116 +- immer-1.1-35/immer/R/MHprop_refresh.R | 28 immer-1.1-35/immer/R/MHprop_refresh_pars.R | 24 immer-1.1-35/immer/R/MHprop_refresh_parstype.R | 32 immer-1.1-35/immer/R/RcppExports.R | 136 +- immer-1.1-35/immer/R/agree_aicken.R | 52 immer-1.1-35/immer/R/anova_immer.R | 66 - immer-1.1-35/immer/R/coef.immer.R | 6 immer-1.1-35/immer/R/harm_mean.R | 2 immer-1.1-35/immer/R/immer_FACETS.R | 218 +-- immer-1.1-35/immer/R/immer_IRT_likelihood_gpcm_helper.R | 38 immer-1.1-35/immer/R/immer_agree2.R | 194 +-- immer-1.1-35/immer/R/immer_attach_list_elements.R | 10 immer-1.1-35/immer/R/immer_ccml.R | 220 +-- immer-1.1-35/immer/R/immer_ccml_summary_print_ic.R | 16 immer-1.1-35/immer/R/immer_center.R |only immer-1.1-35/immer/R/immer_cml.R | 324 ++--- immer-1.1-35/immer/R/immer_cmml.R | 221 +-- immer-1.1-35/immer/R/immer_cmml_prepare.R | 252 ++-- immer-1.1-35/immer/R/immer_cmml_proc_basispar.R | 104 - immer-1.1-35/immer/R/immer_cmml_proc_parameter_index.R | 18 immer-1.1-35/immer/R/immer_collect_traces.R | 274 ++-- immer-1.1-35/immer/R/immer_convert_factor_data_frame.R | 10 immer-1.1-35/immer/R/immer_create_design_matrix_A.R | 80 - immer-1.1-35/immer/R/immer_create_design_matrix_A_PCM.R | 34 immer-1.1-35/immer/R/immer_create_design_matrix_A_PCM2.R | 76 - immer-1.1-35/immer/R/immer_create_design_matrix_formula.R | 312 ++--- immer-1.1-35/immer/R/immer_csink.R | 4 immer-1.1-35/immer/R/immer_fun_FACETS.R | 6 immer-1.1-35/immer/R/immer_hrm.R | 567 ++++----- immer-1.1-35/immer/R/immer_hrm_simulate.R | 80 - immer-1.1-35/immer/R/immer_hrm_verbose_iterations.R | 32 immer-1.1-35/immer/R/immer_ic_calc.R | 28 immer-1.1-35/immer/R/immer_ic_hrm.R | 32 immer-1.1-35/immer/R/immer_identifiers_relabel.R | 74 - immer-1.1-35/immer/R/immer_install.R | 58 - immer-1.1-35/immer/R/immer_jml.R | 631 +++++------ immer-1.1-35/immer/R/immer_jml_calc_item_intercepts.R | 16 immer-1.1-35/immer/R/immer_jml_calc_loglike.R | 14 immer-1.1-35/immer/R/immer_jml_center_theta.R | 8 immer-1.1-35/immer/R/immer_jml_facets.R |only immer-1.1-35/immer/R/immer_jml_facets_calc_probs.R |only immer-1.1-35/immer/R/immer_jml_facets_proc_data.R |only immer-1.1-35/immer/R/immer_jml_facets_update_main_effects.R |only immer-1.1-35/immer/R/immer_jml_facets_update_step_effects.R |only immer-1.1-35/immer/R/immer_jml_ic.R | 28 immer-1.1-35/immer/R/immer_jml_print_progress_line_search.R | 10 immer-1.1-35/immer/R/immer_jml_proc_shortcut.R | 66 - immer-1.1-35/immer/R/immer_jml_update_item_R.R | 120 +- immer-1.1-35/immer/R/immer_jml_update_item_Rcpp.R | 70 - immer-1.1-35/immer/R/immer_jml_update_theta_R.R | 66 - immer-1.1-35/immer/R/immer_jml_update_theta_Rcpp.R | 50 immer-1.1-35/immer/R/immer_latent_regression.R | 270 ++-- immer-1.1-35/immer/R/immer_matrix2.R | 4 immer-1.1-35/immer/R/immer_matrix_add_names.R | 14 immer-1.1-35/immer/R/immer_mcmc_draw_variance.R | 20 immer-1.1-35/immer/R/immer_opcat.R | 66 - immer-1.1-35/immer/R/immer_osink.R | 4 immer-1.1-35/immer/R/immer_proc_data.R | 120 +- immer-1.1-35/immer/R/immer_prox.R | 94 - immer-1.1-35/immer/R/immer_reshape_wideformat.R | 86 - immer-1.1-35/immer/R/immer_rownorm.R | 4 immer-1.1-35/immer/R/immer_sampling_calc_ratio.R | 16 immer-1.1-35/immer/R/immer_score_person_adjusted.R | 10 immer-1.1-35/immer/R/immer_summary_print_call.R | 6 immer-1.1-35/immer/R/immer_summary_print_computation_time.R | 14 immer-1.1-35/immer/R/immer_summary_print_ic.R | 38 immer-1.1-35/immer/R/immer_summary_print_mcmc_output.R | 20 immer-1.1-35/immer/R/immer_summary_print_objects.R | 10 immer-1.1-35/immer/R/immer_summary_print_package_rsession.R | 2 immer-1.1-35/immer/R/immer_trace.R | 2 immer-1.1-35/immer/R/immer_trim_increment.R | 16 immer-1.1-35/immer/R/immer_unique_patterns.R | 70 - immer-1.1-35/immer/R/immer_vector_add_names.R | 6 immer-1.1-35/immer/R/inits_item_parameters.R | 40 immer-1.1-35/immer/R/inits_raterpars_hrm.R | 22 immer-1.1-35/immer/R/inits_theta_1dim.R | 34 immer-1.1-35/immer/R/lc2_agreement.R | 610 +++++----- immer-1.1-35/immer/R/logLik_immer.R | 50 immer-1.1-35/immer/R/loglik_hrm.R | 122 +- immer-1.1-35/immer/R/lpcm_data_prep.R | 178 +-- immer-1.1-35/immer/R/lpcm_generate_design.R | 210 +-- immer-1.1-35/immer/R/lpcm_inits.R | 46 immer-1.1-35/immer/R/plot.immer_hrm.R | 10 immer-1.1-35/immer/R/prior_hrm.R | 124 +- immer-1.1-35/immer/R/probs2logits.R | 58 - immer-1.1-35/immer/R/probs_gpcm.R | 32 immer-1.1-35/immer/R/probs_gpcm_R.R | 32 immer-1.1-35/immer/R/probs_hrm.R | 18 immer-1.1-35/immer/R/probs_hrm_R.R | 30 immer-1.1-35/immer/R/probs_pcm_one_item.R | 14 immer-1.1-35/immer/R/round_squeeze.R | 12 immer-1.1-35/immer/R/rtrnorm.R | 12 immer-1.1-35/immer/R/sampling_hrm_a.R | 58 - immer-1.1-35/immer/R/sampling_hrm_b.R | 54 immer-1.1-35/immer/R/sampling_hrm_mu_1dim.R | 22 immer-1.1-35/immer/R/sampling_hrm_phi.R | 166 +- immer-1.1-35/immer/R/sampling_hrm_psi.R | 212 +-- immer-1.1-35/immer/R/sampling_hrm_theta_1dim.R | 68 - immer-1.1-35/immer/R/sampling_hrm_xi.R | 28 immer-1.1-35/immer/R/sampling_hrm_xi_item.R | 64 - immer-1.1-35/immer/R/summary.immer_agree2.R | 104 - immer-1.1-35/immer/R/summary.immer_ccml.R | 88 - immer-1.1-35/immer/R/summary.immer_cml.R | 112 - immer-1.1-35/immer/R/summary.immer_hrm.R | 122 +- immer-1.1-35/immer/R/summary.immer_jml.R | 130 +- immer-1.1-35/immer/R/summary.immer_latent_regression.R | 80 - immer-1.1-35/immer/R/summary.lc2_agreement.R | 154 +- immer-1.1-35/immer/R/vcov.immer.R | 6 immer-1.1-35/immer/R/zzz.R | 20 immer-1.1-35/immer/README.md | 5 immer-1.1-35/immer/build |only immer-1.1-35/immer/data/data.immer01a.rda |binary immer-1.1-35/immer/data/data.immer01b.rda |binary immer-1.1-35/immer/data/data.immer02.rda |binary immer-1.1-35/immer/data/data.immer03.rda |binary immer-1.1-35/immer/data/data.immer04a.rda |binary immer-1.1-35/immer/data/data.immer04b.rda |binary immer-1.1-35/immer/data/data.immer05.rda |binary immer-1.1-35/immer/data/data.immer06.rda |binary immer-1.1-35/immer/data/data.immer07.rda |binary immer-1.1-35/immer/data/data.immer08.rda |binary immer-1.1-35/immer/data/data.immer09.rda |binary immer-1.1-35/immer/data/data.immer10.rda |binary immer-1.1-35/immer/data/data.immer11.rda |only immer-1.1-35/immer/data/data.immer12.rda |only immer-1.1-35/immer/data/data.ptam1.rda |binary immer-1.1-35/immer/data/data.ptam2.rda |binary immer-1.1-35/immer/data/data.ptam3.rda |binary immer-1.1-35/immer/data/data.ptam4.rda |binary immer-1.1-35/immer/data/data.ptam4long.rda |binary immer-1.1-35/immer/data/data.ptam4wide.rda |binary immer-1.1-35/immer/data/datalist | 2 immer-1.1-35/immer/inst/NEWS | 14 immer-1.1-35/immer/man/data.immer.Rd | 66 - immer-1.1-35/immer/man/data.ptam.Rd | 30 immer-1.1-35/immer/man/immer-package.Rd | 31 immer-1.1-35/immer/man/immer_FACETS.Rd | 94 - immer-1.1-35/immer/man/immer_agree2.Rd | 14 immer-1.1-35/immer/man/immer_ccml.Rd | 32 immer-1.1-35/immer/man/immer_cml.Rd | 162 +- immer-1.1-35/immer/man/immer_hrm.Rd | 106 - immer-1.1-35/immer/man/immer_hrm_simulate.Rd | 8 immer-1.1-35/immer/man/immer_install.Rd | 16 immer-1.1-35/immer/man/immer_jml.Rd | 42 immer-1.1-35/immer/man/immer_latent_regression.Rd | 28 immer-1.1-35/immer/man/immer_opcat.Rd | 20 immer-1.1-35/immer/man/immer_proc_data.Rd | 38 immer-1.1-35/immer/man/immer_reshape_wideformat.Rd | 14 immer-1.1-35/immer/man/immer_unique_patterns.Rd | 8 immer-1.1-35/immer/man/lc2_agreement.Rd | 32 immer-1.1-35/immer/man/probs2logits.Rd | 6 immer-1.1-35/immer/src/Makevars | 2 immer-1.1-35/immer/src/Makevars.win | 2 immer-1.1-35/immer/src/RcppExports.cpp | 148 +- immer-1.1-35/immer/src/immer_rcpp_ccml.cpp |only immer-1.1-35/immer/src/immer_rcpp_cml.cpp |only immer-1.1-35/immer/src/immer_rcpp_cmml.cpp |only immer-1.1-35/immer/src/immer_rcpp_dnorm_pbivnorm_drezner.cpp |only immer-1.1-35/immer/src/immer_rcpp_dnorm_pbivnorm_drezner.h |only immer-1.1-35/immer/src/immer_rcpp_hrm.cpp |only immer-1.1-35/immer/src/immer_rcpp_irt_likelihood.cpp |only immer-1.1-35/immer/src/immer_rcpp_jml.cpp |only immer-1.1-35/immer/src/immer_rcpp_latent_regression.cpp |only 174 files changed, 5108 insertions(+), 5056 deletions(-)
Title: Interactive Visualization of Bayesian Networks
Description: Interactive visualization of Bayesian Networks.
The 'bnviewer' package reads various structure learning algorithms provided by the
'bnlearn' package and allows you to view them interactively.
Author: Robson Fernandes
Maintainer: Robson Fernandes <robs.fernandes@outlook.com>
Diff between bnviewer versions 0.1.0 dated 2018-07-31 and 0.1.1 dated 2018-12-10
bnviewer-0.1.0/bnviewer/tests/alarm.R |only bnviewer-0.1.1/bnviewer/DESCRIPTION | 9 ++-- bnviewer-0.1.1/bnviewer/MD5 | 11 +++-- bnviewer-0.1.1/bnviewer/NAMESPACE | 1 bnviewer-0.1.1/bnviewer/R/bnviewer.R | 48 ++++++++++++------------- bnviewer-0.1.1/bnviewer/R/strength.viewer.R |only bnviewer-0.1.1/bnviewer/man/strength.viewer.Rd |only bnviewer-0.1.1/bnviewer/man/viewer.Rd | 2 - 8 files changed, 37 insertions(+), 34 deletions(-)
Title: Fast Nearest Neighbour Search (Wraps ANN Library) Using L1
Metric
Description: Finds the k nearest neighbours for every point in a given dataset
in O(N log N) time using Arya and Mount's ANN library (v1.1.3). There is
support for approximate as well as exact searches, fixed radius searches
and 'bd' as well as 'kd' trees. The distance is computed using the L1
(Manhattan, taxicab) metric. Please see package 'RANN' for the same
functionality using the L2 (Euclidean) metric.
Author: Sunil Arya and David Mount (for ANN), Samuel E. Kemp, Gregory Jefferis,
Kirill Müller
Maintainer: ORPHANED
Diff between RANN.L1 versions 2.5.1 dated 2018-08-10 and 2.5.2 dated 2018-12-10
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/kd_split.cpp | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Partially Overlapping Samples t-Tests
Description: The "partially overlapping samples t-tests", for the comparison
of means for two samples which include both paired observations and independent
observations. [See Derrick, B., Russ, B., Toher, D. & White P (2017). Test
statistics for the comparison of means for two samples which include both paired
observations and independent observations. Journal of Modern Applied Statistical
Methods, 16(1)].
Author: Ben Derrick
Maintainer: Ben Derrick <ben.derrick@uwe.ac.uk>
Diff between Partiallyoverlapping versions 1.0 dated 2017-01-04 and 1.1 dated 2018-12-10
Partiallyoverlapping-1.0/Partiallyoverlapping/man/Partiallyoverlapping-package.Rd |only Partiallyoverlapping-1.1/Partiallyoverlapping/DESCRIPTION | 10 +++++----- Partiallyoverlapping-1.1/Partiallyoverlapping/MD5 | 7 +++---- Partiallyoverlapping-1.1/Partiallyoverlapping/R/Partiallyoverlapping.R | 9 ++++++--- Partiallyoverlapping-1.1/Partiallyoverlapping/man/Partover.test.Rd | 8 +++++--- 5 files changed, 19 insertions(+), 15 deletions(-)
More information about Partiallyoverlapping at CRAN
Permanent link
Title: Fast Nearest Neighbor Search Algorithms and Applications
Description: Cover-tree and kd-tree fast k-nearest neighbor search algorithms and related applications
including KNN classification, regression and information measures are implemented.
Author: Alina Beygelzimer, Sham Kakadet and John Langford (cover tree library),
Sunil Arya and David Mount (ANN library 1.1.2 for the kd-tree approach), Shengqiao Li
Maintainer: ORPHANED
Diff between FNN versions 1.1.2.1 dated 2018-08-10 and 1.1.2.2 dated 2018-12-10
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/kd_split.cpp | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Test Analysis Modules
Description: Includes marginal maximum likelihood estimation and joint maximum
likelihood estimation for unidimensional and multidimensional
item response models. The package functionality covers the
Rasch model, 2PL model, 3PL model, generalized partial credit model,
multi-faceted Rasch model, nominal item response model,
structured latent class model, mixture distribution IRT models,
and located latent class models. Latent regression models and
plausible value imputation are also supported. For details see
Adams, Wilson and Wang, 1997 <doi:10.1177/0146621697211001>,
Adams, Wilson and Wu, 1997 <doi:10.3102/10769986022001047>,
Formann, 1982 <doi:10.1002/bimj.4710240209>,
Formann, 1992 <doi:10.1080/01621459.1992.10475229>.
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut], Margaret Wu [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between TAM versions 2.13-15 dated 2018-09-30 and 3.0-21 dated 2018-12-10
TAM-2.13-15/TAM/R/weighted_curtosis.R |only TAM-3.0-21/TAM/DESCRIPTION | 8 TAM-3.0-21/TAM/MD5 | 173 ++--- TAM-3.0-21/TAM/NAMESPACE | 3 TAM-3.0-21/TAM/R/IRT.RISE.R | 2 TAM-3.0-21/TAM/R/RcppExports.R | 14 TAM-3.0-21/TAM/R/designMatrices.mfr.R | 4 TAM-3.0-21/TAM/R/designMatrices.mfr2.R | 4 TAM-3.0-21/TAM/R/lavpartable2lavsyntax.R | 11 TAM-3.0-21/TAM/R/plot_tam_grouped_wle.R | 4 TAM-3.0-21/TAM/R/summary.msq.itemfit.R | 11 TAM-3.0-21/TAM/R/summary.tam.R | 82 +- TAM-3.0-21/TAM/R/summary.tam.fit.R | 38 - TAM-3.0-21/TAM/R/summary.tam.jml.R | 16 TAM-3.0-21/TAM/R/summary.tam.mml.3pl.R | 68 - TAM-3.0-21/TAM/R/summary.tam.pv.mcmc.R | 22 TAM-3.0-21/TAM/R/summary_tamaan_3pl_intro.R | 8 TAM-3.0-21/TAM/R/tam.fit.R | 40 - TAM-3.0-21/TAM/R/tam.jml.fit.R | 8 TAM-3.0-21/TAM/R/tam.latreg.R | 2 TAM-3.0-21/TAM/R/tam.mml.wle2.R | 19 TAM-3.0-21/TAM/R/tam_calc_prob_helper_subtract_max.R | 2 TAM-3.0-21/TAM/R/tam_ginv_scaled.R |only TAM-3.0-21/TAM/R/tam_mml_calc_prob.R | 9 TAM-3.0-21/TAM/R/tam_mml_calc_prob_R.R | 40 - TAM-3.0-21/TAM/R/tam_mml_inits_beta.R | 6 TAM-3.0-21/TAM/R/tam_mml_mfr_collect_xsi_parameters.R | 6 TAM-3.0-21/TAM/R/tam_mml_mfr_inits_beta.R | 11 TAM-3.0-21/TAM/R/tam_mml_mfr_inits_xsi.R | 4 TAM-3.0-21/TAM/R/tam_mml_mfr_proc_create_design_matrices.R | 10 TAM-3.0-21/TAM/R/tam_mml_se_AXsi.R | 18 TAM-3.0-21/TAM/R/tam_summary_display.R |only TAM-3.0-21/TAM/R/tam_summary_print_ic.R | 10 TAM-3.0-21/TAM/R/tam_summary_print_ic_one_ic.R | 6 TAM-3.0-21/TAM/R/tam_thurstonian_threshold.R | 97 +- TAM-3.0-21/TAM/R/tamaanify.proc.loadings.B.fixed.R | 31 TAM-3.0-21/TAM/R/tamaanify.proc.modelconstraint.R | 77 -- TAM-3.0-21/TAM/R/tamaanify.tam.mml.3pl.designMatrices.MIXTURE.R | 342 ++++------ TAM-3.0-21/TAM/R/weighted_kurtosis.R |only TAM-3.0-21/TAM/R/zzz.R | 9 TAM-3.0-21/TAM/README.md | 2 TAM-3.0-21/TAM/build |only TAM-3.0-21/TAM/data/data.cqc01.rda |binary TAM-3.0-21/TAM/data/data.cqc02.rda |binary TAM-3.0-21/TAM/data/data.cqc03.rda |binary TAM-3.0-21/TAM/data/data.cqc04.rda |binary TAM-3.0-21/TAM/data/data.cqc05.rda |binary TAM-3.0-21/TAM/data/data.ctest1.rda |binary TAM-3.0-21/TAM/data/data.ctest2.rda |binary TAM-3.0-21/TAM/data/data.ex08.rda |binary TAM-3.0-21/TAM/data/data.ex10.rda |binary TAM-3.0-21/TAM/data/data.ex11.rda |binary TAM-3.0-21/TAM/data/data.ex12.rda |binary TAM-3.0-21/TAM/data/data.ex14.rda |binary TAM-3.0-21/TAM/data/data.ex15.rda |binary TAM-3.0-21/TAM/data/data.ex16.rda |binary TAM-3.0-21/TAM/data/data.ex17.rda |binary TAM-3.0-21/TAM/data/data.exJ03.rda |binary TAM-3.0-21/TAM/data/data.fims.Aus.Jpn.raw.rda |binary TAM-3.0-21/TAM/data/data.fims.Aus.Jpn.scored.rda |binary TAM-3.0-21/TAM/data/data.geiser.rda |binary TAM-3.0-21/TAM/data/data.gpcm.rda |binary TAM-3.0-21/TAM/data/data.janssen.rda |binary TAM-3.0-21/TAM/data/data.janssen2.rda |binary TAM-3.0-21/TAM/data/data.mc.rda |binary TAM-3.0-21/TAM/data/data.numeracy.rda |binary TAM-3.0-21/TAM/data/data.sim.facets.rda |binary TAM-3.0-21/TAM/data/data.sim.mfr.rda |binary TAM-3.0-21/TAM/data/data.sim.rasch.missing.rda |binary TAM-3.0-21/TAM/data/data.sim.rasch.pweights.rda |binary TAM-3.0-21/TAM/data/data.sim.rasch.rda |binary TAM-3.0-21/TAM/data/data.timssAusTwn.rda |binary TAM-3.0-21/TAM/data/data.timssAusTwn.scored.rda |binary TAM-3.0-21/TAM/inst/NEWS | 17 TAM-3.0-21/TAM/man/TAM-package.Rd | 33 TAM-3.0-21/TAM/man/TAM-utilities.Rd | 6 TAM-3.0-21/TAM/man/tam.fit.Rd | 5 TAM-3.0-21/TAM/man/tam.linking.Rd | 13 TAM-3.0-21/TAM/man/tam.mml.Rd | 54 + TAM-3.0-21/TAM/man/tam.wle.Rd | 4 TAM-3.0-21/TAM/man/weighted_Stats.Rd | 14 TAM-3.0-21/TAM/src/Makevars | 2 TAM-3.0-21/TAM/src/Makevars.win | 2 TAM-3.0-21/TAM/src/RcppExports.cpp | 40 + TAM-3.0-21/TAM/src/init.c | 8 TAM-3.0-21/TAM/src/tam_rcpp_calc_prob.cpp | 118 +++ TAM-3.0-21/TAM/src/tam_rcpp_mml_3pl.cpp | 4 TAM-3.0-21/TAM/src/tam_rcpp_prior_normal_density.cpp | 6 TAM-3.0-21/TAM/src/tam_rcpp_pv_mcmc.cpp | 4 TAM-3.0-21/TAM/src/tam_rcpp_wle.cpp | 24 90 files changed, 916 insertions(+), 655 deletions(-)
Title: Call R from R
Description: It is sometimes useful to perform a computation in a
separate R process, without affecting the current R process at all.
This packages does exactly that.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>),
Winston Chang [aut],
RStudio [cph, fnd],
Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between callr versions 3.0.0 dated 2018-08-24 and 3.1.0 dated 2018-12-10
DESCRIPTION | 12 +-- MD5 | 66 +++++++++++--------- NAMESPACE | 15 ---- NEWS.md | 19 +++++ R/check.R | 1 R/eval-bg.R | 1 R/eval.R | 4 + R/options.R | 41 +++++++++++- R/package.R | 3 R/r-process.R | 6 - R/r-session.R | 101 +++++++++++++++++++------------ R/rcmd-bg.R | 1 R/rcmd-process.R | 10 +-- R/rcmd.R | 11 ++- R/result.R | 9 -- R/rscript.R |only R/run.R | 4 - R/script.R | 15 +++- R/setup.R | 44 ++++++++++++- man/r.Rd | 26 ++++--- man/r_bg.Rd | 12 ++- man/rcmd.Rd | 18 +++-- man/rcmd_bg.Rd | 12 ++- man/rcmd_process.Rd | 2 man/rcmd_safe.Rd | 4 - man/rscript.Rd |only man/rscript_process.Rd |only man/rscript_process_options.Rd |only tests/testthat.R | 2 tests/testthat/fixtures/script.R |only tests/testthat/helper.R | 35 ++++++++++ tests/testthat/test-bugs.R |only tests/testthat/test-eval.R | 17 +++++ tests/testthat/test-libpath.R | 96 ++++++++++++++++++++++++++++- tests/testthat/test-options.R | 2 tests/testthat/test-r-session-messages.R |only tests/testthat/test-r-session.R | 24 +++++++ tests/testthat/test-rscript.R |only 38 files changed, 468 insertions(+), 145 deletions(-)
Title: 'Antares' Results Processing
Description: Process results generated by 'Antares', a powerful open source software developed by
RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems (more information about
'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>). You can see the results of several ANTARES studies here : <http://bpnumerique.rte-france.com/>.
This package provides functions to create new columns like net load, load factors, upward and
downward margins or to compute aggregated statistics like economic surpluses
of consumers, producers and sectors.
Author: Jalal-Edine ZAWAM [aut, cre],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
RTE [cph]
Maintainer: Jalal-Edine ZAWAM <jalal-edine.zawam@rte-france.com>
Diff between antaresProcessing versions 0.16.0 dated 2018-09-28 and 0.17.0 dated 2018-12-10
DESCRIPTION | 10 MD5 | 47 + NAMESPACE | 8 NEWS | 323 ++++++------ R/addConvergencePriceArea.R |only R/addConvergencePriceSystem.R |only R/addMonotones.R |only R/addUpwardMargin.R | 3 R/correctBalance.R |only R/h5_processing.R | 12 R/neighbours.R |only R/zzz.R | 217 ++++++++ inst/doc/antaresProcessing.html | 4 man/addConvergencePriceArea.Rd |only man/addConvergencePriceSystem.Rd |only man/addDownwardMargin.Rd | 3 man/addMonotones.Rd |only man/addProcessingH5.Rd | 9 man/addUpwardMargin.Rd | 3 man/correctBalance.Rd |only man/neighbours.Rd |only tests/testthat/helper_init.R | 31 - tests/testthat/test-addConvergencePriceArea.R |only tests/testthat/test-addConvergencePriceSystem.R |only tests/testthat/test-addDownwardMargin.R | 144 ++--- tests/testthat/test-addMonotones.R |only tests/testthat/test-addUpwardMargin.R | 181 +++---- tests/testthat/test-correctBalance.R |only tests/testthat/test-externalDependency.R | 176 +++--- tests/testthat/test-h5_processing.R | 613 +++++++++++------------- tests/testthat/test-neighbours.R |only tests/testthat/test-surplus.R | 230 ++++----- 32 files changed, 1126 insertions(+), 888 deletions(-)
More information about antaresProcessing at CRAN
Permanent link
Title: Equi-Rank Hierarchical Clustering Validation
Description: Assesses the statistical significance of clusters for a given dataset through bootstrapping and hypothesis testing of a given matrix of empirical Spearman's rho, based on the technique of S. Gaiser et al. (2010) <doi:10.1016/j.jmva.2010.07.008>.
Author: Simon-Pierre Gadoury <spgadou@me.com>
Maintainer: Simon-Pierre Gadoury <spgadou@me.com>
Diff between erhcv versions 0.1.3 dated 2018-10-07 and 0.1.4 dated 2018-12-10
DESCRIPTION | 13 +++++---- MD5 | 12 +++++---- NAMESPACE | 4 ++- R/compareTrees.R |only R/tree2plot.R | 69 ++++++++++++++++++++++++++-------------------------- build/partial.rdb |binary man/CompareTrees.Rd |only man/tree2plot.Rd | 12 +++------ 8 files changed, 57 insertions(+), 53 deletions(-)
Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel, Khanh Nguyen (2009-2010), Terry Leitch (since 2016)
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.6 dated 2018-11-25 and 0.4.7 dated 2018-12-10
ChangeLog | 51 +++++++ DESCRIPTION | 8 - MD5 | 61 ++++---- configure | 20 +- configure.ac | 20 +- inst/NEWS.Rd | 76 +++++++--- man/AffineSwaption.Rd | 9 - man/AmericanOption.Rd | 1 man/AmericanOptionImpliedVolatility.Rd | 1 man/BarrierOption.Rd | 1 man/BermudanSwaption.Rd | 5 man/BinaryOption.Rd | 1 man/BinaryOptionImpliedVolatility.Rd | 1 man/Bond.Rd | 4 man/CallableBond.Rd | 12 - man/ConvertibleBond.Rd | 1 man/DiscountCurve.Rd | 5 man/Enum.Rd | 1 man/EuropeanOption.Rd | 1 man/EuropeanOptionArrays.Rd | 1 man/EuropeanOptionImpliedVolatility.Rd | 1 man/FixedRateBond.Rd | 5 man/FloatingRateBond.Rd | 5 man/ImpliedVolatility.Rd | 1 man/Option.Rd | 1 man/SabrSwaption.Rd | 5 man/ZeroCouponBond.Rd | 5 src/Makevars.in | 2 src/Makevars.win | 5 tests/RQuantlib.R | 237 ++++++++++++++++----------------- tests/doRUnit.R | 14 - tools/build_RQuantLib.sh |only 32 files changed, 300 insertions(+), 261 deletions(-)
Title: Applications of Empirical Dynamic Modeling from Time Series
Description: A new implementation of EDM algorithms based on research software previously developed for internal use in the Sugihara Lab (UCSD/SIO). Contains C++ compiled objects that use time delay embedding to perform state-space reconstruction and nonlinear forecasting and an R interface to those objects using 'Rcpp'. It supports both the simplex projection method from Sugihara & May (1990) <DOI:10.1038/344734a0> and the S-map algorithm in Sugihara (1994) <DOI:10.1098/rsta.1994.0106>. In addition, this package implements convergent cross mapping as described in Sugihara et al. (2012) <DOI:10.1126/science.1227079> and multiview embedding as described in Ye & Sugihara (2016) <DOI:10.1126/science.aag0863>.
Author: Hao Ye [aut, cre],
Adam Clark [aut],
Ethan Deyle [aut],
Steve Munch [aut],
Oliver Keyes [ctb],
Jun Cai [ctb],
Ethan White [ctb],
Jane Cowles [ctb],
James Stagge [ctb],
Yair Daon [ctb],
George Sugihara [ctb, ccp]
Maintainer: Sugihara Lab Maintainer <sugihara.lab.manager@gmail.com>
Diff between rEDM versions 0.7.1 dated 2018-06-20 and 0.7.2 dated 2018-12-10
rEDM-0.7.1/rEDM/R/data_transformations.R |only rEDM-0.7.1/rEDM/R/interface_helper_functions.R |only rEDM-0.7.1/rEDM/R/statistical_tests.R |only rEDM-0.7.1/rEDM/data/e120_invnit16.rda |only rEDM-0.7.1/rEDM/inst/doc/rEDM-time-delay-ccm.R |only rEDM-0.7.1/rEDM/inst/doc/rEDM-time-delay-ccm.Rmd |only rEDM-0.7.1/rEDM/inst/doc/rEDM-time-delay-ccm.html |only rEDM-0.7.1/rEDM/man/e120_invnit16.Rd |only rEDM-0.7.1/rEDM/man/identify_twins.Rd |only rEDM-0.7.1/rEDM/man/make_twin_idx.Rd |only rEDM-0.7.1/rEDM/tests |only rEDM-0.7.1/rEDM/vignettes/figure_3.svg |only rEDM-0.7.1/rEDM/vignettes/rEDM-time-delay-ccm.Rmd |only rEDM-0.7.2/rEDM/DESCRIPTION | 38 rEDM-0.7.2/rEDM/LICENSE | 2 rEDM-0.7.2/rEDM/MD5 | 135 - rEDM-0.7.2/rEDM/NAMESPACE | 14 rEDM-0.7.2/rEDM/R/RcppExports.R | 2 rEDM-0.7.2/rEDM/R/block_GP.R | 284 +-- rEDM-0.7.2/rEDM/R/block_lnlp_interface.R | 350 ++-- rEDM-0.7.2/rEDM/R/ccm_interface.R | 158 + rEDM-0.7.2/rEDM/R/diagnostic_functions.R |only rEDM-0.7.2/rEDM/R/lnlp_interface.R | 294 +-- rEDM-0.7.2/rEDM/R/multiview_interface.R | 331 ++- rEDM-0.7.2/rEDM/R/rEDM_package.R | 202 -- rEDM-0.7.2/rEDM/R/tde_gp.R | 108 - rEDM-0.7.2/rEDM/R/zzz.R | 4 rEDM-0.7.2/rEDM/README.md |only rEDM-0.7.2/rEDM/build/vignette.rds |binary rEDM-0.7.2/rEDM/data/e054_succession.rda |only rEDM-0.7.2/rEDM/data/e120_biodiversity.rda |only rEDM-0.7.2/rEDM/inst/doc/rEDM-algorithms.pdf |binary rEDM-0.7.2/rEDM/inst/doc/rEDM-coprediction.R | 23 rEDM-0.7.2/rEDM/inst/doc/rEDM-coprediction.Rmd | 40 rEDM-0.7.2/rEDM/inst/doc/rEDM-coprediction.html | 73 rEDM-0.7.2/rEDM/inst/doc/rEDM-tutorial.R | 642 ++----- rEDM-0.7.2/rEDM/inst/doc/rEDM-tutorial.Rmd | 1091 ++++-------- rEDM-0.7.2/rEDM/inst/doc/rEDM-tutorial.html | 1289 ++++++--------- rEDM-0.7.2/rEDM/inst/tests |only rEDM-0.7.2/rEDM/man/block_3sp.Rd | 21 rEDM-0.7.2/rEDM/man/block_gp.Rd | 112 - rEDM-0.7.2/rEDM/man/block_lnlp.Rd | 112 - rEDM-0.7.2/rEDM/man/ccm.Rd | 43 rEDM-0.7.2/rEDM/man/ccm_means.Rd | 15 rEDM-0.7.2/rEDM/man/compute_stats.Rd | 5 rEDM-0.7.2/rEDM/man/e054_succession.Rd |only rEDM-0.7.2/rEDM/man/e120_biodiversity.Rd |only rEDM-0.7.2/rEDM/man/make_block.Rd | 29 rEDM-0.7.2/rEDM/man/make_surrogate_data.Rd | 80 rEDM-0.7.2/rEDM/man/multiview.Rd | 132 - rEDM-0.7.2/rEDM/man/paramecium_didinium.Rd | 11 rEDM-0.7.2/rEDM/man/rEDM.Rd | 44 rEDM-0.7.2/rEDM/man/sardine_anchovy_sst.Rd | 18 rEDM-0.7.2/rEDM/man/simplex.Rd | 120 - rEDM-0.7.2/rEDM/man/sockeye_returns.Rd | 30 rEDM-0.7.2/rEDM/man/tde_gp.Rd | 72 rEDM-0.7.2/rEDM/man/tentmap_del.Rd | 8 rEDM-0.7.2/rEDM/man/test_nonlinearity.Rd | 21 rEDM-0.7.2/rEDM/man/thrips_block.Rd | 14 rEDM-0.7.2/rEDM/man/two_species_model.Rd | 14 rEDM-0.7.2/rEDM/src/block_lnlp.cpp | 76 rEDM-0.7.2/rEDM/src/block_lnlp.h | 5 rEDM-0.7.2/rEDM/src/forecast_machine.cpp | 94 - rEDM-0.7.2/rEDM/src/forecast_machine.h | 6 rEDM-0.7.2/rEDM/src/lnlp.cpp | 68 rEDM-0.7.2/rEDM/src/lnlp.h | 4 rEDM-0.7.2/rEDM/vignettes/figure_1.svg | 1292 +++++++-------- rEDM-0.7.2/rEDM/vignettes/figure_2.svg | 1852 ++++++++++++---------- rEDM-0.7.2/rEDM/vignettes/figure_3.png |only rEDM-0.7.2/rEDM/vignettes/rEDM-coprediction.Rmd | 40 rEDM-0.7.2/rEDM/vignettes/rEDM-tutorial.Rmd | 1091 ++++-------- rEDM-0.7.2/rEDM/vignettes/refs.bib | 172 -- 72 files changed, 4906 insertions(+), 5775 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, and generation of R markdown instructions for interpretative output.
Author: David W. Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 3.7.6 dated 2018-08-11 and 3.7.9 dated 2018-12-10
lessR-3.7.6/lessR/R/print.outpiece.r |only lessR-3.7.6/lessR/man/print_outpiece.Rd |only lessR-3.7.9/lessR/DESCRIPTION | 11 lessR-3.7.9/lessR/MD5 | 149 ++-- lessR-3.7.9/lessR/NAMESPACE | 12 lessR-3.7.9/lessR/NEWS | 129 +++ lessR-3.7.9/lessR/R/ANOVA.R | 32 lessR-3.7.9/lessR/R/BarChart.R | 164 ++-- lessR-3.7.9/lessR/R/BoxPlot.R | 20 lessR-3.7.9/lessR/R/Correlation.R | 12 lessR-3.7.9/lessR/R/Density.R | 28 lessR-3.7.9/lessR/R/Help.R | 49 - lessR-3.7.9/lessR/R/Histogram.R | 73 +- lessR-3.7.9/lessR/R/LineChart.R | 7 lessR-3.7.9/lessR/R/Nest.R | 4 lessR-3.7.9/lessR/R/PieChart.R | 59 + lessR-3.7.9/lessR/R/Plot.R | 206 +++-- lessR-3.7.9/lessR/R/Read.R | 18 lessR-3.7.9/lessR/R/Regression.R | 44 - lessR-3.7.9/lessR/R/SummaryStats.R | 24 lessR-3.7.9/lessR/R/ViolinPlot.R | 19 lessR-3.7.9/lessR/R/bar.zlattice.R | 28 lessR-3.7.9/lessR/R/bc.data.frame.R | 7 lessR-3.7.9/lessR/R/bc.zmain.R | 259 ++++--- lessR-3.7.9/lessR/R/corCFA.R | 28 lessR-3.7.9/lessR/R/corEFA.R | 14 lessR-3.7.9/lessR/R/doFactors.R | 4 lessR-3.7.9/lessR/R/dpmat.zmain.R | 8 lessR-3.7.9/lessR/R/getColors.R | 212 +++-- lessR-3.7.9/lessR/R/hst.stats.R | 9 lessR-3.7.9/lessR/R/hst.zmain.R | 11 lessR-3.7.9/lessR/R/lc.zmain.R | 4 lessR-3.7.9/lessR/R/param.zold.R | 7 lessR-3.7.9/lessR/R/pc.zmain.R | 59 + lessR-3.7.9/lessR/R/pl.R |only lessR-3.7.9/lessR/R/plt.zVBS.R | 55 - lessR-3.7.9/lessR/R/plt.zbad.R | 4 lessR-3.7.9/lessR/R/plt.zlattice.R | 21 lessR-3.7.9/lessR/R/plt.zlegend.R | 8 lessR-3.7.9/lessR/R/plt.zmain.R | 155 ++-- lessR-3.7.9/lessR/R/plt.zpanel.r | 15 lessR-3.7.9/lessR/R/plt.ztxt.R | 70 - lessR-3.7.9/lessR/R/print.out.r |only lessR-3.7.9/lessR/R/prob.norm.R | 41 - lessR-3.7.9/lessR/R/prob.tcut.R | 20 lessR-3.7.9/lessR/R/prob.znorm.R | 101 +- lessR-3.7.9/lessR/R/reg.z5Plot.R | 2 lessR-3.7.9/lessR/R/reg.zRmd.R | 197 ++--- lessR-3.7.9/lessR/R/showPalettes.R |only lessR-3.7.9/lessR/R/simCImean.R | 13 lessR-3.7.9/lessR/R/simCLT.R | 14 lessR-3.7.9/lessR/R/ss.zdata.frame.R | 10 lessR-3.7.9/lessR/R/ss.zfactor.R | 7 lessR-3.7.9/lessR/R/ss.zreal.R | 8 lessR-3.7.9/lessR/R/style.R | 1155 +++++++++++++++++++------------- lessR-3.7.9/lessR/R/style.zshow.R | 8 lessR-3.7.9/lessR/R/tt.z1graph.R | 26 lessR-3.7.9/lessR/R/tt.z1group.R | 26 lessR-3.7.9/lessR/R/ttest.R | 15 lessR-3.7.9/lessR/R/ttestPower.R | 14 lessR-3.7.9/lessR/R/zzz.R | 180 +++- lessR-3.7.9/lessR/man/ANOVA.Rd | 2 lessR-3.7.9/lessR/man/BarChart.Rd | 122 ++- lessR-3.7.9/lessR/man/Histogram.Rd | 33 lessR-3.7.9/lessR/man/Nest.Rd | 2 lessR-3.7.9/lessR/man/PieChart.Rd | 31 lessR-3.7.9/lessR/man/Plot.Rd | 60 - lessR-3.7.9/lessR/man/Regression.Rd | 47 - lessR-3.7.9/lessR/man/corEFA.Rd | 2 lessR-3.7.9/lessR/man/doFactors.Rd | 4 lessR-3.7.9/lessR/man/getColors.Rd | 58 - lessR-3.7.9/lessR/man/print_out.Rd |only lessR-3.7.9/lessR/man/prob.norm.Rd | 12 lessR-3.7.9/lessR/man/prob.tcut.Rd | 6 lessR-3.7.9/lessR/man/prob.znorm.Rd | 12 lessR-3.7.9/lessR/man/showPalettes.Rd |only lessR-3.7.9/lessR/man/style.Rd | 31 lessR-3.7.9/lessR/man/ttest.Rd | 8 lessR-3.7.9/lessR/man/ttestPower.Rd | 10 79 files changed, 2687 insertions(+), 1628 deletions(-)
Title: General Frailty Models: Shared, Joint and Nested Frailty Models
with Prediction; Evaluation of Failure-Time Surrogate Endpoints
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package:
1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied.
2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope).
3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects.
4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed.
5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms.
6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects.
7) Multivariate joint frailty models for two types of recurrent events and a terminal event.
8) Joint models for longitudinal data and a terminal event.
9) Trivariate joint models for longitudinal data, recurrent events and a terminal event.
10) Joint frailty models for the validation of surrogate endpoints in multiple randomized clinical trials with failure-time endpoints
Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey
Mauguen, Amadou Diakite, Alexandre Laurent, Myriam Lopez,
Agnieszka Krol and Casimir L. Sofeu
Maintainer: Virginie Rondeau <Virginie.Rondeau@inserm.fr>
Diff between frailtypack versions 3.0.1 dated 2018-11-26 and 3.0.2 dated 2018-12-10
DESCRIPTION | 8 - MD5 | 46 +++++----- NEWS | 7 + R/frailtypack-package.R | 2 R/jointSurroPenal.R | 23 ++--- R/jointSurroPenalSimul.R | 11 +- R/jointSurroTKendall.R | 8 - R/plot.jointSurroPenal.R | 8 - R/summary.jointSurroPenal.R | 3 R/summary.jointSurroPenalSimul.R | 2 man/frailtypack-package.Rd | 2 man/jointSurroPenal.Rd | 19 +--- man/jointSurroPenalSimul.Rd | 11 +- man/jointSurroTKendall.Rd | 2 man/plot.jointSurroPenal.Rd | 6 - man/summary.jointSurroPenalSimul.Rd | 2 src/Makevars | 4 src/aaOptim_New_scl.f90 | 164 ++++++++++++++++++------------------ src/aaOptim_New_scl2.f90 | 163 ++++++++++++++++++----------------- src/aaOptim_SCL_0.f90 | 145 ++++++++++++++++--------------- src/autres_fonctions.f90 | 4 src/jointSurrogate.f90 | 29 +++--- src/joint_surrogate.f90 | 7 - src/surrosim.f90 | 2 24 files changed, 340 insertions(+), 338 deletions(-)
Title: Set of Tools to Compute Various Climate Indices
Description: Set of tools to compute metrics and indices for climate analysis. The package provides functions to compute extreme indices, evaluate the agreement between models and combine theses models into an ensemble. Multi-model time series of climate indices can be computed either after averaging the 2-D fields from different models provided they share a common grid or by combining time series computed on the model native grid. Indices can be assigned weights and/or combined to construct new indices.
Author: BSC-CNS [aut, cph],
Alasdair Hunter [aut],
Nuria Perez-Zanon [aut, cre],
Nicolau Manubens [ctb],
Louis-Philippe Caron [ctb]
Maintainer: Nuria Perez-Zanon <nuria.perez@bsc.es>
Diff between ClimProjDiags versions 0.0.1 dated 2018-10-26 and 0.0.2 dated 2018-12-10
DESCRIPTION | 12 MD5 | 26 - R/AnoAgree.R | 6 R/Climdex.R | 12 R/DTRIndicator.R | 4 R/DTRRef.R | 5 R/Extremes.R | 12 R/Threshold.R | 5 R/WaveDuration.R | 5 R/WeightedMean.R | 4 inst/doc/anomaly_agreement.Rmd |only inst/doc/diurnaltemp.Rmd |only inst/doc/extreme_indices.Rmd |only inst/doc/extreme_indices.html | 770 ++++++++++++++--------------------------- inst/doc/heatcoldwaves.Rmd |only vignettes/extreme_indices.Rmd | 12 16 files changed, 335 insertions(+), 538 deletions(-)
Title: Gaussian Processes for Pareto Front Estimation and Optimization
Description: Gaussian process regression models, a.k.a. Kriging models, are
applied to global multi-objective optimization of black-box functions.
Multi-objective Expected Improvement and Step-wise Uncertainty Reduction
sequential infill criteria are available. A quantification of uncertainty
on Pareto fronts is provided using conditional simulations.
Author: Mickael Binois, Victor Picheny
Maintainer: Mickael Binois <mbinois@mcs.anl.gov>
Diff between GPareto versions 1.1.1 dated 2018-01-31 and 1.1.2 dated 2018-12-10
DESCRIPTION | 12 +++-- MD5 | 73 ++++++++++++++++++----------------- NAMESPACE | 1 NEWS | 10 ++++ R/CPF.R | 47 +++++++++++++++++++++- R/EHI_2d.R | 23 +++++------ R/GParetoptim.R | 6 +- R/RcppExports.R | 68 +++++++++++++++++++++++++++++++++ R/SAA_MEI.R | 84 ++++++++++++++++++++++++++--------------- R/checkPredict.R | 62 ++++++++++++++++++++---------- R/crit_EHI.R | 6 +- R/crit_SMS.R | 2 R/crit_SUR.R | 2 R/crit_optimizer.R | 7 ++- R/getDesign.R | 2 README.md |only build/vignette.rds |binary inst/doc/GPareto_vignette.R | 2 inst/doc/GPareto_vignette.Rnw | 3 - inst/doc/GPareto_vignette.pdf |binary man/CPF.Rd | 4 - man/GParetoptim.Rd | 8 +-- man/TestFunctions.Rd | 1 man/checkPredict.Rd | 11 ++--- man/crit_EHI.Rd | 10 ++-- man/crit_EMI.Rd | 4 - man/crit_SMS.Rd | 3 - man/crit_SUR.Rd | 3 - man/crit_optimizer.Rd | 4 - man/easyGParetoptim.Rd | 4 - man/nonDomSet.Rd |only man/plotGPareto.Rd | 10 ++-- man/plotParetoEmp.Rd | 4 - man/plotSymDifRNP.Rd | 3 - man/predict_kms.Rd | 5 +- src/EHI_2d_rcpp.cpp | 24 +++++++---- src/RcppExports.cpp | 44 ++++++++++++++++++++- src/domination.cpp |only vignettes/GPareto_vignette.Rnw | 3 - 39 files changed, 390 insertions(+), 165 deletions(-)
Title: Preliminary Visualisation of Data
Description: Create preliminary exploratory data visualisations of an entire
dataset to identify problems or unexpected features using 'ggplot2'.
Author: Nicholas Tierney [aut, cre] (<https://orcid.org/0000-0003-1460-8722>),
Sean Hughes [rev] (<https://orcid.org/0000-0002-9409-9405>, Sean Hughes
reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/87),
Mara Averick [rev] (Mara Averick reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/87),
Stuart Lee [ctb],
Earo Wang [ctb],
Nic Crane [ctb]
Maintainer: Nicholas Tierney <nicholas.tierney@gmail.com>
Diff between visdat versions 0.5.1 dated 2018-07-04 and 0.5.2 dated 2018-12-10
DESCRIPTION | 15 +- MD5 | 67 +++++----- NEWS.md | 12 + R/internals.R | 25 +++ R/vis-compare.R | 6 R/vis-cor.R | 6 R/vis-dat.R | 3 R/vis-expect.R | 3 R/vis-guess.R | 6 R/vis-miss.R | 3 README.md | 2 build/vignette.rds |binary inst/doc/using_visdat.html | 165 ++++++++++++------------- man/figures/README-vis-compare-iris-1.png |binary man/figures/README-vis-cor-1.png |binary man/figures/README-vis-dat-aq-1.png |binary man/figures/README-vis-expect-1.png |binary man/figures/README-vis-guess-messy-df-1.png |binary man/figures/README-vis-guess-messy-df-2.png |binary man/figures/README-vis-miss-aq-1.png |binary man/figures/README-vis-miss-aq-cluster-1.png |binary man/figures/README-vis-miss-aq-sort-miss-1.png |binary man/figures/README-vis-miss-mtcars-1.png |binary man/figures/README-vis-miss-test-1.png |binary man/test_if_dataframe.Rd |only man/vis_cor.Rd | 4 man/vis_dat.Rd | 4 man/vis_miss.Rd | 3 tests/testthat/test-guess-type.R | 20 +-- tests/testthat/test-vis-compare.R | 6 tests/testthat/test-vis-cor.R | 4 tests/testthat/test-vis-dat.R | 4 tests/testthat/test-vis-expect.R | 3 tests/testthat/test-vis-guess.R | 4 tests/testthat/test-vis-miss.R | 4 35 files changed, 228 insertions(+), 141 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation (ODE) models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
VODE and LSODA are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut],
Melissa Hallow [aut],
Wenping Wang [aut, cre],
Zufar Mulyukov [ctb],
Justin Wilkins [ctb],
Simon Frost [ctb],
Heng Li [ctb],
Yu Feng [ctb],
Alan Hindmarsh [ctb],
Linda Petzold [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
Johannes Pfeifer [ctb],
Robert B. Schnabel [ctb],
Elizabeth Eskow [ctb],
J Colinge [ctb],
Hadley Wickham [ctb],
G Grothendieck [ctb],
Robert Gentleman [ctb],
Ross Ihaka [ctb],
R core team [cph],
odepack authors [cph]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between RxODE versions 0.8.0-8 dated 2018-09-25 and 0.8.0-9 dated 2018-12-10
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/Makevars.in | 3 --- 3 files changed, 5 insertions(+), 8 deletions(-)
Title: Interactive Statistical Data Visualization
Description: An extendable toolkit for interactive data visualization and exploration.
Author: Adrian Waddell [aut, cre],
R. Wayne Oldford [aut],
Zehao Xu [ctb]
Maintainer: Adrian Waddell <adrian@waddell.ch>
Diff between loon versions 1.2.0 dated 2018-09-30 and 1.2.1 dated 2018-12-10
DESCRIPTION | 10 MD5 | 75 +++-- NAMESPACE | 4 NEWS.md | 7 R/datasets.R | 58 ++-- R/l_hist.R | 71 +++-- R/l_layer_map.R | 78 ++--- R/l_plot.R | 140 +++++----- R/loonGrob.R | 317 ++++++++++++++-------- R/loonGrob_l_compound.R | 66 ++-- R/loonGrob_l_layer_graph.R | 342 +++++++++++++----------- R/loonGrob_l_layer_histogram.R | 9 R/loonGrob_l_layer_scatterplot.R | 387 ++++++++++++++-------------- R/loonGrob_l_navgraph.R | 26 + R/loonGrob_l_navigator.R | 30 +- R/loonGrob_l_pairs.R | 55 ++- R/loonGrob_l_serialaxes.R | 428 +++++++++++++++++-------------- R/loonGrob_l_ts.R | 36 ++ build/vignette.rds |binary inst/doc/introduction.R |only inst/doc/introduction.Rmd |only inst/doc/introduction.html |only inst/doc/minorities.html | 8 inst/doc/teaching-example-smoothing.html | 4 man/condGrob.Rd |only man/grid.loon.Rd | 6 man/l_getLocations.Rd | 5 man/l_getPlots.Rd | 5 man/l_get_arrangeGrobArgs.Rd | 4 man/l_hist.Rd | 39 ++ man/l_plot.Rd | 48 ++- man/l_plot.default.Rd | 16 - man/loon.Rd | 1 man/loonGrob.Rd | 65 +++- man/loonGrob_layoutType.Rd | 2 man/plot.loon.Rd |only vignettes/images |only vignettes/introduction.Rmd |only 38 files changed, 1387 insertions(+), 955 deletions(-)
Title: Use Image in 'ggplot2'
Description: Supports image files and graphic objects to be visualized in
'ggplot2' graphic system.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggimage versions 0.1.7 dated 2018-06-19 and 0.2.0 dated 2018-12-10
DESCRIPTION | 14 - MD5 | 80 +++-- NAMESPACE | 103 ++++--- NEWS.md | 159 ++++++----- R/draw_key.R |only R/geom_emoji.R | 34 +- R/geom_flag.R | 198 +++++++------- R/geom_icon.R | 54 ++-- R/geom_image.R | 629 ++++++++++++++++++++++++----------------------- R/geom_phylopic.R | 38 +- R/geom_pokemon.R | 76 ++--- R/geom_subview.R | 188 +++++++------- R/geom_twitchemote.R |only R/ggbackground.R | 36 +- R/image_read2.R | 98 +++---- R/reexport.R | 14 - R/theme.R | 86 +++--- README.md | 80 ++--- build/vignette.rds |binary inst/doc/ggimage.R | 167 ++++++------ inst/doc/ggimage.Rmd | 258 ++++++++++--------- inst/doc/ggimage.html | 436 ++++++++++++++++++-------------- inst/extdata/medals.txt | 62 ++-- man/draw_key.Rd |only man/geom_emoji.Rd | 62 ++-- man/geom_flag.Rd | 62 ++-- man/geom_icon.Rd | 62 ++-- man/geom_image.Rd | 106 +++---- man/geom_phylopic.Rd | 66 ++-- man/geom_pokemon.Rd | 62 ++-- man/geom_subview.Rd | 66 ++-- man/geom_twitchemote.Rd |only man/geom_worldcup2018.Rd | 62 ++-- man/ggbackground.Rd | 48 +-- man/image_read2.Rd | 48 +-- man/list.flag.Rd | 34 +- man/list.icon.Rd | 34 +- man/list.pokemon.Rd | 34 +- man/list.worldcup2018.Rd | 34 +- man/reexports.Rd | 35 +- man/theme_nothing.Rd | 44 +-- man/theme_transparent.Rd | 40 +- vignettes/ggimage.Rmd | 258 ++++++++++--------- 43 files changed, 2063 insertions(+), 1904 deletions(-)
Title: Bivariate Probability Distributions
Description: Contains convenience functions for constructing and plotting bivariate probability distributions (probability mass functions, probability density functions and cumulative distribution functions). Currently, supports uniform (discrete and continuous), binomial, Poisson, normal, bimodal and kernel distributions.
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between bivariate versions 0.2.2 dated 2018-09-18 and 0.3.0 dated 2018-12-10
bivariate-0.2.2/bivariate/R/generate.r |only bivariate-0.2.2/bivariate/R/plot3d.r |only bivariate-0.2.2/bivariate/R/primitive.r |only bivariate-0.2.2/bivariate/R/returned.functions.r |only bivariate-0.2.2/bivariate/man/generate.Rd |only bivariate-0.2.2/bivariate/man/plot3d.Rd |only bivariate-0.2.2/bivariate/man/returned.functions.Rd |only bivariate-0.3.0/bivariate/DESCRIPTION | 19 - bivariate-0.3.0/bivariate/MD5 | 50 +--- bivariate-0.3.0/bivariate/NAMESPACE | 52 +--- bivariate-0.3.0/bivariate/R/bimodal.r | 89 +++---- bivariate-0.3.0/bivariate/R/binomial.r | 51 ++-- bivariate-0.3.0/bivariate/R/cu.r | 100 ++++---- bivariate-0.3.0/bivariate/R/du.r | 74 +++--- bivariate-0.3.0/bivariate/R/kernel.r | 94 ++----- bivariate-0.3.0/bivariate/R/normal.r | 64 ++--- bivariate-0.3.0/bivariate/R/plot2d.r |only bivariate-0.3.0/bivariate/R/poisson.r | 77 +++--- bivariate-0.3.0/bivariate/R/returned_functions.r |only bivariate-0.3.0/bivariate/inst/doc/bivariate.R | 158 +++++++----- bivariate-0.3.0/bivariate/inst/doc/bivariate.Rnw | 246 +++++++++++++------- bivariate-0.3.0/bivariate/inst/doc/bivariate.pdf |binary bivariate-0.3.0/bivariate/man/bimodal.Rd | 23 + bivariate-0.3.0/bivariate/man/binomial.Rd | 6 bivariate-0.3.0/bivariate/man/kernel.Rd | 17 - bivariate-0.3.0/bivariate/man/methods.Rd | 81 ++---- bivariate-0.3.0/bivariate/man/normal.Rd | 10 bivariate-0.3.0/bivariate/man/poisson.Rd | 8 bivariate-0.3.0/bivariate/man/returned_functions.Rd |only bivariate-0.3.0/bivariate/man/uniform.Rd | 8 bivariate-0.3.0/bivariate/vignettes/bivariate.Rnw | 246 +++++++++++++------- 31 files changed, 813 insertions(+), 660 deletions(-)
Title: Visualize Balances of Compositional Data
Description: Balances have become a cornerstone of compositional data analysis. However,
conceptualizing balances is difficult, especially for high-dimensional data. Most often,
investigators visualize balances with "balance dendrograms". However, this visualization
tool does not scale well for large data. This package provides an alternative scheme for
visualizing balances, described in [Quinn (2018) <DOI:10.12688/f1000research.15858.1>].
This package also provides a method for principal balance analysis.
Author: Thomas Quinn [aut, cre]
Maintainer: Thomas Quinn <contacttomquinn@gmail.com>
Diff between balance versions 0.1.6 dated 2018-10-12 and 0.1.9 dated 2018-12-10
balance-0.1.6/balance/R/wide2long.R |only balance-0.1.6/balance/man/pba-class.Rd |only balance-0.1.9/balance/DESCRIPTION | 6 balance-0.1.9/balance/MD5 | 34 ++- balance-0.1.9/balance/NAMESPACE | 5 balance-0.1.9/balance/NEWS.md | 21 ++ balance-0.1.9/balance/R/balance.compute.R | 16 - balance-0.1.9/balance/R/global.R |only balance-0.1.9/balance/R/pba.R | 74 ++++---- balance-0.1.9/balance/R/sbp.R | 172 ++++++++++++++++++++ balance-0.1.9/balance/build/vignette.rds |binary balance-0.1.9/balance/inst/doc/balance.html | 26 +-- balance-0.1.9/balance/man/balance.fromContrast.Rd | 11 - balance-0.1.9/balance/man/packageCheck.Rd |only balance-0.1.9/balance/man/pba.Rd | 69 +++++++- balance-0.1.9/balance/man/sbp.fromABA.Rd |only balance-0.1.9/balance/man/sbp.fromPropd.Rd |only balance-0.1.9/balance/man/sbp.fromRandom.Rd |only balance-0.1.9/balance/man/sbp.subset.Rd |only balance-0.1.9/balance/man/wide2long.Rd | 2 balance-0.1.9/balance/tests/testthat/test-compute.R | 3 balance-0.1.9/balance/tests/testthat/test-sbp.R | 35 ++-- 22 files changed, 358 insertions(+), 116 deletions(-)
Title: Multiple UniDimensional unFOLDing
Description: Nonparametric unfolding item response theory (IRT) model for dichotomous data (see W.H. Van Schuur (1984). Structure in Political Beliefs: A New Model for Stochastic Unfolding with Application to European Party Activists, and W.J.Post (1992). Nonparametric Unfolding Models: A Latent Structure Approach). The package implements MUDFOLD (Multiple UniDimensional unFOLDing), an iterative item selection algorithm that constructs unfolding scales from dichotomous preferential-choice data without explicitly assuming a parametric form of the item response functions. Scale diagnostics from Post(1992) and estimates for the person locations proposed by Johnson(2006) and Van Schuur(1984) are also available. This model can be seen as the unfolding variant of Mokken(1971) scaling method.
Author: Spyros Balafas [aut, cre],
Wim Krijnen [aut],
Wendy Post [ctb],
Ernst Wit [aut]
Maintainer: Spyros Balafas <s.balafas@rug.nl>
Diff between mudfold versions 1.1.0 dated 2017-12-18 and 1.1.1 dated 2018-12-10
mudfold-1.1.0/mudfold/R/data_info.R |only mudfold-1.1.1/mudfold/DESCRIPTION | 20 +- mudfold-1.1.1/mudfold/MD5 | 80 ++++++----- mudfold-1.1.1/mudfold/NAMESPACE | 16 +- mudfold-1.1.1/mudfold/NEWS.md |only mudfold-1.1.1/mudfold/R/ADJ.R | 9 - mudfold-1.1.1/mudfold/R/CADJ.R | 4 mudfold-1.1.1/mudfold/R/DOM.R | 8 - mudfold-1.1.1/mudfold/R/Err_exp_item.R | 24 +-- mudfold-1.1.1/mudfold/R/Err_exp_scale.R | 5 mudfold-1.1.1/mudfold/R/Err_obs.R | 3 mudfold-1.1.1/mudfold/R/Err_obs_item.R | 20 +- mudfold-1.1.1/mudfold/R/Err_obs_scale.R | 11 - mudfold-1.1.1/mudfold/R/Hitem.R | 27 +-- mudfold-1.1.1/mudfold/R/Hscale.R | 7 - mudfold-1.1.1/mudfold/R/Htrip.R | 7 - mudfold-1.1.1/mudfold/R/STATSboot.R |only mudfold-1.1.1/mudfold/R/as.mudfold.R | 94 ++++++++----- mudfold-1.1.1/mudfold/R/boot.mdf.R |only mudfold-1.1.1/mudfold/R/boot_bias_std.R |only mudfold-1.1.1/mudfold/R/data_check.R | 146 +++++++++++++++++++-- mudfold-1.1.1/mudfold/R/mudfold.R | 81 ++++++++--- mudfold-1.1.1/mudfold/R/mudfold_fs.R | 96 ++++++++------ mudfold-1.1.1/mudfold/R/mudfold_se.R | 183 +++++++++++++++------------ mudfold-1.1.1/mudfold/R/mudfoldsim.R | 37 +++-- mudfold-1.1.1/mudfold/R/pick.R | 6 mudfold-1.1.1/mudfold/R/plot.mdf.R | 9 + mudfold-1.1.1/mudfold/R/plot_irf.R | 28 ++-- mudfold-1.1.1/mudfold/R/plot_persons.R |only mudfold-1.1.1/mudfold/R/plot_scale.R | 11 - mudfold-1.1.1/mudfold/R/print.mdf.R | 100 ++++++++------ mudfold-1.1.1/mudfold/R/summary.mdf.R | 57 ++++---- mudfold-1.1.1/mudfold/R/summary_mdf.R |only mudfold-1.1.1/mudfold/R/summary_mdf_boot.R |only mudfold-1.1.1/mudfold/data/Loneliness.RData |only mudfold-1.1.1/mudfold/man/ANDRICH.Rd | 18 +- mudfold-1.1.1/mudfold/man/EURPAR2.Rd | 2 mudfold-1.1.1/mudfold/man/Loneliness.Rd |only mudfold-1.1.1/mudfold/man/as.mudfold.Rd | 59 ++------ mudfold-1.1.1/mudfold/man/mudfold-package.Rd | 14 +- mudfold-1.1.1/mudfold/man/mudfold.Rd | 139 ++++++++++---------- mudfold-1.1.1/mudfold/man/mudfoldsim.Rd | 18 +- mudfold-1.1.1/mudfold/man/pick.Rd | 16 +- mudfold-1.1.1/mudfold/man/plot.mdf.Rd | 18 +- mudfold-1.1.1/mudfold/man/print.mdf.Rd | 13 - mudfold-1.1.1/mudfold/man/summary.mdf.Rd | 32 ++-- 46 files changed, 834 insertions(+), 584 deletions(-)
Title: Dependencies for the 'jamovi' Framework
Description: A framework for creating rich interactive analyses for the jamovi
platform (see <https://www.jamovi.org> for more information).
Author: Jonathon Love
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmvcore versions 0.9.5 dated 2018-11-05 and 0.9.5.2 dated 2018-12-10
DESCRIPTION | 10 ++-- MD5 | 17 +++--- NAMESPACE | 3 + R/analysis.R | 20 ++++++-- R/image.R | 2 R/marshal.R | 106 ++++++++++++++++++++++++++++++++++++++++++ R/options.R | 58 +++++++++++++++++++++-- R/utils.R | 124 +++++++++++++++++++++++++++++++++++++++++++++++++- inst/jamovi.proto | 4 - man/composeFormula.Rd |only 10 files changed, 316 insertions(+), 28 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-26 0.1.1
2018-01-31 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-03 0.1.1
Title: Medical Devices Surveillance
Description: A set of core functions for handling medical device event data in
the context of post-market surveillance, pharmacovigilance, signal detection
and trending, and regulatory reporting. Primary inputs are data on events by
device and data on exposures by device. Outputs include: standardized
device-event and exposure datasets, defined analyses, and time series.
Author: Gary Chung [aut, cre]
Maintainer: Gary Chung <gchung05@gmail.com>
Diff between mds versions 0.2.0 dated 2018-09-26 and 0.2.1 dated 2018-12-10
DESCRIPTION | 10 MD5 | 17 - NEWS.md |only R/define_analyses.R | 304 ++++++++++++++-------- R/plot.R | 18 - R/time_series.R | 138 ++++++---- data/maude.rda |binary inst/doc/mds_intro.html | 630 ++++++++++++++++++++--------------------------- tests/testthat/test_da.R | 211 +++++++++++++++ tests/testthat/test_ts.R | 22 - 10 files changed, 784 insertions(+), 566 deletions(-)