Title: Easily Create and Style Tables for LaTeX, HTML and Other Formats
Description: Like 'xtable', creates styled tables. Export to HTML, LaTeX, 'Word',
'Excel', 'PowerPoint' and RTF. Simple, modern interface to manipulate
borders, size, position, captions, colours, text styles and number formatting.
Table cells can span multiple rows and/or columns.
Includes a 'huxreg' function for creation of regression tables, and 'quick_*'
one-liners to print data to a new document.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between huxtable versions 4.1.0 dated 2018-07-31 and 4.2.0 dated 2018-10-03
huxtable-4.1.0/huxtable/R/HTML.R |only huxtable-4.1.0/huxtable/R/LaTeX.R |only huxtable-4.1.0/huxtable/man/set_all_border_colors.Rd |only huxtable-4.1.0/huxtable/man/set_all_borders.Rd |only huxtable-4.1.0/huxtable/man/set_outer_borders.Rd |only huxtable-4.1.0/huxtable/tests/testthat/test-output.R |only huxtable-4.1.0/huxtable/tests/testthat/test-with-pandoc.R |only huxtable-4.2.0/huxtable/DESCRIPTION | 14 huxtable-4.2.0/huxtable/MD5 | 140 huxtable-4.2.0/huxtable/NAMESPACE | 32 huxtable-4.2.0/huxtable/NEWS.md | 24 huxtable-4.2.0/huxtable/R/Workbook.R | 62 huxtable-4.2.0/huxtable/R/flextable.R | 20 huxtable-4.2.0/huxtable/R/get-set-convenience.R |only huxtable-4.2.0/huxtable/R/html.R |only huxtable-4.2.0/huxtable/R/knitr.R | 23 huxtable-4.2.0/huxtable/R/latex-dependencies.R |only huxtable-4.2.0/huxtable/R/latex.R |only huxtable-4.2.0/huxtable/R/manipulation.R | 154 + huxtable-4.2.0/huxtable/R/misc.R | 213 - huxtable-4.2.0/huxtable/R/properties.R | 301 -- huxtable-4.2.0/huxtable/R/quick-functions.R | 68 huxtable-4.2.0/huxtable/R/row-col-fns.R | 2 huxtable-4.2.0/huxtable/R/rtf.R |only huxtable-4.2.0/huxtable/R/screen.R | 79 huxtable-4.2.0/huxtable/R/themes.R | 32 huxtable-4.2.0/huxtable/R/utils.R | 171 - huxtable-4.2.0/huxtable/R/zzz.R | 2 huxtable-4.2.0/huxtable/README.md | 97 huxtable-4.2.0/huxtable/inst/doc/design-principles.Rmd | 2 huxtable-4.2.0/huxtable/inst/doc/design-principles.html | 248 - huxtable-4.2.0/huxtable/inst/doc/huxreg.html | 328 +- huxtable-4.2.0/huxtable/inst/doc/huxtable.R | 33 huxtable-4.2.0/huxtable/inst/doc/huxtable.Rmd | 82 huxtable-4.2.0/huxtable/inst/doc/huxtable.html | 1428 +++++----- huxtable-4.2.0/huxtable/man/add_rows.Rd | 6 huxtable-4.2.0/huxtable/man/as_Workbook.Rd | 6 huxtable-4.2.0/huxtable/man/as_flextable.Rd | 1 huxtable-4.2.0/huxtable/man/cbind.huxtable.Rd | 6 huxtable-4.2.0/huxtable/man/guess_knitr_output_format.Rd | 3 huxtable-4.2.0/huxtable/man/hux_logo.Rd | 6 huxtable-4.2.0/huxtable/man/insert_column.Rd | 4 huxtable-4.2.0/huxtable/man/left_border_style.Rd |only huxtable-4.2.0/huxtable/man/left_padding.Rd | 17 huxtable-4.2.0/huxtable/man/merge_cells.Rd |only huxtable-4.2.0/huxtable/man/quick-output.Rd | 19 huxtable-4.2.0/huxtable/man/report_latex_dependencies.Rd | 38 huxtable-4.2.0/huxtable/man/rtf_fc_tables.Rd |only huxtable-4.2.0/huxtable/man/sanitize.Rd | 11 huxtable-4.2.0/huxtable/man/set-multiple.Rd |only huxtable-4.2.0/huxtable/man/set_cell_properties.Rd | 2 huxtable-4.2.0/huxtable/man/set_default_properties.Rd | 2 huxtable-4.2.0/huxtable/man/themes.Rd | 12 huxtable-4.2.0/huxtable/man/to_html.Rd | 5 huxtable-4.2.0/huxtable/man/to_latex.Rd | 5 huxtable-4.2.0/huxtable/man/to_md.Rd | 3 huxtable-4.2.0/huxtable/man/to_rtf.Rd |only huxtable-4.2.0/huxtable/man/to_screen.Rd | 9 huxtable-4.2.0/huxtable/man/where.Rd | 1 huxtable-4.2.0/huxtable/tests/testthat/file281627f1097.aux |only huxtable-4.2.0/huxtable/tests/testthat/file281627f1097.log |only huxtable-4.2.0/huxtable/tests/testthat/file281627f1097.pdf |only huxtable-4.2.0/huxtable/tests/testthat/file3bc271a55c23.aux |only huxtable-4.2.0/huxtable/tests/testthat/file3bc271a55c23.log |only huxtable-4.2.0/huxtable/tests/testthat/file3bc271a55c23.pdf |only huxtable-4.2.0/huxtable/tests/testthat/knitr-HTML-tester.Rhtml |only huxtable-4.2.0/huxtable/tests/testthat/knitr-latex-tester.Rnw |only huxtable-4.2.0/huxtable/tests/testthat/setup-functions.R | 15 huxtable-4.2.0/huxtable/tests/testthat/table-tester-2.Rmd | 83 huxtable-4.2.0/huxtable/tests/testthat/table-tester-2.pdf |only huxtable-4.2.0/huxtable/tests/testthat/test-attributes.R | 78 huxtable-4.2.0/huxtable/tests/testthat/test-flextable.R | 2 huxtable-4.2.0/huxtable/tests/testthat/test-huxreg.R | 6 huxtable-4.2.0/huxtable/tests/testthat/test-knit-print.R | 1 huxtable-4.2.0/huxtable/tests/testthat/test-miscellaneous.R | 33 huxtable-4.2.0/huxtable/tests/testthat/test-object-manipulation.R | 21 huxtable-4.2.0/huxtable/tests/testthat/test-print.R |only huxtable-4.2.0/huxtable/tests/testthat/test-quick-output.R | 37 huxtable-4.2.0/huxtable/tests/testthat/test-set-interface.R | 23 huxtable-4.2.0/huxtable/tests/testthat/test-themes.R | 6 huxtable-4.2.0/huxtable/tests/testthat/test-yy-end-to-end.R |only huxtable-4.2.0/huxtable/tests/testthat/test-zz-fuzz.R | 67 huxtable-4.2.0/huxtable/vignettes/comparison.csv | 1 huxtable-4.2.0/huxtable/vignettes/design-principles.Rmd | 2 huxtable-4.2.0/huxtable/vignettes/huxtable.Rmd | 82 85 files changed, 2439 insertions(+), 1729 deletions(-)
Title: Classes and Methods for "Class Discovery" with Microarrays or
Proteomics
Description: Defines the classes used for "class discovery" problems
in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class
discovery primarily consists of unsupervised clustering methods with
attempts to assess their statistical significance.
Author: Kevin R. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between ClassDiscovery versions 3.3.7 dated 2017-07-12 and 3.3.9 dated 2018-10-03
DESCRIPTION | 8 +++--- MD5 | 26 ++++++++++----------- NEWS | 8 +++++- R/cd02-cluster.R | 4 +-- R/cd03-bootclust.R | 8 +++--- R/cd04-perclust.R | 8 +++--- R/cd05-gene-sample-pca.R | 24 ++++++++++---------- R/cd07-mosiac.R | 18 +++++++-------- R/cd08-pcanova.R | 30 ++++++++++++------------- build/vignette.rds |binary inst/doc/maha-test.pdf |binary inst/doc/oompa-cd.pdf |binary tests/exprSet-example.R | 2 - tests/exprSet-example.Rout.save | 48 +++------------------------------------- 14 files changed, 75 insertions(+), 109 deletions(-)
More information about ClassDiscovery at CRAN
Permanent link
Title: Bayesian Structure Learning in Graphical Models using
Birth-Death MCMC
Description: Provides statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889>, Mohammadi et al. (2017) <doi:10.1111/rssc.12171>, and Dobra and Mohammadi (2018) <doi:10.1214/18-AOAS1164>. To speed up the computations, the BDMCMC sampling algorithms are implemented in parallel using OpenMP in C++.
Author: Reza Mohammadi [aut, cre] <https://orcid.org/0000-0001-9538-0648>,
Ernst Wit [aut, cre],
Adrian Dobra [ctb]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between BDgraph versions 2.51 dated 2018-06-21 and 2.52 dated 2018-10-03
DESCRIPTION | 13 MD5 | 156 +++--- NAMESPACE | 20 NEWS | 54 +- R/bdgraph.R | 376 ++++++++------- R/bdgraph.mpl.R | 128 ++--- R/bdgraph.npn.R | 12 R/bdgraph.sim.R | 85 ++- R/bdgraph.ts.R | 398 ++++++++-------- R/check.os.R | 2 R/compare.R | 133 ++--- R/detect_cores.R | 2 R/gnorm.R | 2 R/graph.sim.R | 52 +- R/hill_climb_algorithm.R | 56 +- R/hill_climb_binary.R | 4 R/pgraph.R | 2 R/plinks.R | 2 R/plotcoda.R | 12 R/plotroc.R | 49 + R/rgcwish.R | 6 R/rgwish.R | 16 R/rmvnorm.R | 2 R/select.R | 8 R/traceplot.R | 28 - build/vignette.rds |binary data/churn.RData |only inst/CITATION | 22 inst/TODO |only inst/doc/BDgraph.pdf |binary inst/doc/vignette.Rnw | 6 inst/doc/vignette.pdf |binary inst/doc/vingette.pdf |only man/BDgraph-package.Rd | 42 - man/bdgraph.Rd | 52 +- man/bdgraph.mpl.Rd | 29 - man/bdgraph.npn.Rd | 6 man/bdgraph.sim.Rd | 22 man/bdgraph.ts.Rd | 98 ++- man/churn.Rd |only man/compare.Rd | 156 +++--- man/geneExpression.Rd | 10 man/gnorm.Rd | 10 man/graph.sim.Rd | 24 man/pgraph.Rd | 112 ++-- man/plinks.Rd | 102 ++-- man/plot.bdgraph.Rd | 18 man/plot.graph.Rd | 16 man/plot.sim.Rd | 14 man/plotcoda.Rd | 116 ++-- man/plotroc.Rd | 52 -- man/print.bdgraph.Rd | 92 +-- man/print.sim.Rd | 76 +-- man/reinis.Rd | 10 man/rgcwish.Rd | 8 man/rgwish.Rd | 18 man/rmvnorm.Rd | 18 man/rwish.Rd | 14 man/select.Rd | 114 ++-- man/summary.bdgraph.Rd | 116 ++-- man/surveyData.Rd | 9 man/traceplot.Rd | 100 ++-- man/trensfer.Rd | 7 src/BDgraph_init.c | 72 +- src/bd_for_ts.cpp | 1109 +++++++++++++++++++++++---------------------- src/copula.cpp | 138 ++--- src/copula.h | 6 src/gcgm_DMH.cpp | 491 ++++++++++---------- src/gcgm_bd.cpp | 354 +++++++------- src/ggm_DMH.cpp | 456 +++++++++--------- src/ggm_bd.cpp | 300 ++++++------ src/ggm_mpl_bd.cpp | 491 +++++++++++--------- src/gm_mpl_Hill_Climb.cpp | 48 - src/gm_mpl_bd_dis.cpp | 1128 +++++++++++++++++++++++++--------------------- src/gm_rj.cpp | 266 +++++----- src/matrix.cpp | 276 ++++++----- src/matrix.h | 4 src/rgwish.cpp | 174 +++---- src/rgwish.h | 5 vignettes/BDgraph.pdf |binary vignettes/vignette.Rnw | 6 81 files changed, 4470 insertions(+), 3961 deletions(-)
Title: Variable Length Markov Chains ('VLMC') Models
Description: Functions, Classes & Methods for estimation, prediction, and
simulation (bootstrap) of Variable Length Markov Chain ('VLMC') Models.
Author: Martin Maechler <maechler@stat.math.ethz.ch>
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between VLMC versions 1.4-1 dated 2015-04-17 and 1.4-2 dated 2018-10-03
VLMC-1.4-1/VLMC/src/predict.h |only VLMC-1.4-1/VLMC/src/vlmc_data.h |only VLMC-1.4-2/VLMC/ChangeLog | 5 +++++ VLMC-1.4-2/VLMC/DESCRIPTION | 9 ++++----- VLMC-1.4-2/VLMC/MD5 | 30 +++++++++++++++--------------- VLMC-1.4-2/VLMC/NAMESPACE | 11 ++++++----- VLMC-1.4-2/VLMC/R/vlmc.R | 2 +- VLMC-1.4-2/VLMC/src/cutoffs.c | 2 +- VLMC-1.4-2/VLMC/src/drawvlmc.c | 5 +++-- VLMC-1.4-2/VLMC/src/entropy.c | 11 ++++++----- VLMC-1.4-2/VLMC/src/fitvlmc.c | 5 ++++- VLMC-1.4-2/VLMC/src/init.c |only VLMC-1.4-2/VLMC/src/predict.c | 3 +-- VLMC-1.4-2/VLMC/src/saveload.c | 4 +++- VLMC-1.4-2/VLMC/src/sim.c | 18 ++++++------------ VLMC-1.4-2/VLMC/src/vlmc.h | 22 +++++----------------- VLMC-1.4-2/VLMC/src/vlmc_R_pkg.h |only VLMC-1.4-2/VLMC/src/vlmc_io.h | 4 +++- 18 files changed, 63 insertions(+), 68 deletions(-)
Title: Infers Novel Immunoglobulin Alleles from Sequencing Data
Description: Infers the V genotype of an individual from immunoglobulin (Ig)
repertoire sequencing data (AIRR-Seq, Rep-Seq). Includes detection of
any novel alleles. This information is then used to correct existing V
allele calls from among the sample sequences.
Citations:
Gadala-Maria, et al (2015) <doi:10.1073/pnas.1417683112>.
Author: Daniel Gadala-Maria [aut],
Susanna Marquez [aut],
Moriah Cohen [aut],
Gur Yaari [aut],
Jason Vander Heiden [ctb, cre],
Steven Kleinstein [aut, cph]
Maintainer: Jason Vander Heiden <jason.vanderheiden@yale.edu>
Diff between tigger versions 0.2.11 dated 2017-09-21 and 0.3.0 dated 2018-10-03
tigger-0.2.11/tigger/data/genotype.rda |only tigger-0.2.11/tigger/data/germline_ighv.rda |only tigger-0.2.11/tigger/data/novel_df.rda |only tigger-0.2.11/tigger/data/sample_db.rda |only tigger-0.2.11/tigger/inst/markr |only tigger-0.2.11/tigger/man/genotype.Rd |only tigger-0.2.11/tigger/man/germline_ighv.Rd |only tigger-0.2.11/tigger/man/novel_df.Rd |only tigger-0.2.11/tigger/man/sample_db.Rd |only tigger-0.3.0/tigger/DESCRIPTION | 36 tigger-0.3.0/tigger/MD5 | 82 tigger-0.3.0/tigger/NAMESPACE | 14 tigger-0.3.0/tigger/NEWS.md | 42 tigger-0.3.0/tigger/R/bayesian.R |only tigger-0.3.0/tigger/R/data.R | 175 - tigger-0.3.0/tigger/R/evidence.R |only tigger-0.3.0/tigger/R/functions.R | 2670 +++++++++++---------- tigger-0.3.0/tigger/R/tigger.R | 71 tigger-0.3.0/tigger/README.md | 2 tigger-0.3.0/tigger/build/vignette.rds |binary tigger-0.3.0/tigger/data/GermlineIGHV.rda |only tigger-0.3.0/tigger/data/SampleDb.rda |only tigger-0.3.0/tigger/data/SampleGenotype.rda |only tigger-0.3.0/tigger/data/SampleNovel.rda |only tigger-0.3.0/tigger/data/datalist |only tigger-0.3.0/tigger/inst/doc/Tigger-Vignette.R | 49 tigger-0.3.0/tigger/inst/doc/Tigger-Vignette.Rmd | 171 - tigger-0.3.0/tigger/inst/doc/Tigger-Vignette.pdf |binary tigger-0.3.0/tigger/man/GermlineIGHV.Rd |only tigger-0.3.0/tigger/man/SampleDb.Rd |only tigger-0.3.0/tigger/man/SampleGenotype.Rd |only tigger-0.3.0/tigger/man/SampleNovel.Rd |only tigger-0.3.0/tigger/man/cleanSeqs.Rd | 14 tigger-0.3.0/tigger/man/findNovelAlleles.Rd | 109 tigger-0.3.0/tigger/man/findUnmutatedCalls.Rd | 14 tigger-0.3.0/tigger/man/generateEvidence.Rd |only tigger-0.3.0/tigger/man/genotypeFasta.Rd | 22 tigger-0.3.0/tigger/man/getMutCount.Rd | 19 tigger-0.3.0/tigger/man/getMutatedPositions.Rd | 4 tigger-0.3.0/tigger/man/getPopularMutationCount.Rd | 11 tigger-0.3.0/tigger/man/inferGenotype.Rd | 95 tigger-0.3.0/tigger/man/inferGenotypeBayesian.Rd |only tigger-0.3.0/tigger/man/insertPolymorphisms.Rd | 12 tigger-0.3.0/tigger/man/plotGenotype.Rd | 24 tigger-0.3.0/tigger/man/plotNovel.Rd | 38 tigger-0.3.0/tigger/man/readIgFasta.Rd | 8 tigger-0.3.0/tigger/man/reassignAlleles.Rd | 44 tigger-0.3.0/tigger/man/selectNovel.Rd | 17 tigger-0.3.0/tigger/man/sortAlleles.Rd | 16 tigger-0.3.0/tigger/man/tigger.Rd | 55 tigger-0.3.0/tigger/man/updateAlleleNames.Rd | 22 tigger-0.3.0/tigger/man/writeFasta.Rd | 6 tigger-0.3.0/tigger/vignettes/Tigger-Vignette.Rmd | 171 - 53 files changed, 2216 insertions(+), 1797 deletions(-)
Title: Species Distribution and Stability Future Models
Description: Functions for post processing the outcomes of ecological niche models. It further include methods to build stability maps based on species distribution models under climate change projections and to reduce environmental data.
Author: P. Joser Atauchi [aut, cre]
Maintainer: P. Joser Atauchi <patauchi@gmail.com>
Diff between sdStaf versions 0.1.14 dated 2018-08-11 and 1.0.0 dated 2018-10-03
DESCRIPTION | 7 +++--- MD5 | 20 +++++++++---------- R/reduce.env.R | 35 ++++++---------------------------- R/stim.M.R | 49 +++++++++++++++++++++++++++++++++++++++++++----- inst/doc/reduce.R | 5 +++- inst/doc/reduce.Rmd | 5 +++- inst/doc/reduce.html | 41 +++++++++++++++++++++------------------- inst/doc/stability.html | 4 +-- man/reduce.env.Rd | 15 +++++--------- man/stim.M.Rd | 4 ++- vignettes/reduce.Rmd | 5 +++- 11 files changed, 110 insertions(+), 80 deletions(-)
More information about RcmdrPlugin.RiskDemo at CRAN
Permanent link
Title: Joint Peak Detection in Several ChIP-Seq Samples
Description: Jointly segment several ChIP-seq samples to find the peaks
which are the same and different across samples. The fast approximate
maximum Poisson likelihood algorithm is described in
"PeakSegJoint: fast supervised peak detection via joint segmentation
of multiple count data samples"
<arXiv:1506.01286> by TD Hocking and G Bourque.
Author: Toby Dylan Hocking
Maintainer: Toby Dylan Hocking <toby.hocking@r-project.org>
Diff between PeakSegJoint versions 2018.01.09 dated 2018-10-01 and 2018.10.3 dated 2018-10-03
DESCRIPTION | 6 ++--- MD5 | 10 ++++---- NEWS | 6 +++++ src/PeakSegJoint.c | 4 +-- src/PeakSegJointFaster.c | 51 +++++++++++++++++++++++-------------------- src/PeakSegJoint_interface.c | 4 --- 6 files changed, 45 insertions(+), 36 deletions(-)
Title: Optimal Design and Statistical Power of Multilevel Randomized
Trials
Description: Calculate the optimal sample allocation that minimizes the variance of
treatment effect in multilevel randomized trials under fixed budget and cost structure,
perform power analyses with and without accommodating costs and budget. The references
for proposed methods are:
(1) Shen, Z. (in progress). Using optimal sample allocation to
improve statistical precision and design efficiency for multilevel randomized trials.
(unpublished doctoral dissertation). University of Cincinnati, Cincinnati, OH.
(2) Shen, Z., & Kelcey, B. (revise & resubmit).
Optimal sample allocation accounts for the full variation of sampling costs
in cluster-randomized trials.
Journal of Educational and Behavioral Statistics.
(3) Shen, Z., & Kelcey, B. (2018, April). Optimal design of cluster
randomized trials under condition- and unit-specific cost structures. Roundtable
discussion presented at American Educational Research Association (AERA)
annual conference.
(4) Champely., S. (2018). pwr: Basic functions for power analysis
(Version 1.2-2) [Software]. Available from
<https://CRAN.R-project.org/package=pwr>.
Author: Zuchao Shen [aut, cre],
Ben Kelcey [aut]
Maintainer: Zuchao Shen <shenzo@mail.uc.edu>
Diff between odr versions 0.7.3 dated 2018-01-03 and 1.0.0 dated 2018-10-03
odr-0.7.3/odr/man/odr.Rd |only odr-0.7.3/odr/tests |only odr-1.0.0/odr/DESCRIPTION | 43 ++- odr-1.0.0/odr/MD5 | 67 +++-- odr-1.0.0/odr/NAMESPACE | 9 odr-1.0.0/odr/R/od.1.R |only odr-1.0.0/odr/R/od.2.R | 62 ++--- odr-1.0.0/odr/R/od.2m.R |only odr-1.0.0/odr/R/od.3.R | 74 +++--- odr-1.0.0/odr/R/od.3m.R |only odr-1.0.0/odr/R/od.4.R | 137 ++++++------ odr-1.0.0/odr/R/od.4m.R |only odr-1.0.0/odr/R/odr.R | 46 ++-- odr-1.0.0/odr/R/power.1.R |only odr-1.0.0/odr/R/power.2.R | 151 ++++++------- odr-1.0.0/odr/R/power.2m.R |only odr-1.0.0/odr/R/power.3.R | 161 +++++++------- odr-1.0.0/odr/R/power.3m.R |only odr-1.0.0/odr/R/power.4.R | 203 ++++++++--------- odr-1.0.0/odr/R/power.4m.R |only odr-1.0.0/odr/R/re.R | 441 +++++++++++++++++++++++++++------------ odr-1.0.0/odr/R/rpe.R |only odr-1.0.0/odr/build/vignette.rds |binary odr-1.0.0/odr/inst/NEWS.Rmd | 9 odr-1.0.0/odr/inst/doc/odr.R | 87 ++++--- odr-1.0.0/odr/inst/doc/odr.Rmd | 201 +++++++++-------- odr-1.0.0/odr/inst/doc/odr.html | 181 ++++++++-------- odr-1.0.0/odr/man/od.1.Rd |only odr-1.0.0/odr/man/od.2.Rd | 74 +++--- odr-1.0.0/odr/man/od.2m.Rd |only odr-1.0.0/odr/man/od.3.Rd | 81 +++---- odr-1.0.0/odr/man/od.3m.Rd |only odr-1.0.0/odr/man/od.4.Rd | 108 ++++----- odr-1.0.0/odr/man/od.4m.Rd |only odr-1.0.0/odr/man/odr-package.Rd |only odr-1.0.0/odr/man/power.1.Rd |only odr-1.0.0/odr/man/power.2.Rd | 103 ++++----- odr-1.0.0/odr/man/power.2m.Rd |only odr-1.0.0/odr/man/power.3.Rd | 109 ++++----- odr-1.0.0/odr/man/power.3m.Rd |only odr-1.0.0/odr/man/power.4.Rd | 115 +++++----- odr-1.0.0/odr/man/power.4m.Rd |only odr-1.0.0/odr/man/re.Rd | 59 ++--- odr-1.0.0/odr/man/rpe.Rd |only odr-1.0.0/odr/vignettes/odr.Rmd | 201 +++++++++-------- 45 files changed, 1514 insertions(+), 1208 deletions(-)
Title: Rigorous Data Reduction and Error Propagation of Ar40 / Ar39
Data
Description: Processes noble gas mass spectrometer data to determine the isotopic composition of argon (comprised of Ar36, Ar37, Ar38, Ar39 and Ar40) released from neutron-irradiated potassium-bearing minerals. Then uses these compositions to calculate precise and accurate geochronological ages for multiple samples as well as the covariances between them. Error propagation is done in matrix form, which jointly treats all samples and all isotopes simultaneously at every step of the data reduction process. Includes methods for regression of the time-resolved mass spectrometer signals to t=0 ('time zero') for both single- and multi-collector instruments, blank correction, mass fractionation correction, detector intercalibration, decay corrections, interference corrections, interpolation of the irradiation parameter between neutron fluence monitors, and (weighted mean) age calculation. All operations are performed on the logs of the ratios between the different argon isotopes so as to properly treat them as 'compositional data', sensu Aitchison [1986, The Statistics of Compositional Data, Chapman and Hall].
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between ArArRedux versions 0.2 dated 2015-08-26 and 1.0 dated 2018-10-03
DESCRIPTION | 8 MD5 | 91 +- NAMESPACE | 4 R/Ar40Ar39.R |only R/ArArRedux.R | 1818 ----------------------------------------------- R/Cl.R |only R/J.R |only R/age.R |only R/average.R |only R/blank.R |only R/calibration.R |only R/decay.R |only R/fractionation.R |only R/interference.R |only R/io.R |only R/plot.R |only R/redux2isoplotr.R |only R/test.R |only R/timezero.R |only R/toolbox.R |only inst/AirAX.csv |only inst/AirL1.csv |only man/Melbourne.Rd | 3 man/PHdata.Rd | 3 man/average.Rd | 5 man/averagebyday.Rd | 5 man/blankcorr.Rd | 7 man/blankcorrected.Rd | 3 man/calibration.Rd | 5 man/clcorrection.Rd | 5 man/concat.Rd | 9 man/decaycorrection.Rd | 5 man/fitlogratios.Rd | 7 man/fractionation.Rd | 5 man/get4039.Rd | 5 man/getJfactors.Rd | 5 man/getages.Rd | 5 man/getmasses.Rd | 12 man/interference.Rd | 5 man/loaddata.Rd | 5 man/loadirradiations.Rd | 5 man/logratios.Rd | 3 man/massfractionation.Rd | 8 man/newredux.Rd | 5 man/param.Rd | 9 man/plot.Rd | 7 man/plotcorr.Rd | 5 man/process.Rd | 3 man/read.Rd | 8 man/redux.Rd | 3 man/redux2isoplotr.Rd |only man/results.Rd | 3 man/subset.Rd | 25 man/summary.Rd | 5 man/timeresolved.Rd | 3 man/weightedmean.Rd | 9 56 files changed, 170 insertions(+), 1951 deletions(-)
Title: Searching for Optimal MDS Procedure for Metric and
Interval-Valued Symbolic Data
Description: Selecting the optimal multidimensional scaling (MDS) procedure for metric data via metric MDS (ratio, interval, mspline) and nonmetric MDS (ordinal). Selecting the optimal multidimensional scaling (MDS) procedure for interval-valued data via metric MDS (ratio, interval, mspline).Selecting the optimal multidimensional scaling procedure for interval-valued data by varying all combinations of normalization and optimization methods.Selecting the optimal MDS procedure for statistical data referring to the evaluation of tourist attractiveness of Lower Silesian counties.
(Borg, I., Groenen, P.J.F., Mair, P. (2013) <doi:10.1007/978-3-642-31848-1>,
Groenen, P.J.F., Winsberg, S., Rodriguez, O., Diday, E. (2006) <doi:10.1016/j.csda.2006.04.003>,
Walesiak, M. (2016) <doi:10.15611/ekt.2016.2.01>,
Walesiak, M. (2017) <doi:10.15611/ekt.2017.3.01>).
Author: Marek Walesiak <marek.walesiak@ue.wroc.pl>, Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Maintainer: Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Diff between mdsOpt versions 0.3-1 dated 2018-04-06 and 0.3-2 dated 2018-10-03
DESCRIPTION | 15 ++++------ INDEX | 27 +++++++++++++++++- MD5 | 32 ++++++++++----------- R/drawIsoquants.r | 13 ++++++++ R/optIscalInterval.r | 54 ++++++------------------------------ R/optSmacofSym.r | 20 ++++++++----- R/optSmacofSymInterval.r | 13 +++++--- data/data_lower_silesian.rda |binary man/drawIsoquants.rd | 14 ++++----- man/findOptimalIscalInterval.rd | 6 ++-- man/findOptimalSmacofSym.rd | 8 ++--- man/ispb.rd | 10 +++--- man/optIscalInterval.rd | 21 ++++++++------ man/optSmacofSymInterval.rd | 60 ++++++++++++++++++++++------------------ man/optSmacofSym_mMDS.rd | 14 ++++++--- man/optSmacofSym_nMDS.rd | 15 ++++++---- man/rotation2dAnimation.rd | 2 - 17 files changed, 177 insertions(+), 147 deletions(-)
Title: Wrap R Tools for Debugging and Parametric Programming
Description: Tools for writing and debugging R code. Provides:
'let()'
(converts non-standard evaluation interfaces to parametric standard
evaluation interfaces, inspired by 'gtools:strmacro()' and 'base::bquote()'),
'%.>%' dot-pipe (an 'S3' configurable pipe),
'build_frame()'/'draw_frame()' ('data.frame' example tools),
'qc()' (quoting concatenate),
':=' (named map builder),
'DebugFnW()' (capture function context on error for debugging),
and more.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between wrapr versions 1.6.2 dated 2018-09-10 and 1.6.3 dated 2018-10-03
DESCRIPTION | 8 ++-- MD5 | 78 +++++++++++++++++++++------------------- NAMESPACE | 3 + NEWS.md | 9 ++++ R/DebugFn.R | 12 +++--- R/Reduce.R | 1 R/bpipe.R | 3 + R/cf.R | 1 R/grepdf.R | 2 + R/grepv.R |only R/lambda.R | 3 + R/let.R | 7 ++- R/map_to_char.R | 3 + R/mapvars.R | 4 +- R/mk_formula.R | 67 ++++++++++++++++++++++------------ R/namedMapBuilder.R | 3 + R/partition_tables.R | 1 R/psagg.R |only R/qae.R | 12 +++--- README.md | 14 ++++++- inst/doc/CornerCases.html | 4 +- inst/doc/DebugFnW.html | 6 +-- inst/doc/FrameTools.html | 4 +- inst/doc/Named_Arguments.html | 4 +- inst/doc/SubstitutionModes.R | 9 ++++ inst/doc/SubstitutionModes.Rmd | 12 ++++++ inst/doc/SubstitutionModes.html | 31 ++++++++++++++- inst/doc/dot_pipe.html | 4 +- inst/doc/lambda.html | 4 +- inst/doc/let.html | 4 +- inst/doc/named_map_builder.html | 4 +- inst/doc/wrapr_applicable.html | 4 +- man/dot_arrow.Rd | 3 + man/grepdf.Rd | 3 + man/grepv.Rd |only man/let.Rd | 3 + man/map_to_char.Rd | 4 +- man/mk_formula.Rd | 14 +++++-- man/psagg.Rd |only man/qs.Rd | 4 +- tests/testthat/test_qae.R | 4 +- vignettes/SubstitutionModes.Rmd | 12 ++++++ 42 files changed, 253 insertions(+), 115 deletions(-)
Title: A Suite of Checks for Identification of Potential Errors in a
Data Frame as Part of the Data Screening Process
Description: Data screening is an important first step of any statistical
analysis. dataMaid auto generates a customizable data report with a thorough
summary of the checks and the results that a human can use to identify possible
errors. It provides an extendable suite of test for common potential
errors in a dataset.
Author: Anne Helby Petersen [aut],
Claus Thorn Ekstrøm [aut, cre]
Maintainer: Claus Thorn Ekstrøm <ekstrom@sund.ku.dk>
Diff between dataMaid versions 1.1.2 dated 2018-05-06 and 1.2.0 dated 2018-10-03
DESCRIPTION | 33 +++++------ MD5 | 101 ++++++++++++++++++----------------- NAMESPACE | 16 +++++ R/aggregateForHistogram.R | 51 +++++++++++------ R/allClasses.R | 8 +- R/basicVisual.R | 10 ++- R/centralValue.R | 11 ++- R/check.R | 32 ++++++++++- R/checkFunction.R | 4 - R/dataMaid_as_factor.R |only R/identifyCaseIssues.R | 6 +- R/identifyLoners.R | 10 ++- R/identifyMissing.R | 4 + R/identifyNums.R | 6 +- R/identifyOutliersTBStyle.R | 5 + R/identifyWhitespace.R | 10 ++- R/isCPR.R | 2 R/isSingular.R | 2 R/isSupported.R | 4 + R/makeCodebook.R | 43 ++++++++++---- R/makeDataReport.R | 71 ++++++++++++++++-------- R/misc.R | 1 R/refCat.R |only R/setChecks.R | 10 ++- R/setSummaries.R | 11 +++ R/setVisuals.R | 10 +++ R/standardVisual.R | 16 ++--- R/summarize.R | 47 +++++++++++++++- R/tableVisual.R |only R/uniqueValues.R | 6 +- R/visualize.R | 7 ++ build/vignette.rds |binary inst/doc/extending_dataMaid.html | 98 ++++++++++++++++++++++----------- man/allClasses.Rd | 5 + man/basicVisual.Rd | 4 - man/centralValue.Rd | 4 - man/check.Rd | 1 man/checkFunction.Rd | 4 - man/defaultHavenlabelledChecks.Rd |only man/defaultHavenlabelledSummaries.Rd |only man/identifyCaseIssues.Rd | 2 man/identifyLoners.Rd | 6 +- man/identifyNums.Rd | 2 man/identifyWhitespace.Rd | 4 - man/isSupported.Rd | 1 man/makeDataReport.Rd | 8 +- man/refCat.Rd |only man/setChecks.Rd | 5 + man/setSummaries.Rd | 5 + man/setVisuals.Rd | 8 ++ man/standardVisual.Rd | 4 - man/summarize.Rd | 4 - man/tableVisual.Rd |only tests/testthat/testsummarize.R | 2 tests/testthat/testvariableType.R | 2 55 files changed, 480 insertions(+), 226 deletions(-)
Title: Person Fit
Description: Several person-fit statistics (PFSs) are offered. These statistics allow assessing whether
individual response patterns to tests or questionnaires are (im)plausible given
the other respondents in the sample or given a specified item response theory model. Some PFSs apply to
dichotomous data, such as the likelihood-based PFSs (lz, lz*) and the group-based PFSs
(personal biserial correlation, caution index, (normed) number of Guttman errors,
agreement/disagreement/dependability statistics, U3, ZU3, NCI, Ht). PFSs suitable to polytomous data include
extensions of lz, U3, and (normed) number of Guttman errors.
Author: Jorge N. Tendeiro
Maintainer: Jorge N. Tendeiro <j.n.tendeiro@rug.nl>
Diff between PerFit versions 1.4.2 dated 2018-06-01 and 1.4.3 dated 2018-10-03
DESCRIPTION | 9 +++++---- MD5 | 8 ++++---- R/U3poly.R | 29 ++++++++++++++++++----------- build/partial.rdb |binary man/PerFit-package.Rd | 1 + 5 files changed, 28 insertions(+), 19 deletions(-)
Title: Web Crawler and Scraper
Description: Performs parallel web crawling and web scraping. It is designed to crawl, parse and store web pages to produce data that can be directly used for analysis application. For details see Khalil and Fakir (2017) <DOI:10.1016/j.softx.2017.04.004>.
Author: Salim Khalil [aut, cre]
Maintainer: Salim Khalil <khalilsalim1@gmail.com>
Diff between Rcrawler versions 0.1.7-0 dated 2017-11-01 and 0.1.8-0 dated 2018-10-03
DESCRIPTION | 10 - MD5 | 16 - R/LinkExtractor.R | 30 ++- R/Rcrawlerp.R | 442 +++++++++++++++++++++++++++++--------------------- R/contentscraper.R | 4 R/tools.R | 48 +++++ man/ContentScraper.Rd | 4 man/LinkExtractor.Rd | 2 man/Rcrawler.Rd | 12 - 9 files changed, 350 insertions(+), 218 deletions(-)
Title: Vehicular Emissions Inventories
Description: Elaboration of vehicular emissions inventories,
consisting in four stages, pre-processing activity data, preparing
emissions factors, estimating the emissions and post-processing of emissions
in maps and databases. More details in Ibarra-Espinosa et al (2018) <doi:10.5194/gmd-11-2209-2018>.
Author: Sergio Ibarra-Espinosa [aut, cre]
(<https://orcid.org/0000-0002-3162-1905>),
Daniel Schuch [aut] (<https://orcid.org/0000-0001-5977-4519>)
Maintainer: Sergio Ibarra-Espinosa <sergio.ibarra@usp.br>
Diff between vein versions 0.4.2 dated 2018-08-19 and 0.5.2 dated 2018-10-03
DESCRIPTION | 10 +- MD5 | 96 ++++++++++++++------------ NAMESPACE | 9 ++ NEWS.md | 44 +++++++++++ R/ef_cetesb.R |only R/ef_im.R |only R/ef_ive.R |only R/ef_whe.R |only R/emis.R | 101 +++++++++++++++------------ R/emis_dist.R | 147 ++++++++++++++++++++++++---------------- R/emis_grid.R | 2 R/emis_merge.R | 31 +++++++- R/emis_order.R | 89 +++++++++++++++++++----- R/fuel_corr.R | 13 +++ R/grid_emis.R |only R/sysdata.rda |binary R/vein_notes.R |only inst/README.Rmd | 38 ++++------ inst/README.html | 78 ++++++++++----------- man/EmissionFactors.Rd | 3 man/EmissionFactorsList.Rd | 3 man/Emissions.Rd | 3 man/EmissionsArray.Rd | 3 man/EmissionsList.Rd | 3 man/Evaporative.Rd | 3 man/GriddedEmissionsArray.Rd | 6 - man/Speed.Rd | 3 man/Vehicles.Rd | 3 man/adt.Rd | 3 man/age_hdv.Rd | 4 - man/age_ldv.Rd | 4 - man/age_moto.Rd | 4 - man/ef_cetesb.Rd |only man/ef_fun.Rd | 4 - man/ef_hdv_scaled.Rd | 3 man/ef_im.Rd |only man/ef_ive.Rd |only man/ef_ldv_cold.Rd | 3 man/ef_ldv_speed.Rd | 3 man/ef_whe.Rd |only man/emis_cold.Rd | 7 + man/emis_dist.Rd | 10 +- man/emis_evap.Rd | 3 man/emis_grid.Rd | 2 man/emis_merge.Rd | 7 + man/emis_order.Rd | 25 +++++- man/emis_wear.Rd | 4 - man/fuel_corr.Rd | 17 ++++ man/grid_emis.Rd |only man/invcop.Rd | 6 - man/inventory.Rd | 4 - man/speciate.Rd | 3 man/vein_notes.Rd |only tests/testthat/test-ef_cetesb.R |only tests/testthat/test-ef_ive.R |only tests/testthat/test-emis_dist.R | 4 - 56 files changed, 506 insertions(+), 302 deletions(-)
Title: Joint Mean-Correlation Regression Approach for Discrete
Longitudinal Data
Description: Fit joint mean-correlation models for discrete longitudinal data (Tang CY,Zhang W,
Leng C, 2017 <doi:10.5705/ss.202016.0435>).
Author: Weiping Zhang, Yezhen Li, Chengyong Tang
Maintainer: Jane Lee <mote@mail.ustc.edu.cn>
Diff between jmdl versions 0.2.0 dated 2018-08-03 and 0.3.0 dated 2018-10-03
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/consistent.R | 3 ++- R/jmdl.R | 2 +- R/utilite.R | 32 ++++++++++++++++++++++++-------- 5 files changed, 36 insertions(+), 19 deletions(-)
Title: Visible Vowels: Visualization of Vowel Variation
Description: Visualizes vowel variation in f0, F1, F2, F3 and duration.
Author: Wilbert Heeringa, Hans Van de Velde
Maintainer: Wilbert Heeringa <wjheeringa@gmail.com>
Diff between visvow versions 0.1.0 dated 2018-01-04 and 0.2.0 dated 2018-10-03
visvow-0.1.0/visvow/inst/example_table.xlsx |only visvow-0.2.0/visvow/DESCRIPTION | 17 visvow-0.2.0/visvow/MD5 | 52 visvow-0.2.0/visvow/NAMESPACE | 5 visvow-0.2.0/visvow/R/visvow.R | 5340 ++++++++++++++++++++-------- visvow-0.2.0/visvow/build/partial.rdb |binary visvow-0.2.0/visvow/build/vignette.rds |only visvow-0.2.0/visvow/inst/CITATION | 18 visvow-0.2.0/visvow/inst/REFERENCES.bib | 16 visvow-0.2.0/visvow/inst/doc |only visvow-0.2.0/visvow/inst/example.xlsx |only visvow-0.2.0/visvow/inst/visvow.pdf |only visvow-0.2.0/visvow/man/visvow.Rd | 22 visvow-0.2.0/visvow/tests |only visvow-0.2.0/visvow/vignettes |only 15 files changed, 3919 insertions(+), 1551 deletions(-)
Title: Measure of Agreement Between Two Raters
Description: Measure of agreement delta was originally by Martín & Femia (2004) <DOI:10.1348/000711004849268>.
Since then has been considered as agreement measure for different
fields, since their behavior is usually better than the usual kappa index
by Cohen (1960) <DOI:10.1177/001316446002000104>. The main issue with delta
is that can not be computed by hand contrary to kappa. The current algorithm
is based on the Version 5 of the delta windows program that can be found on
<https://www.ugr.es/~bioest/software/delta/cmd.php?seccion=downloads>.
Author: Antonio Rodriguez [aut, cre]
Maintainer: Antonio Rodriguez <tonirodriguezcontesti@gmail.com>
Diff between Delta versions 0.1.1.11 dated 2017-07-27 and 0.2.0.1 dated 2018-10-03
Delta-0.1.1.11/Delta/R/GetProblemType.R |only Delta-0.1.1.11/Delta/R/TestType.R |only Delta-0.1.1.11/Delta/man/GetProblemType.Rd |only Delta-0.1.1.11/Delta/man/TestType.Rd |only Delta-0.2.0.1/Delta/DESCRIPTION | 26 - Delta-0.2.0.1/Delta/MD5 | 46 + Delta-0.2.0.1/Delta/NAMESPACE | 7 Delta-0.2.0.1/Delta/R/Delta.R | 591 ++++++++++++++----------- Delta-0.2.0.1/Delta/R/GetB.R | 2 Delta-0.2.0.1/Delta/R/GetCovariance.R | 2 Delta-0.2.0.1/Delta/R/GetDeltaPi.R | 64 +- Delta-0.2.0.1/Delta/R/GetDeltaProblemType.r |only Delta-0.2.0.1/Delta/R/GetGoodness.r | 14 Delta-0.2.0.1/Delta/R/GetKappaProblemType.r |only Delta-0.2.0.1/Delta/R/GetM1.R | 17 Delta-0.2.0.1/Delta/R/GetMx.R | 109 +--- Delta-0.2.0.1/Delta/R/print.Delta.R | 349 +++++++------- Delta-0.2.0.1/Delta/R/print.GetGoodness.R |only Delta-0.2.0.1/Delta/R/print.GetM1.R |only Delta-0.2.0.1/Delta/R/summary.Delta.R | 13 Delta-0.2.0.1/Delta/man/CheckInput.Rd | 4 Delta-0.2.0.1/Delta/man/GetB.Rd | 2 Delta-0.2.0.1/Delta/man/GetCovariance.Rd | 2 Delta-0.2.0.1/Delta/man/GetDeltaPi.Rd | 21 Delta-0.2.0.1/Delta/man/GetDeltaProblemType.Rd |only Delta-0.2.0.1/Delta/man/GetGoodness.Rd | 4 Delta-0.2.0.1/Delta/man/GetKappaProblemType.Rd |only Delta-0.2.0.1/Delta/man/GetM1.Rd | 2 Delta-0.2.0.1/Delta/man/GetMx.Rd | 44 - 29 files changed, 652 insertions(+), 667 deletions(-)
Title: Various Plotting Functions
Description: Lots of plots, various labeling, axis and color scaling functions.
Author: Jim Lemon, Ben Bolker, Sander Oom,
Eduardo Klein, Barry Rowlingson,
Hadley Wickham, Anupam Tyagi,
Olivier Eterradossi, Gabor Grothendieck,
Michael Toews, John Kane, Rolf Turner,
Carl Witthoft, Julian Stander, Thomas Petzoldt,
Remko Duursma, Elisa Biancotto, Ofir Levy,
Christophe Dutang, Peter Solymos, Robby Engelmann,
Michael Hecker, Felix Steinbeck, Hans Borchers,
Henrik Singmann, Ted Toal, Derek Ogle, Darshan Baral,
Ulrike Groemping
Maintainer: Jim Lemon <drjimlemon@gmail.com>
Diff between plotrix versions 3.7-3 dated 2018-08-26 and 3.7-4 dated 2018-10-03
DESCRIPTION | 8 +-- MD5 | 20 ++++---- NEWS | 4 + R/barNest.R | 120 ++++++++++++++++++++++++------------------------- R/brkdnNest.R | 70 +++++++++++++++------------- R/color.scale.R | 2 R/drawNestedBars.R | 74 ++++++++++++++---------------- R/taylor.diagram.R | 8 +-- R/thigmophobe.R | 2 man/brkdnNest.Rd | 2 man/plotrix-package.Rd | 8 +-- 11 files changed, 162 insertions(+), 156 deletions(-)
Title: Linking Geographic Information Systems, Remote Sensing and Other
Command Line Tools
Description: Functions to simplify the linking of open source GIS and remote sensing related command line interfaces.
Author: Tim Appelhans [ctb],
Chris Reudenbach [cre, aut]
Maintainer: Chris Reudenbach <reudenbach@uni-marburg.de>
Diff between link2GI versions 0.3-3 dated 2018-09-22 and 0.3-4 dated 2018-10-03
DESCRIPTION | 8 - MD5 | 54 +++---- NEWS | 13 + NEWS.md | 12 + R/grass7Control.R | 324 ++++++++++++++++++++++++------------------- R/linkGDAL.R | 3 R/linkGRASS.R | 357 +++++++++++++++++++++++++----------------------- R/linkOTB.R | 39 +++-- R/linkSAGA.R | 17 +- R/otbControls.R | 59 ++++++- R/parseOTB.R | 5 R/sagaControl.R | 49 +++++- README.md | 51 ++++++ inst/doc/link2GI1.R | 40 +++-- inst/doc/link2GI1.Rmd | 53 ++++--- inst/doc/link2GI1.html | 40 +++-- man/findOTB.Rd | 7 man/linkGDAL.Rd | 3 man/linkGRASS7.Rd | 54 ++++--- man/linkOTB.Rd | 10 - man/linkSAGA.Rd | 8 - man/paramGRASSw.Rd | 4 man/paramGRASSx.Rd | 6 man/parseOTBFunction.Rd | 5 man/searchGRASSX.Rd | 4 man/searchSAGAW.Rd | 2 man/searchSAGAX.Rd | 2 vignettes/link2GI1.Rmd | 53 ++++--- 28 files changed, 780 insertions(+), 502 deletions(-)
Title: Fast Reader for 'Wavefront' OBJ 3D Scene Files
Description: Wraps 'tiny_obj_loader' C++ library for reading the 'Wavefront' OBJ
3D file format including both mesh objects and materials files. The
resultant R objects are either structured to match the 'tiny_obj_loader'
internal data representation or in a form directly compatible with the 'rgl'
package.
Author: Gregory Jefferis [aut, cph, cre],
Syoyo Fujita [aut, cph] (tiny_obj_loader.* are copyright Syoyo Fujita)
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between readobj versions 0.3 dated 2017-11-02 and 0.3.1 dated 2018-10-03
readobj-0.3.1/readobj/DESCRIPTION | 8 ++++--- readobj-0.3.1/readobj/MD5 | 20 +++++++++---------- readobj-0.3.1/readobj/NEWS.md |only readobj-0.3.1/readobj/R/loadobj.R | 11 ++++++---- readobj-0.3.1/readobj/R/mesh3d.R | 2 - readobj-0.3.1/readobj/README.md | 15 ++++++++------ readobj-0.3.1/readobj/inst/obj/cube.wavefront |only readobj-0.3.1/readobj/inst/obj/cube_badmtl.wavefront |only readobj-0.3.1/readobj/man/read.obj.Rd | 13 +++++++++--- readobj-0.3.1/readobj/man/tinyobj2shapelist3d.Rd | 2 - readobj-0.3.1/readobj/tests/testthat/test-loadobj.R | 4 +-- readobj-0.3/readobj/NEWS |only readobj-0.3/readobj/inst/obj/cube.obj |only readobj-0.3/readobj/inst/obj/cube_badmtl.obj |only 14 files changed, 45 insertions(+), 30 deletions(-)
Title: Multivariate Ordinal Regression Models
Description: A flexible framework for fitting multivariate
ordinal regression models with composite likelihood methods.
Author: Rainer Hirk [aut, cre],
Kurt Hornik [aut],
Laura Vana [aut],
Alan Genz [ctb] (Fortran Code)
Maintainer: Rainer Hirk <rhirk@wu.ac.at>
Diff between mvord versions 0.3.1 dated 2018-06-12 and 0.3.2 dated 2018-10-03
mvord-0.3.1/mvord/man/pseudo.R.squared.Rd |only mvord-0.3.2/mvord/DESCRIPTION | 12 mvord-0.3.2/mvord/MD5 | 53 - mvord-0.3.2/mvord/NAMESPACE | 7 mvord-0.3.2/mvord/NEWS | 4 mvord-0.3.2/mvord/R/error_struct.R | 4 mvord-0.3.2/mvord/R/mvord.R | 34 mvord-0.3.2/mvord/R/mvord_fit.R | 6 mvord-0.3.2/mvord/R/predict.R | 15 mvord-0.3.2/mvord/R/se.R | 974 ++++++++++++------------ mvord-0.3.2/mvord/R/utilities.R | 82 +- mvord-0.3.2/mvord/build/vignette.rds |binary mvord-0.3.2/mvord/inst/doc/vignette_mvord.pdf |binary mvord-0.3.2/mvord/inst/doc/vignette_mvord2.Rmd | 4 mvord-0.3.2/mvord/inst/doc/vignette_mvord2.html | 12 mvord-0.3.2/mvord/man/constraints.Rd | 2 mvord-0.3.2/mvord/man/data_cr.Rd | 2 mvord-0.3.2/mvord/man/error_struct.Rd | 2 mvord-0.3.2/mvord/man/error_structure.Rd | 2 mvord-0.3.2/mvord/man/fitted.mvord.Rd | 2 mvord-0.3.2/mvord/man/marginal_predict.Rd | 2 mvord-0.3.2/mvord/man/model.matrix.mvord.Rd | 4 mvord-0.3.2/mvord/man/mvord.Rd | 8 mvord-0.3.2/mvord/man/names_constraints.Rd | 2 mvord-0.3.2/mvord/man/polycor.Rd |only mvord-0.3.2/mvord/man/predict.mvord.Rd | 11 mvord-0.3.2/mvord/man/pseudo_R_squared.Rd |only mvord-0.3.2/mvord/tests/check_methods.R | 4 mvord-0.3.2/mvord/vignettes/vignette_mvord2.Rmd | 4 29 files changed, 663 insertions(+), 589 deletions(-)
Title: Interpretable Machine Learning
Description: Interpretability methods to analyze the behavior and predictions of
any machine learning model.
Implemented methods are:
Feature importance described by Fisher et al. (2018) <arXiv:1801.01489>,
accumulated local effects plots described by Apley (2018) <arXiv:1612.08468>,
partial dependence plots described by Friedman (2001) <http://www.jstor.org/stable/2699986>,
individual conditional expectation ('ice') plots described by Goldstein et al. (2013) <doi:10.1080/10618600.2014.907095>,
local models (variant of 'lime') described by Ribeiro et. al (2016) <arXiv:1602.04938>,
the Shapley Value described by Strumbelj et. al (2014) <doi:10.1007/s10115-013-0679-x>,
feature interactions described by Friedman et. al <doi:10.1214/07-AOAS148> and
tree surrogate models.
Author: Christoph Molnar [aut, cre]
Maintainer: Christoph Molnar <christoph.molnar@gmail.com>
Diff between iml versions 0.7.0 dated 2018-09-11 and 0.7.1 dated 2018-10-03
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 3 R/LocalModel.R | 2 R/Predictor.R | 4 inst/doc/intro.html | 462 +++++++++++++++++++++++++++++++++++-------------- inst/doc/parallel.html | 354 +++++++++++++++++++++++++++++-------- 7 files changed, 633 insertions(+), 210 deletions(-)
Title: Pathwise Calibrated Sparse Shooting Algorithm
Description: Computationally efficient tools for fitting generalized linear model with convex or non-convex penalty. Users can enjoy the superior statistical property of non-convex penalty such as SCAD and MCP which has significantly less estimation error and overfitting compared to convex penalty such as lasso and ridge. Computation is handled by multi-stage convex relaxation and the PathwIse CAlibrated Sparse Shooting algOrithm (PICASSO) which exploits warm start initialization, active set updating, and strong rule for coordinate preselection to boost computation, and attains a linear convergence to a unique sparse local optimum with optimal statistical properties. The computation is memory-optimized using the sparse matrix output.
Author: Jason Ge, Xingguo Li, Haoming Jiang, Mengdi Wang, Tong Zhang, Han Liu and Tuo Zhao
Maintainer: Jason Ge <jiange@princeton.edu>
Diff between picasso versions 1.2.0 dated 2017-12-20 and 1.3.0 dated 2018-10-03
picasso-1.2.0/picasso/src/IRLS_solver.c |only picasso-1.2.0/picasso/src/IRLS_solver.h |only picasso-1.2.0/picasso/src/init.c |only picasso-1.2.0/picasso/src/mathutils.c |only picasso-1.2.0/picasso/src/mathutils.h |only picasso-1.2.0/picasso/src/picasso_gaussian_cov.c |only picasso-1.2.0/picasso/src/picasso_gaussian_naive.c |only picasso-1.2.0/picasso/src/picasso_logit.c |only picasso-1.2.0/picasso/src/picasso_poisson.c |only picasso-1.2.0/picasso/src/picasso_sqrt_lasso.c |only picasso-1.2.0/picasso/src/sse_mathfun.h |only picasso-1.3.0/picasso/DESCRIPTION | 14 picasso-1.3.0/picasso/MD5 | 365 +++++++++++++++++++-- picasso-1.3.0/picasso/R/gaussian_solver.R | 60 +-- picasso-1.3.0/picasso/R/logit_solver.R | 49 +- picasso-1.3.0/picasso/R/picasso.R | 21 - picasso-1.3.0/picasso/R/picasso.gaussian.R | 52 +- picasso-1.3.0/picasso/R/picasso.logit.R | 21 - picasso-1.3.0/picasso/R/picasso.poisson.R | 18 - picasso-1.3.0/picasso/R/picasso.sqrtlasso.R | 17 picasso-1.3.0/picasso/R/poisson_solver.R | 38 +- picasso-1.3.0/picasso/R/sqrtlasso_solver.R | 38 +- picasso-1.3.0/picasso/build/vignette.rds |binary picasso-1.3.0/picasso/inst/doc/PICASSO.pdf |binary picasso-1.3.0/picasso/inst/doc/vignette.pdf |binary picasso-1.3.0/picasso/man/picasso.Rd | 16 picasso-1.3.0/picasso/src/Makevars |only picasso-1.3.0/picasso/src/include |only picasso-1.3.0/picasso/src/picasso-all0.cpp |only picasso-1.3.0/picasso/src/picasso_R.cpp |only picasso-1.3.0/picasso/src/src |only picasso-1.3.0/picasso/vignettes/PICASSO.pdf |binary 32 files changed, 512 insertions(+), 197 deletions(-)
Title: R Interface to NLopt
Description: Solve optimization problems using an R interface to NLopt. NLopt is a
free/open-source library for nonlinear optimization, providing a common
interface for a number of different free optimization routines available
online as well as original implementations of various other algorithms.
See <http://ab-initio.mit.edu/wiki/index.php/NLopt_Introduction> for more
information on the available algorithms. During installation of nloptr on
Unix-based systems, the installer checks whether the NLopt library is
installed on the system. If the NLopt library cannot be found, the code
is compiled using the NLopt source included in the nloptr package.
Author: Jelmer Ypma <uctpjyy@ucl.ac.uk>, with contributions by
Hans W. Borchers <hwborchers@googlemail.com> and
Dirk Eddelbuettel <edd@debian.org>
Maintainer: Jelmer Ypma <uctpjyy@ucl.ac.uk>
Diff between nloptr versions 1.2.0 dated 2018-09-30 and 1.2.1 dated 2018-10-03
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- configure | 8 +++----- configure.ac | 8 +++----- src/nlopt_src/Makefile.in | 2 +- 5 files changed, 15 insertions(+), 19 deletions(-)
Title: Extended Rasch Modeling
Description: Fits Rasch models (RM), linear logistic test models (LLTM), rating scale model (RSM), linear rating scale models (LRSM), partial credit models (PCM), and linear partial credit models (LPCM). Missing values are allowed in the data matrix. Additional features are the ML estimation of the person parameters, Andersen's LR-test, item-specific Wald test, Martin-Loef-Test, nonparametric Monte-Carlo Tests, itemfit and personfit statistics including infit and outfit measures, ICC and other plots, automated stepwise item elimination, simulation module for various binary data matrices.
Author: Patrick Mair [cre, aut],
Reinhold Hatzinger [aut],
Marco J. Maier [aut],
Thomas Rusch [ctb]
Maintainer: Patrick Mair <mair@fas.harvard.edu>
Diff between eRm versions 0.16-1 dated 2018-05-26 and 0.16-2 dated 2018-10-03
eRm-0.16-1/eRm/.Rinstignore |only eRm-0.16-2/eRm/DESCRIPTION | 12 ++++++------ eRm-0.16-2/eRm/MD5 | 20 +++++++++++--------- eRm-0.16-2/eRm/build/vignette.rds |binary eRm-0.16-2/eRm/inst/NEWSRd2txt.R |only eRm-0.16-2/eRm/inst/doc/eRm.pdf |binary eRm-0.16-2/eRm/man/LLRA.Rd | 2 +- eRm-0.16-2/eRm/man/build_W.Rd | 2 +- eRm-0.16-2/eRm/man/collapse_W.Rd | 2 +- eRm-0.16-2/eRm/man/llraDat1.Rd | 3 +-- eRm-0.16-2/eRm/man/llraDat2.Rd | 3 +-- eRm-0.16-2/eRm/man/llradat3.Rd | 3 +-- eRm-0.16-2/eRm/vignettes/UCML.svg |only 13 files changed, 23 insertions(+), 24 deletions(-)
Title: Supervised NMF
Description: Non-negative Matrix Factorization(NMF) is a powerful tool for identifying the key features of microbial communities and a dimension-reduction method. When we are interested in the differences between the structures of two groups of communities, supervised NMF(Yun Cai, Hong Gu and Tobby Kenney (2017),<doi:10.1186/s40168-017-0323-1>) provides a better way to do this, while retaining all the advantages of NMF -- such as interpretability, and being based on a simple biological intuition.
Author: Yun Cai [aut, cre],
Hong Gu [aut],
Toby Kenney [aut]
Maintainer: Yun Cai <Yun.Cai@dal.ca>
Diff between SpNMF versions 0.1.0 dated 2018-09-30 and 0.1.1 dated 2018-10-03
DESCRIPTION | 15 ++++++++++----- MD5 | 2 +- 2 files changed, 11 insertions(+), 6 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-14 0.9.5
2017-04-27 0.8.0
2016-09-14 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-06-11 1.0.3
2014-08-12 1.0.2
2013-10-24 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-10 3.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-12 0.9.5
2017-04-25 0.8.1
2017-04-24 0.8.0
2016-09-11 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-09 1.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-15 0.9.5
2017-04-28 0.8.0
2016-09-18 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-14 0.9.5
2017-04-27 0.8.0
2016-09-14 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-04 1.0.0
2017-10-04 0.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-08-27 1.1
2013-10-19 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-27 1.1.24
2017-05-03 1.1.15
2017-02-27 1.1.10
2016-12-08 1.1.5
2016-11-10 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-15 0.9.5
2017-04-29 0.8.0
2016-09-22 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-15 0.9.5
2017-04-29 0.8.0
2016-09-16 0.6.0
Title: Estimation and Fit Assessment of Frailty Exponential Random
Graph Models
Description: Frailty Exponential Random Graph Models estimated through pseudo likelihood with frailty terms estimated using 'Stan' as per Box-Steffensmeier et. al (2017) <doi:10.7910/DVN/K3D1M2>.
Goodness of fit for Frailty Exponential Random Graph Models is also available, with easy visualizations for comparison to fit Exponential Random Graph Models.
Author: Jason W. Morgan [aut],
Benjamin W. Campbell [aut, cre],
Dino P. Christenson [aut],
Janet M. Box-Steffensmeier [aut]
Maintainer: Benjamin W. Campbell <campbell.1721@osu.edu>
Diff between fergm versions 1.1.2 dated 2018-08-23 and 1.1.3 dated 2018-10-03
DESCRIPTION | 13 - MD5 | 18 - NAMESPACE | 6 NEWS.md | 3 R/compare_predictions.R | 14 - R/compare_predictions_plot.R | 4 R/compare_predictions_test.R | 3 inst/doc/mesaHighVignette.html | 448 +++++++++++++++++++++++++++++----------- man/compare_predictions.Rd | 10 man/compare_predictions_test.Rd | 2 10 files changed, 368 insertions(+), 153 deletions(-)