Title: Cases of COVID-19 in the United States
Description: A wrapper around the 'COVID Tracking Project API'
<https://covidtracking.com/api/> providing data on cases of COVID-19
in the US.
Author: Amanda Dobbyn [aut, cre]
Maintainer: Amanda Dobbyn <amanda.e.dobbyn@gmail.com>
Diff between covid19us versions 0.1.0 dated 2020-03-23 and 0.1.1 dated 2020-03-23
DESCRIPTION | 14 +++++----- MD5 | 10 +++---- R/get.R | 25 ++++++++++++++++--- R/utils.R | 22 +++++++++++++--- README.md | 60 ++++++++++++++++++++++++++-------------------- tests/testthat/test-all.R | 16 +++--------- 6 files changed, 92 insertions(+), 55 deletions(-)
Title: Access and Analyze eBird Status and Trends Data
Description: Tools to download, map, plot and analyze eBird
Status and Trends data
(<https://ebird.org/science/status-and-trends>). eBird
(<https://ebird.org>) is a global database of bird observations
collected by citizen scientists. eBird Status and Trends uses these
data to analyze continental bird abundances, range boundaries,
habitats, and trends.
Author: Matthew Strimas-Mackey [aut, cre]
(<https://orcid.org/0000-0001-8929-7776>),
Tom Auer [aut] (<https://orcid.org/0000-0001-8619-7147>),
Daniel Fink [aut] (<https://orcid.org/0000-0002-8368-1248>),
Cornell Lab of Ornithology [cph]
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>
Diff between ebirdst versions 0.2.0 dated 2020-02-26 and 0.2.1 dated 2020-03-23
DESCRIPTION | 14 MD5 | 34 NAMESPACE | 4 NEWS.md | 8 R/ebirdst-extent.R | 3 R/ebirdst-mapping.R | 2 R/utils-pipe.R |only build/vignette.rds |binary data/ebirdst_runs.rda |binary inst/doc/ebirdst-advanced-mapping.R | 17 inst/doc/ebirdst-advanced-mapping.Rmd | 1189 ++++++++++++++++----------------- inst/doc/ebirdst-advanced-mapping.html | 59 - inst/doc/ebirdst-intro-mapping.html | 4 inst/doc/ebirdst-introduction.html | 4 inst/doc/ebirdst-non-raster.html | 4 man/ebirdst_predictors.Rd | 6 man/ebirdst_runs.Rd | 6 man/pipe.Rd |only vignettes/ebirdst-advanced-mapping.Rmd | 1189 ++++++++++++++++----------------- 19 files changed, 1274 insertions(+), 1269 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
jQuery contributors [ctb, cph] (jQuery in htmlwidgets/lib),
SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib),
Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib),
Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib),
Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib),
RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.12 dated 2020-02-05 and 0.13 dated 2020-03-23
DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/pdfmake.min.js |only DT-0.13/DT/DESCRIPTION | 10 - DT-0.13/DT/MD5 | 20 +- DT-0.13/DT/R/datatables.R | 2 DT-0.13/DT/R/format.R | 77 ++++++---- DT-0.13/DT/R/shiny.R | 5 DT-0.13/DT/build/vignette.rds |binary DT-0.13/DT/inst/doc/DT.html | 69 ++++---- DT-0.13/DT/inst/htmlwidgets/css/datatables-crosstalk.css | 16 ++ DT-0.13/DT/inst/htmlwidgets/datatables.js | 51 +++--- DT-0.13/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/pdfmake.js |only DT-0.13/DT/inst/htmlwidgets/lib/datatables/css/jquery.dataTables.extra.css | 20 ++ 12 files changed, 165 insertions(+), 105 deletions(-)
Title: Interface to 'typeform' Results
Description: An R interface to the 'typeform'
<https://typeform.com> application program interface. Also provides
functions for downloading your results.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between rtypeform versions 2.0.0 dated 2018-08-28 and 2.0.1 dated 2020-03-23
rtypeform-2.0.0/rtypeform/R/zzz.R |only rtypeform-2.0.1/rtypeform/DESCRIPTION | 32 +-- rtypeform-2.0.1/rtypeform/MD5 | 49 +++-- rtypeform-2.0.1/rtypeform/NAMESPACE | 13 + rtypeform-2.0.1/rtypeform/NEWS.md | 5 rtypeform-2.0.1/rtypeform/R/auth.R |only rtypeform-2.0.1/rtypeform/R/delete_responses.R | 1 rtypeform-2.0.1/rtypeform/R/get_api.R | 11 - rtypeform-2.0.1/rtypeform/R/get_form.R | 1 rtypeform-2.0.1/rtypeform/R/get_forms.R | 3 rtypeform-2.0.1/rtypeform/R/get_responses.R | 20 +- rtypeform-2.0.1/rtypeform/R/httr_responses.R | 31 +++ rtypeform-2.0.1/rtypeform/R/options.R |only rtypeform-2.0.1/rtypeform/R/rest_argument_formatting.R | 1 rtypeform-2.0.1/rtypeform/R/themes.R | 11 - rtypeform-2.0.1/rtypeform/R/workspaces.R | 2 rtypeform-2.0.1/rtypeform/README.md | 93 ++++++++-- rtypeform-2.0.1/rtypeform/man/check_api_response.Rd |only rtypeform-2.0.1/rtypeform/man/create_theme.Rd | 37 ++- rtypeform-2.0.1/rtypeform/man/get_authorization.Rd |only rtypeform-2.0.1/rtypeform/man/get_forms.Rd | 9 rtypeform-2.0.1/rtypeform/man/get_response.Rd |only rtypeform-2.0.1/rtypeform/man/get_responses.Rd | 15 + rtypeform-2.0.1/rtypeform/man/get_workspaces.Rd | 9 rtypeform-2.0.1/rtypeform/man/make_new_token.Rd |only rtypeform-2.0.1/rtypeform/man/post_response.Rd |only rtypeform-2.0.1/rtypeform/man/rtypeform_set_scope.Rd |only rtypeform-2.0.1/rtypeform/tests/testthat/test_api_response.R | 2 rtypeform-2.0.1/rtypeform/tests/testthat/test_get_forms.R | 2 rtypeform-2.0.1/rtypeform/tests/testthat/test_get_responses.R | 4 30 files changed, 247 insertions(+), 104 deletions(-)
Title: Tools for working with the National Hydrography Dataset
Description: Tools for working with the National Hydrography Dataset, with
functions for querying, downloading, and networking both the NHD
<https://www.usgs.gov/core-science-systems/ngp/national-hydrography>
and NHDPlus <https://nhdplus.com/NHDPlus/> datasets.
Author: Joseph Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>)
Maintainer: Joseph Stachelek <stachel2@msu.edu>
Diff between nhdR versions 0.5.2 dated 2019-05-01 and 0.5.3 dated 2020-03-23
DESCRIPTION | 13 ++- MD5 | 54 ++++++++------- NEWS.md | 5 + R/get.R | 7 +- R/load.R | 4 - R/utils.R | 10 +- R/zzz.R | 5 + README.md | 4 - build/vignette.rds |binary inst/CITATION |only inst/doc/demo.R | 6 - inst/doc/demo.html | 52 ++++++++------- inst/doc/flow.R | 14 ++-- inst/doc/flow.html | 106 ++++++++++++++++--------------- inst/doc/network.R | 12 +-- inst/doc/network.html | 70 +++++++++++--------- man/extract_network.Rd | 11 ++- man/figures/README-unnamed-chunk-4-1.png |binary man/leaf_reaches.Rd | 3 man/nhd_plus_get.Rd | 8 +- man/nhd_plus_load.Rd | 12 ++- man/nhd_plus_query.Rd | 11 ++- man/terminal_reaches.Rd | 14 +++- tests/testthat/test-7z.R |only tests/testthat/test-get.R | 14 ++-- tests/testthat/test-info.R | 2 tests/testthat/test-list.R | 4 - tests/testthat/test-load.R | 28 +++++++- tests/testthat/test-utils.R | 7 +- 29 files changed, 289 insertions(+), 187 deletions(-)
Title: Local Regression, Likelihood and Density Estimation.
Description: Local regression, likelihood and density estimation.
Author: Catherine Loader
Maintainer: Andy Liaw <andy_liaw@merck.com>
Diff between locfit versions 1.5-9.1 dated 2013-04-20 and 1.5-9.2 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/locfit.raw.Rd | 3 --- 3 files changed, 5 insertions(+), 8 deletions(-)
More information about weightedScores at CRAN
Permanent link
Title: Stability Measures for Feature Selection
Description: An implementation of many measures for the assessment of the stability
of feature selection. Both simple measures and measures which take into account
the similarities between features are available, see Bommert et al. (2017) <doi:10.1155/2017/7907163>.
Author: Andrea Bommert [aut, cre]
Maintainer: Andrea Bommert <bommert@statistik.tu-dortmund.de>
Diff between stabm versions 1.1.1 dated 2020-02-26 and 1.1.2 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/other_adjusted_measures.R | 6 ++++-- R/stability_functions_adjusted.R | 28 ++++++++++++---------------- man/stabilityIntersectionCount.Rd | 7 +++---- man/stabilityIntersectionGreedy.Rd | 5 ++--- man/stabilityIntersectionMBM.Rd | 5 ++--- man/stabilityIntersectionMean.Rd | 7 +++---- man/stabilityYu.Rd | 4 ++-- 9 files changed, 39 insertions(+), 45 deletions(-)
Title: Scelestial: Steiner Tree Based Single-Cell Lineage Tree
Inference
Description: Scelestial infers a lineage tree from single-cell DNA mutation matrix.
It generates a tree with approximately maximum parsimony through
a Steiner tree approximation algorithm.
Author: Mohammad Hadi Foroughmand Araabi [aut, cre],
Sama Goliaei [aut, ctb],
Alice McHardy [ctb]
Maintainer: Mohammad Hadi Foroughmand Araabi <foroughmand@gmail.com>
Diff between RScelestial versions 1.0.0 dated 2019-11-28 and 1.0.1 dated 2020-03-23
DESCRIPTION | 12 MD5 | 30 - R/scelestial.R | 45 - build/vignette.rds |binary inst/doc/RScelestial-vignette.R | 18 inst/doc/RScelestial-vignette.html | 918 +++++++++++++++++-------------- man/Li.Rd | 6 man/RScelestial.Rd | 1 man/as.mutation.matrix.Rd | 3 man/as.ten.state.matrix.Rd | 3 man/as.ten.state.matrix.from.node.seq.Rd | 3 man/dot-synthesis.Rd | 20 man/my.general.dfs.Rd | 12 man/scelestial.Rd | 10 man/synthesis.Rd | 20 src/scelestial.cc | 4 16 files changed, 627 insertions(+), 478 deletions(-)
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics.
Tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Peter Rousseeuw [ctb] (Qn and Sn),
Christophe Croux [ctb] (Qn and Sn),
Valentin Todorov [aut] (most robust Cov),
Andreas Ruckstuhl [aut] (nlrob, anova, glmrob),
Matias Salibian-Barrera [aut] (lmrob orig.),
Tobias Verbeke [ctb, fnd] (mc, adjbox),
Manuel Koller [aut] (mc, lmrob, psi-func.),
Eduardo L. T. Conceicao [aut] (MM-, tau-, CM-, and MTL- nlrob),
Maria Anna di Palma [ctb] (initial version of Comedian)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between robustbase versions 0.93-5 dated 2019-05-12 and 0.93-6 dated 2020-03-23
DESCRIPTION | 10 MD5 | 90 +++---- R/lmrob.M.S.R | 2 R/lmrob.MM.R | 55 +--- R/lmrob.R | 4 TODO | 1 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 19 + inst/doc/fastMcd-kmini.pdf |binary inst/doc/lmrob_simulation.pdf |binary inst/doc/psi_functions.pdf |binary man/lmrob.Rd | 10 man/splitFrame.Rd | 11 src/lmrob.c | 45 ++- src/mc.c | 26 +- src/monitor.c | 19 + src/rffastmcd.f | 55 ++-- src/rfltsreg.f | 346 +++++++++++++++-------------- src/robustbase.h | 46 +-- tests/lmrob-data.R | 52 +++- tests/nlregrob-tst.R | 22 - tests/poisson-ex.R | 53 +++- vignettes/plot-fig-AdB2-1.pdf |binary vignettes/plot-fig-Mscale-all.pdf |binary vignettes/plot-fig-Mscale.pdf |binary vignettes/plot-fig-cpr.pdf |binary vignettes/plot-fig-efficiency-all.pdf |binary vignettes/plot-fig-efficiency.pdf |binary vignettes/plot-fig-emp-level.pdf |binary vignettes/plot-fig-example-design.pdf |binary vignettes/plot-fig-lqq-level.pdf |binary vignettes/plot-fig-max-asymptotic-bias.pdf |binary vignettes/plot-fig-meanscale.pdf |binary vignettes/plot-fig-power-1-0_2.pdf |binary vignettes/plot-fig-power-1-0_4.pdf |binary vignettes/plot-fig-power-1-0_6.pdf |binary vignettes/plot-fig-power-1-0_8.pdf |binary vignettes/plot-fig-power-1-1.pdf |binary vignettes/plot-fig-pred-points.pdf |binary vignettes/plot-fig-psi-functions.pdf |binary vignettes/plot-fig-qscale-all.pdf |binary vignettes/plot-fig-qscale.pdf |binary vignettes/plot-fig-sdAdB2-1.pdf |binary vignettes/plot-fig-sdscale-1.pdf |binary vignettes/plot-fig-sdscale-all.pdf |binary 46 files changed, 491 insertions(+), 375 deletions(-)
Title: Multiple Grubbs-Beck Low-Outlier Test
Description: Compute the multiple Grubbs-Beck low-outlier test on positively distributed
data and utilities for noninterpretive U.S. Geological Survey annual peak-streamflow
data processing discussed in Cohn et al. (2013) <doi:10.1002/wrcr.20392> and
England et al. (2017) <doi:10.3133/tm4B5>.
Author: William H. Asquith [aut, cre], John F. England [aut, ctb], George R. Herrmann [ctb]
Maintainer: William H. Asquith <wasquith@usgs.gov>
Diff between MGBT versions 1.0.2 dated 2019-10-31 and 1.0.4 dated 2020-03-23
DESCRIPTION | 8 ++-- MD5 | 22 +++++++----- NAMESPACE | 5 +- NEWS | 16 +++++++++ R/plotPeaks_batch.R |only R/splitPeakCodes.R | 8 +++- README.md | 64 ++++++++++++++++++++---------------- inst/CITATION | 6 +-- inst/INSTALL_HELP.md |only inst/www/README.md | 9 ++--- inst/www/step1_src_MGBT_install.png |only inst/www/step2_src_MGBT_install.png |only inst/www/step3_src_MGBT_install.png |only man/plotPeaks.Rd | 2 - man/plotPeaks_batch.Rd |only 15 files changed, 88 insertions(+), 52 deletions(-)
Title: Learn Computer and Data Science using Algorithmic Trading
Description: Provide sets of functions and methods to learn and practice data science using idea of algorithmic trading.
Main goal is to process information within "Decision Support System" to come up with analysis or predictions.
There are several utilities such as dynamic and adaptive risk management using reinforcement learning
and even functions to generate predictions of price changes using pattern recognition deep regression learning.
Author: Vladimir Zhbanko
Maintainer: Vladimir Zhbanko <vladimir.zhbanko@gmail.com>
Diff between lazytrade versions 0.3.9 dated 2020-01-09 and 0.3.10 dated 2020-03-23
DESCRIPTION | 8 - MD5 | 104 ++++++++++-------- NAMESPACE | 4 NEWS.md | 11 + R/aml_collect_data.R | 2 R/aml_make_model.R | 5 R/aml_score_data.R | 7 + R/aml_test_model.R | 7 + R/datasets.R | 74 +++++++++++++ R/decrypt_mykeys.R | 26 +++- R/encrypt_api_key.R |only R/evaluate_market_type.R | 43 +++++-- R/mt_make_model.R |only R/record_policy.R | 2 R/record_policy_mt.R | 2 R/self_learn_ai_R.R | 32 ++++- R/test_model.R | 2 R/util_generate_password.R | 4 R/write_ini_file.R | 2 R/zzz.R | 2 README.md | 25 +++- data/datalist |only data/indicator_dataset_big.rda |only data/macd_100.rda |only data/macd_ML2_small.rda |only data/price_dataset_big.rda |only man/DFR.Rd | 6 - man/EURUSDM15X75.Rd | 36 +++--- man/TradeStatePolicy.Rd | 36 +++--- man/aml_collect_data.Rd | 2 man/aml_make_model.Rd | 173 +++++++++++++++--------------- man/aml_score_data.Rd | 189 +++++++++++++++++---------------- man/aml_test_model.Rd | 190 +++++++++++++++++----------------- man/data_trades.Rd | 6 - man/decrypt_mykeys.Rd | 91 +++++++++------- man/encrypt_api_key.Rd |only man/evaluate_market_type.Rd | 128 +++++++++++++--------- man/indicator_dataset.Rd | 36 +++--- man/indicator_dataset_big.Rd |only man/macd_100.Rd |only man/macd_ML2_small.Rd |only man/macd_df.Rd | 34 +++--- man/mt_make_model.Rd |only man/policy_tr_systDF.Rd | 36 +++--- man/price_dataset.Rd | 36 +++--- man/price_dataset_big.Rd |only man/profit_factorDF.Rd | 6 - man/profit_factor_data.Rd | 6 - man/record_policy.Rd | 2 man/record_policy_mt.Rd | 2 man/result_R.Rd | 36 +++--- man/result_prev.Rd | 34 +++--- man/self_learn_ai_R.Rd | 175 +++++++++++++++++-------------- man/test_data_pattern.Rd | 6 - man/test_model.Rd | 2 man/trading_systemDF.Rd | 6 - man/util_generate_password.Rd | 4 man/write_ini_file.Rd | 2 man/x_test_model.Rd | 36 +++--- tests/testthat/test-encrypt_api_key.R |only 60 files changed, 976 insertions(+), 702 deletions(-)
Title: Parametric G-Formula
Description: Implements the parametric g-formula algorithm of Robins (1986)
<doi:10.1016/0270-0255(86)90088-6>. The g-formula can be used to estimate
the causal effects of hypothetical time-varying treatment interventions on
the mean or risk of an outcome from longitudinal data with time-varying
confounding. This package allows: 1) binary or continuous/multi-level
time-varying treatments; 2) different types of outcomes (survival or
continuous/binary end of follow-up); 3) data with competing events or
truncation by death and loss to follow-up and other types of censoring
events; 4) different options for handling competing events in the case of
survival outcomes; 5) a random measurement/visit process; 6) joint
interventions on multiple treatments; and 7) general incorporation of a
priori knowledge of the data structure.
Author: Victoria Lin [aut] (V. Lin and S. McGrath made equal contributions),
Sean McGrath [aut, cre] (<https://orcid.org/0000-0002-7281-3516>, V.
Lin and S. McGrath made equal contributions),
Zilu Zhang [aut],
Roger W. Logan [aut],
Lucia C. Petito [aut],
Jessica G. Young [aut] (<https://orcid.org/0000-0002-2758-6932>, M.A.
Hernán and J.G. Young made equal contributions),
Miguel A. Hernán [aut] (M.A. Hernán and J.G. Young made equal
contributions),
2019 The President and Fellows of Harvard College [cph]
Maintainer: Sean McGrath <sean_mcgrath@g.harvard.edu>
Diff between gfoRmula versions 0.3.0 dated 2020-01-30 and 0.3.1 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/s3methods.R | 2 +- man/coef.gformula.Rd | 2 +- 5 files changed, 13 insertions(+), 9 deletions(-)
Title: Analysis and Visualization of Droplet Digital PCR in R and on
the Web
Description: An interface to explore, analyze, and visualize droplet digital PCR
(ddPCR) data in R. This is the first non-proprietary software for analyzing
two-channel ddPCR data. An interactive tool was also created and is available
online to facilitate this analysis for anyone who is not comfortable with
using R.
Author: Dean Attali [aut, cre]
Maintainer: Dean Attali <daattali@gmail.com>
Diff between ddpcr versions 1.13 dated 2020-02-28 and 1.14 dated 2020-03-23
DESCRIPTION | 11 MD5 | 62 - NEWS.md | 4 R/empty.R | 2 R/outliers.R | 2 R/plate-utils.R | 2 R/read.R | 2 R/utils.R | 10 build/vignette.rds |binary inst/doc/algorithm.R | 2 inst/doc/algorithm.html | 401 ++---- inst/doc/extend.R | 16 inst/doc/extend.html | 833 ++++++------- inst/doc/overview.R | 74 - inst/doc/overview.Rmd | 2 inst/doc/overview.html | 1316 ++++++++++++---------- inst/doc/technical_details.R | 2 inst/doc/technical_details.html | 396 ++---- man/WELL_ID_REGEX.Rd | 4 man/classify_droplets_single.pnpp_experiment.Rd | 3 man/ddpcr.Rd | 1 man/get_single_well.Rd | 9 man/plot.custom_thresholds.Rd | 16 man/plot.ddpcr_plate.Rd | 45 man/plot.pnpp_experiment.Rd | 26 man/plot.wildtype_mutant_pnpp.Rd | 22 man/reclassify_droplets_single.pnpp_experiment.Rd | 3 man/subset.ddpcr_plate.Rd | 3 tests/testthat/test-pnpp_experiment-filled.R | 2 tests/testthat/test-read.R | 10 tests/testthat/test-v174.R | 2 vignettes/overview.Rmd | 2 32 files changed, 1668 insertions(+), 1617 deletions(-)
Title: Ranking Nodes in Bipartite and Weighted Networks
Description: Highly efficient functions for estimating various rank (centrality) measures of nodes in bipartite graphs (two-mode networks). Includes methods for estimating HITS, CoHITS, BGRM, and BiRank with implementation primarily inspired by He et al. (2016) <doi:10.1109/TKDE.2016.2611584>. Also provides easy-to-use tools for efficiently estimating PageRank in one-mode graphs, incorporating or removing edge-weights during rank estimation, projecting two-mode graphs to one-mode, and for converting edgelists and matrices to sparseMatrix format. Best of all, the package's rank estimators can work directly with common formats of network data including edgelists (class data.frame, data.table, or tbl_df) and adjacency matrices (class matrix or dgCMatrix).
Author: Brian Aronson [aut, cre],
Kai-Cheng Yang [aut]
Maintainer: Brian Aronson <bdaronson@gmail.com>
Diff between birankr versions 1.0.0 dated 2020-01-26 and 1.0.1 dated 2020-03-23
DESCRIPTION | 7 - LICENSE | 2 MD5 | 45 +++++----- R/00.1_bipartite_pagerank_from_matrix.R | 2 R/04_sparsematrix_from_edgelist.R | 20 ++-- R/05_bipartite_rank.R | 42 +++------ R/06_PageRank.R | 90 +++++++++----------- R/07_HITS.R | 142 ++++---------------------------- R/08_CoHITS.R | 139 +++---------------------------- R/09_BGRM.R | 139 +++---------------------------- R/10_BiRank.R | 139 +++---------------------------- README.md | 130 ++++++++++++++++++++++++----- build/partial.rdb |binary man/bipartite_rank.Rd | 2 man/br_bgrm.Rd | 2 man/br_birank.Rd | 2 man/br_cohits.Rd | 2 man/br_hits.Rd | 2 man/pagerank.Rd | 20 ++-- man/sparsematrix_from_edgelist.Rd | 2 tests |only 21 files changed, 296 insertions(+), 633 deletions(-)
Title: Spatially- and Temporally-Explicit Population Simulator
Description: Software to simulate population change across space and time.
Author: Casey Visintin [aut, cre],
Nick Golding [ctb],
Skipton Woolley [ctb],
John Baumgartner [ctb]
Maintainer: Casey Visintin <casey.visintin@unimelb.edu.au>
Diff between steps versions 1.0.0 dated 2020-01-21 and 1.1.0 dated 2020-03-23
DESCRIPTION | 8 +- MD5 | 26 +++---- R/RcppExports.R | 4 - R/dispersal_proportion_functions-class.R | 5 - R/growth_transition_functions-class.R | 68 +++++++++++--------- R/population_density_dependence-functions.R | 3 R/population_dispersal-functions.R | 8 +- R/simulation_results-class.R | 23 +++++- R/steps.R | 1 build/vignette.rds |binary src/RcppExports.cpp | 8 +- src/rcpp_dispersal_funs_v4.cpp | 94 +++++++++++++--------------- vignettes/custom_function_example.html | 24 +++---- vignettes/kangaroo_model_example.html | 30 ++++---- 14 files changed, 166 insertions(+), 136 deletions(-)
Title: Multiple Mediation Analysis
Description: Used for general multiple mediation analysis.
The analysis method is described in Yu et al. (2014) <doi:10.4172/2155-6180.1000189> "General Multiple Mediation Analysis With an Application to Explore Racial Disparity in Breast Cancer Survival", published on Journal of Biometrics & Biostatistics, 5(2):189; and Yu et al.(2017) <DOI:10.1016/j.sste.2017.02.001> "Exploring racial disparity in obesity: a mediation analysis considering geo-coded environmental factors", published on Spatial and Spatio-temporal Epidemiology, 21, 13-23.
Author: Qingzhao Yu and Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mma versions 10.0-0 dated 2020-03-18 and 10.2-2 dated 2020-03-23
mma-10.0-0/mma/R/moderation.R |only mma-10.0-0/mma/man/boot.med.par.Rd |only mma-10.0-0/mma/man/mma.par.Rd |only mma-10.2-2/mma/DESCRIPTION | 8 mma-10.2-2/mma/MD5 | 43 mma-10.2-2/mma/NAMESPACE | 2 mma-10.2-2/mma/R/mma.r | 4073 ++++------ mma-10.2-2/mma/data/cgd1.rda |only mma-10.2-2/mma/inst/doc/MMAvignette.R | 1 mma-10.2-2/mma/inst/doc/MMAvignette.Rmd | 2 mma-10.2-2/mma/inst/doc/MMAvignette.html | 149 mma-10.2-2/mma/man/boot.med.Rd | 27 mma-10.2-2/mma/man/boot.mod.Rd | 26 mma-10.2-2/mma/man/cgd1.Rd |only mma-10.2-2/mma/man/data.org.Rd | 3 mma-10.2-2/mma/man/med.Rd | 3 mma-10.2-2/mma/man/mma-package.Rd | 6 mma-10.2-2/mma/man/mma.Rd | 26 mma-10.2-2/mma/vignettes/MMAvignette.Rmd | 2 mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-10-3.png |binary mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-13-1.png |binary mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-16-1.png |binary mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-19-1.png |binary mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-22-1.png |binary mma-10.2-2/mma/vignettes/MMAvignette_files/figure-html/unnamed-chunk-23-1.png |binary 25 files changed, 1989 insertions(+), 2382 deletions(-)
Title: Matching and Weighting Multiply Imputed Datasets
Description: Provides the necessary tools for the pre-processing techniques of matching and weighting multiply imputed datasets to control for effects of confounders and to reduce the degree of dependence on certain modeling assumptions in studying the causal associations between an exposure and an outcome. This package includes functions to perform matching within and across the multiply imputed datasets using several matching methods, to estimate weights of units in the imputed datasets using several weighting methods, to calculate the causal effect estimate in each matched or weighted dataset using parametric or non-parametric statistical models, and to pool the obtained estimates from these models according to Rubin's rules (please see <https://github.com/FarhadPishgar/MatchThem> for details).
Author: Farhad Pishgar [aut, cre],
Noah Greifer [aut],
Clémence Leyrat [ctb],
Elizabeth Stuart [ctb]
Maintainer: Farhad Pishgar <Farhad.Pishgar@Gmail.com>
Diff between MatchThem versions 0.9.2 dated 2020-02-28 and 0.9.3 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 8 ++++++-- R/complete.R | 6 +++++- R/is.R | 31 ++++++++++++++++++++++++------- R/matchthem.R | 6 +++++- R/pool.R | 6 +++++- R/weightthem.R | 6 +++++- R/with.R | 7 ++++++- README.md | 4 ++-- man/complete.Rd | 6 +++++- man/is.mimids.Rd | 6 +++++- man/is.mimipo.Rd | 24 ------------------------ man/is.mimira.Rd | 9 +++++++-- man/is.wimids.Rd | 8 ++++++-- man/matchthem.Rd | 6 +++++- man/pool.Rd | 6 +++++- man/weightthem.Rd | 6 +++++- man/with.Rd | 7 ++++++- 19 files changed, 123 insertions(+), 71 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-27 3.0.1
2019-08-19 2.1.5
2019-07-02 2.0.2
2019-06-28 2.0.1
2019-06-19 1.0.3
Title: Stepwise Regression Analysis
Description: Stepwise regression analysis for variable selection can be used to get the best candidate final regression model with the forward selection, backward elimination and bidirectional elimination approaches. Best subset selection fit a separate least squares regression for each possible combination of all predictors. Both the above two procedures in this package can use weighted data to get best regression model in univariate regression and multivariate regression analysis(Alsubaihi, A. A., (2002) <doi:10.18637/jss.v007.i12>). And continuous variables nested within class effect is also considered in both two procedures. Also stepwise logistic regression in this package can performed with binary dependent variable(Agresti, A. (1984) <doi:10.1002/9780470594001> and Agresti, A. (2014) <doi:10.1007/978-3-642-04898-2_161>). A widely used selection criteria are available which includes Akaike information criterion(Darlington, R. B. (1968) <doi:10.1037/h0025471>, Judge, G. G. (1985) <doi:10.2307/1391738>), corrected Akaike information criterion(Hurvich, C. M., and Tsai, C. (1989) <doi:10.1093/biomet/76.2.297>), Bayesian information criterion(Sawa, T. (1978) <doi:10.2307/1913828>, Judge, G. G. (1985) <doi:10.2307/1391738>), Mallows Cp statistic(Mallows, C. L. (1973) <doi:10.1080/00401706.1995.10484370>, Hocking, R. R. (1976) <doi:10.2307/2529336>), Hannan and Quinn information criterion(Hannan, E. J. and Quinn, B. G. (1979) <doi:10.1111/j.2517-6161.1979.tb01072.x>, Mcquarrie, A. D. R. and Tsai, C. L. (1998) <doi:10.1142/3573>), corrected Hannan and Quinn information criterion(Mcquarrie, A. D. R. and Tsai, C. L. (1998) <doi:10.1142/3573>), Schwarz criterion(Schwarz, G. (1978) <doi:10.1214/aos/1176344136>, Judge, G. G. (1985) <doi:10.2307/1391738>), adjusted R-square statistic(Darlington, R. B. (1968) <doi:10.1037/h0025471>, Judge, G. G. (1985) <doi:10.2307/1391738>) and significance levels(Mckeon, J. J. (1974) <doi:10.1093/biomet/61.2.381>, Harold Hotelling. (1992) <doi:10.1007/978-1-4612-0919-5_4>, Pillai, K. C. S. (2006) <doi:10.1002/0471667196.ess1965.pub2>), where multicollinearity can be detected with checking tolerance value.
Author: Junhui Li,Xiaohuan Lu,Kun Cheng,Wenxin Liu
Maintainer: Junhui Li <junhuili@cau.edu.cn>
Diff between StepReg versions 1.4.0 dated 2020-02-24 and 1.4.1 dated 2020-03-23
DESCRIPTION | 11 +++++------ MD5 | 18 ++++++++++-------- NAMESPACE | 2 -- R/bestsubset.R | 2 +- R/scoretest.R |only R/stepwiselogit.R | 14 ++++---------- man/ModelFitStat.Rd | 4 ++-- man/StepReg-package.Rd | 10 ++++++++-- man/scoretest.Rd |only man/stepOne.Rd | 42 +++++++++++++++++++++--------------------- man/stepwiselogit.Rd | 5 +---- 11 files changed, 52 insertions(+), 56 deletions(-)
Title: Least Absolute Deviation Regression Trees
Description: Recursive partitioning for least absolute deviation regression trees. Another algorithm from the 1984 book by
Breiman, Friedman, Olshen and Stone in addition to the 'rpart' package (Breiman, Friedman, Olshen, Stone (1984, ISBN:9780412048418).
Author: Stephan Dlugosz [aut,cre]
Maintainer: Stephan Dlugosz <stephan.dlugosz@googlemail.com>
Diff between rpart.LAD versions 0.1.0 dated 2019-12-16 and 0.1.1 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/LADsplit.cpp | 5 ++++- 3 files changed, 10 insertions(+), 7 deletions(-)
Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving,
viewing, visualizing, summarizing, transforming, and combining data. It also
contains functionality to generate reproducible reports of the analyses
conducted in the application.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.data versions 1.0.6 dated 2019-08-22 and 1.3.4 dated 2020-03-23
radiant.data-1.0.6/radiant.data/inst/app/tools/data/view.ui.R |only radiant.data-1.0.6/radiant.data/man/as_tibble.Rd |only radiant.data-1.0.6/radiant.data/man/glance.Rd |only radiant.data-1.0.6/radiant.data/man/glue.Rd |only radiant.data-1.0.6/radiant.data/man/glue_collapse.Rd |only radiant.data-1.0.6/radiant.data/man/glue_data.Rd |only radiant.data-1.0.6/radiant.data/man/knit_print.Rd |only radiant.data-1.0.6/radiant.data/man/kurtosi.re.Rd |only radiant.data-1.0.6/radiant.data/man/print.gtable.Rd |only radiant.data-1.0.6/radiant.data/man/rownames_to_column.Rd |only radiant.data-1.0.6/radiant.data/man/skew.re.Rd |only radiant.data-1.0.6/radiant.data/man/tibble.Rd |only radiant.data-1.0.6/radiant.data/man/tidy.Rd |only radiant.data-1.3.4/radiant.data/DESCRIPTION | 28 - radiant.data-1.3.4/radiant.data/MD5 | 174 ++++---- radiant.data-1.3.4/radiant.data/NAMESPACE | 18 radiant.data-1.3.4/radiant.data/NEWS.md | 55 ++ radiant.data-1.3.4/radiant.data/R/aaa.R | 83 +--- radiant.data-1.3.4/radiant.data/R/combine.R | 25 - radiant.data-1.3.4/radiant.data/R/explore.R | 202 ++++++---- radiant.data-1.3.4/radiant.data/R/pivotr.R | 52 +- radiant.data-1.3.4/radiant.data/R/radiant.R | 165 ++++---- radiant.data-1.3.4/radiant.data/R/transform.R | 136 +++++- radiant.data-1.3.4/radiant.data/R/view.R | 25 - radiant.data-1.3.4/radiant.data/R/visualize.R | 61 ++- radiant.data-1.3.4/radiant.data/README.md | 10 radiant.data-1.3.4/radiant.data/inst/app/global.R | 43 +- radiant.data-1.3.4/radiant.data/inst/app/init.R | 17 radiant.data-1.3.4/radiant.data/inst/app/radiant.R | 86 +++- radiant.data-1.3.4/radiant.data/inst/app/rsconnect/shinyapps.io/vnijs/radiant-data.dcf | 4 radiant.data-1.3.4/radiant.data/inst/app/tools/app/about.md | 10 radiant.data-1.3.4/radiant.data/inst/app/tools/app/report_funs.R | 92 ++-- radiant.data-1.3.4/radiant.data/inst/app/tools/app/report_r.R | 11 radiant.data-1.3.4/radiant.data/inst/app/tools/app/report_rmd.R | 37 - radiant.data-1.3.4/radiant.data/inst/app/tools/app/tutorials.md | 21 - radiant.data-1.3.4/radiant.data/inst/app/tools/data/combine_ui.R | 18 radiant.data-1.3.4/radiant.data/inst/app/tools/data/explore_ui.R | 33 - radiant.data-1.3.4/radiant.data/inst/app/tools/data/manage_ui.R | 4 radiant.data-1.3.4/radiant.data/inst/app/tools/data/pivotr_ui.R | 39 - radiant.data-1.3.4/radiant.data/inst/app/tools/data/transform_ui.R | 78 ++- radiant.data-1.3.4/radiant.data/inst/app/tools/data/view_ui.R |only radiant.data-1.3.4/radiant.data/inst/app/tools/data/visualize_ui.R | 77 +-- radiant.data-1.3.4/radiant.data/inst/app/tools/help/combine.Rmd | 10 radiant.data-1.3.4/radiant.data/inst/app/tools/help/combine.md | 62 +-- radiant.data-1.3.4/radiant.data/inst/app/tools/help/explore.md | 12 radiant.data-1.3.4/radiant.data/inst/app/tools/help/manage.md | 2 radiant.data-1.3.4/radiant.data/inst/app/tools/help/pivotr.md | 20 radiant.data-1.3.4/radiant.data/inst/app/tools/help/report_r.Rmd |only radiant.data-1.3.4/radiant.data/inst/app/tools/help/report_r.md | 9 radiant.data-1.3.4/radiant.data/inst/app/tools/help/report_rmd.Rmd |only radiant.data-1.3.4/radiant.data/inst/app/tools/help/report_rmd.md | 8 radiant.data-1.3.4/radiant.data/inst/app/tools/help/state.md | 4 radiant.data-1.3.4/radiant.data/inst/app/tools/help/transform.Rmd | 166 ++++---- radiant.data-1.3.4/radiant.data/inst/app/tools/help/transform.md | 166 ++++---- radiant.data-1.3.4/radiant.data/inst/app/tools/help/view.Rmd | 2 radiant.data-1.3.4/radiant.data/inst/app/tools/help/view.md | 2 radiant.data-1.3.4/radiant.data/inst/app/tools/help/visualize.md | 26 - radiant.data-1.3.4/radiant.data/inst/app/www/style.css | 18 radiant.data-1.3.4/radiant.data/man/as_distance.Rd | 10 radiant.data-1.3.4/radiant.data/man/as_integer.Rd | 2 radiant.data-1.3.4/radiant.data/man/as_numeric.Rd | 1 radiant.data-1.3.4/radiant.data/man/avengers.Rd | 4 radiant.data-1.3.4/radiant.data/man/combine_data.Rd | 16 radiant.data-1.3.4/radiant.data/man/deregister.Rd | 15 radiant.data-1.3.4/radiant.data/man/describe.Rd | 4 radiant.data-1.3.4/radiant.data/man/diamonds.Rd | 4 radiant.data-1.3.4/radiant.data/man/dtab.data.frame.Rd | 26 + radiant.data-1.3.4/radiant.data/man/dtab.explore.Rd | 3 radiant.data-1.3.4/radiant.data/man/dtab.pivotr.Rd | 12 radiant.data-1.3.4/radiant.data/man/explore.Rd | 17 radiant.data-1.3.4/radiant.data/man/format_df.Rd | 3 radiant.data-1.3.4/radiant.data/man/format_nr.Rd | 3 radiant.data-1.3.4/radiant.data/man/get_data.Rd | 4 radiant.data-1.3.4/radiant.data/man/make_train.Rd | 9 radiant.data-1.3.4/radiant.data/man/make_vec.Rd |only radiant.data-1.3.4/radiant.data/man/me.Rd |only radiant.data-1.3.4/radiant.data/man/meprop.Rd |only radiant.data-1.3.4/radiant.data/man/modal.Rd |only radiant.data-1.3.4/radiant.data/man/pivotr.Rd | 17 radiant.data-1.3.4/radiant.data/man/plot.pivotr.Rd | 11 radiant.data-1.3.4/radiant.data/man/publishers.Rd | 6 radiant.data-1.3.4/radiant.data/man/radiant.data-deprecated.Rd | 1 radiant.data-1.3.4/radiant.data/man/radiant.data.Rd | 3 radiant.data-1.3.4/radiant.data/man/radiant.data_url.Rd |only radiant.data-1.3.4/radiant.data/man/read_files.Rd | 10 radiant.data-1.3.4/radiant.data/man/reexports.Rd |only radiant.data-1.3.4/radiant.data/man/register.Rd | 12 radiant.data-1.3.4/radiant.data/man/render.datatables.Rd | 4 radiant.data-1.3.4/radiant.data/man/render.plotly.Rd | 4 radiant.data-1.3.4/radiant.data/man/standardize.Rd | 2 radiant.data-1.3.4/radiant.data/man/summary.pivotr.Rd | 3 radiant.data-1.3.4/radiant.data/man/superheroes.Rd | 6 radiant.data-1.3.4/radiant.data/man/titanic.Rd | 4 radiant.data-1.3.4/radiant.data/man/view_data.Rd | 13 radiant.data-1.3.4/radiant.data/man/visualize.Rd | 45 +- radiant.data-1.3.4/radiant.data/man/weighted.sd.Rd | 2 radiant.data-1.3.4/radiant.data/man/which.pmax.Rd | 2 radiant.data-1.3.4/radiant.data/man/xtile.Rd | 21 - radiant.data-1.3.4/radiant.data/tests/testthat/test_funs.R | 29 - 99 files changed, 1482 insertions(+), 957 deletions(-)
Title: Multivariate Lomax (Pareto Type II) and Its Related
Distributions
Description: Implements calculation of probability density function, cumulative distribution function, equicoordinate quantile function and survival function, and random numbers generation for the following multivariate distributions: Lomax (Pareto Type II), generalized Lomax, Mardia’s Pareto of Type I, Logistic, Burr, Cook-Johnson’s uniform, F and Inverted Beta. See Tapan Nayak (1987) <doi:10.2307/3214068>.
Author: Zhixin Lun [aut, cre] (<https://orcid.org/0000-0002-8980-1554>),
Ravindra Khattree [aut] (<https://orcid.org/0000-0002-9305-2365>)
Maintainer: Zhixin Lun <zlun@oakland.edu>
Diff between NonNorMvtDist versions 1.0.1 dated 2019-07-15 and 1.0.2 dated 2020-03-23
DESCRIPTION | 10 - MD5 | 36 +++--- NAMESPACE | 3 R/MvtBurr.R | 4 R/MvtF.R | 154 +++++++++++++++++----------- R/MvtGLomax.R | 140 +++++++++++++++---------- R/MvtInvBeta.R | 150 +++++++++++++++++---------- R/MvtLogits.R | 4 R/MvtLomax.R | 4 R/MvtMPareto1.R | 4 R/MvtUniform.R | 12 +- man/MvtBurr.Rd | 208 +++++++++++++++++++------------------- man/MvtF.Rd | 236 ++++++++++++++++++++++--------------------- man/MvtGlomx.Rd | 261 ++++++++++++++++++++++++++---------------------- man/MvtInvBeta.Rd | 255 +++++++++++++++++++++++++--------------------- man/MvtLogis.Rd | 203 ++++++++++++++++++------------------- man/MvtLomax.Rd | 192 +++++++++++++++++------------------ man/MvtMardiaPareto1.Rd | 202 ++++++++++++++++++------------------- man/MvtUniform.Rd | 196 ++++++++++++++++++------------------ 19 files changed, 1227 insertions(+), 1047 deletions(-)
Title: Using Needleman-Wunsch to Match Sample Names
Description: The Needleman-Wunsch global alignment algorithm can be
used to find approximate matches between sample names in different
data sets. See Wang et al. (2010) <doi:10.4137/CIN.S5613>.
Author: Kevin R. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between NameNeedle versions 1.2.4 dated 2017-07-11 and 1.2.6 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 6 ++++++ build/vignette.rds |binary data/cellLineNames.RData |binary inst/doc/blastName.pdf |binary tests/needles.R | 8 +++++--- 7 files changed, 21 insertions(+), 13 deletions(-)
Title: Khattree-Bahuguna's Univariate and Multivariate Skewness
Description: Computes Khattree-Bahuguna's univariate and multivariate skewness, principal-component-based Khattree-Bahuguna's multivariate skewness. It also provides several measures of univariate or multivariate skewnesses including, Pearson’s coefficient of skewness, Bowley’s univariate skewness and Mardia's multivariate skewness. See Khattree, R. and Bahuguna, M. (2019) <doi: 10.1007/s41060-018-0106-1>.
Author: Zhixin Lun [aut, cre] (<https://orcid.org/0000-0002-8980-1554>),
Ravindra Khattree [aut] (<https://orcid.org/0000-0002-9305-2365>)
Maintainer: Zhixin Lun <zlun@oakland.edu>
Diff between KbMvtSkew versions 1.0.1 dated 2019-10-01 and 1.0.2 dated 2020-03-23
DESCRIPTION | 10 ++--- MD5 | 24 +++++++------- NAMESPACE | 2 - R/KbSkewness.R | 10 +++-- man/BowleySkew.Rd | 74 ++++++++++++++++++++++---------------------- man/MardiaMvtSkew.Rd | 68 ++++++++++++++++++++-------------------- man/PearsonSkew.Rd | 82 ++++++++++++++++++++++++------------------------- man/data-Chatterjee.Rd | 48 ++++++++++++++-------------- man/data-OlymWomen.Rd | 48 ++++++++++++++-------------- man/data-SwissHead.Rd | 48 ++++++++++++++-------------- man/kbMvtSkew.Rd | 81 ++++++++++++++++++++++++------------------------ man/kbSkew.Rd | 82 ++++++++++++++++++++++++------------------------- man/pcKbSkew.Rd | 73 ++++++++++++++++++++++--------------------- 13 files changed, 327 insertions(+), 323 deletions(-)
Title: EPA Fuel Economy Data
Description: Fuel economy data from the EPA, 1985-2015,
conveniently packaged for consumption by R users.
Author: Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between fueleconomy versions 0.1 dated 2014-07-22 and 1.0.0 dated 2020-03-23
fueleconomy-0.1/fueleconomy/data/common.rdata |only fueleconomy-0.1/fueleconomy/data/vehicles.rdata |only fueleconomy-1.0.0/fueleconomy/DESCRIPTION | 31 ++++++++++++++---------- fueleconomy-1.0.0/fueleconomy/MD5 | 13 +++++----- fueleconomy-1.0.0/fueleconomy/NAMESPACE | 2 - fueleconomy-1.0.0/fueleconomy/NEWS.md |only fueleconomy-1.0.0/fueleconomy/data/common.rda |only fueleconomy-1.0.0/fueleconomy/data/vehicles.rda |only fueleconomy-1.0.0/fueleconomy/man/common.Rd | 10 ++++--- fueleconomy-1.0.0/fueleconomy/man/vehicles.Rd | 11 +++++--- 10 files changed, 40 insertions(+), 27 deletions(-)
Title: A Mixture Model-Based Approach to the Clustering of Microarray
Expression Data
Description: Provides unsupervised selection and clustering of microarray data
using mixture models. Following the methods described in McLachlan, Bean and
Peel (2002) <doi:10.1093/bioinformatics/18.3.413> a subset of genes are selected
based one the likelihood ratio statistic for the test of one versus two
components when fitting mixtures of t-distributions to the expression data
for each gene. The dimensionality of this gene subset is further reduced through
the use of mixtures of factor analyzers, allowing the tissue samples to be
clustered by fitting mixtures of normal distributions.
Author: Andrew Thomas Jones
Maintainer: Andrew Thomas Jones <andrewthomasjones@gmail.com>
Diff between EMMIXgene versions 0.1.2 dated 2020-02-09 and 0.1.3 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/mcfa.R | 16 ++++++++-------- 4 files changed, 18 insertions(+), 14 deletions(-)
Title: Design Shaded Contour Lines (or Tanaka) Maps
Description: The Tanaka method enhances the representation of topography on a map using shaded contour lines. In this simplified implementation of the method, north-west white contours represent illuminated topography and south-east black contours represent shaded topography. See Tanaka (1950) <doi:10.2307/211219>.
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>)
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between tanaka versions 0.1.1 dated 2019-10-07 and 0.1.2 dated 2020-03-23
tanaka-0.1.1/tanaka/tests/testthat/Rplots.pdf |only tanaka-0.1.2/tanaka/DESCRIPTION | 10 +++++----- tanaka-0.1.2/tanaka/MD5 | 17 ++++++++--------- tanaka-0.1.2/tanaka/NAMESPACE | 1 + tanaka-0.1.2/tanaka/NEWS.md | 9 +++++++++ tanaka-0.1.2/tanaka/R/tanaka_contour.R | 12 ++++++------ tanaka-0.1.2/tanaka/inst/gpkg/com.gpkg |binary tanaka-0.1.2/tanaka/inst/grd/elev.grd | 12 ++++++------ tanaka-0.1.2/tanaka/man/tanaka.Rd | 20 +++++++++++++++----- tanaka-0.1.2/tanaka/tests/testthat/test_tanaka.R | 2 +- 10 files changed, 51 insertions(+), 32 deletions(-)
Title: Synoptic Climate Classification and Spatial Regionalization of
Environmental Data
Description: Set of functions to compute different types of synoptic classification methods and for analysing their effect on environmental variables. More information about the methods used in Lemus-Canovas et al. 2019 <DOI:10.1016/j.atmosres.2019.01.018> and Martin-Vide et al. 2008 <DOI:10.5194/asr-2-99-2008>.
Author: Marc Lemus-Canovas [aut, cre] (<https://orcid.org/0000-0002-0925-3827>),
Dominic Roye) [aut] (<https://orcid.org/0000-0002-5516-6396>)
Maintainer: Marc Lemus-Canovas <mlemus@ub.edu>
Diff between synoptReg versions 1.0.0 dated 2020-03-18 and 1.0.1 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 11 +++++++---- R/download_ncep.R | 4 ++-- R/synoptclas.R | 4 ++-- inst/extdata |only man/download_ncep.Rd | 2 +- 6 files changed, 16 insertions(+), 13 deletions(-)
Title: Mandallaz' Model-Assisted Small Area Estimators
Description: An S4 implementation of the unbiased extension of
the model- assisted synthetic-regression estimator proposed by
Mandallaz (2013) <DOI:10.1139/cjfr-2012-0381>, Mandallaz et al. (2013)
<DOI:10.1139/cjfr-2013-0181> and Mandallaz (2014)
<DOI:10.1139/cjfr-2013-0449>. It yields smaller variances than the
standard bias correction, the generalised regression estimator.
Author: Andreas Dominik Cullmann [aut, cre],
Daniel Mandallaz [ctb],
Alexander Francis Massey [ctb]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between maSAE versions 2.0.0 dated 2020-03-13 and 2.0.1 dated 2020-03-23
DESCRIPTION | 6 +- MD5 | 18 +++---- NEWS.md | 4 + inst/doc/A_Taxonomy_of_Estimators.pdf |binary inst/doc/A_Taxonomy_of_Estimators.tex | 5 +- inst/doc/forestinventory_and_maSAE.html | 46 +++++++++--------- inst/doc/maSAE.pdf |binary vignettes/A_Taxonomy_of_Estimators.tex | 5 +- vignettes/tex/clustered.tex | 79 +++++++++++++++++--------------- vignettes/tex/unclustered.tex | 78 ++++++++++++++++--------------- 10 files changed, 130 insertions(+), 111 deletions(-)
Title: Credible Visualization for Two-Dimensional Projections of Data
Description: Projections are common dimensionality reduction methods, which represent high-dimensional data in a two-dimensional space. However, when restricting the output space to two dimensions, which results in a two dimensional scatter plot (projection) of the data, low dimensional similarities do not represent high dimensional distances coercively [Thrun, 2018]. This could lead to a misleading interpretation of the underlying structures [Thrun, 2018]. By means of the 3D topographic map the generalized Umatrix is able to depict errors of these two-dimensional scatter plots. The package is based on the book of Thrun, M.C.: "Projection Based Clustering through Self-Organization and Swarm Intelligence" (2018) <DOI:10.1007/978-3-658-20540-9>.
Author: Michael Thrun [aut, cre, cph] (<https://orcid.org/0000-0001-9542-5543>),
Felix Pape [ctb, ctr],
Tim Schreier [ctb, ctr],
Luis Winckelman [ctb, ctr],
Alfred Ultsch [ths]
Maintainer: Michael Thrun <m.thrun@gmx.net>
Diff between GeneralizedUmatrix versions 1.1.8 dated 2020-02-17 and 1.1.9 dated 2020-03-23
GeneralizedUmatrix-1.1.8/GeneralizedUmatrix/R/setdiffMatrix.R |only GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/DESCRIPTION | 16 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/MD5 | 29 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/R/NormalizeUmatrix.R | 15 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/R/TopviewTopographicMap.R | 24 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/R/plotTopographicMap.R | 843 +++++----- GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/build/partial.rdb |binary GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/inst/CITATION | 2 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/inst/doc/GeneralizedUmatrix.R | 56 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/inst/doc/GeneralizedUmatrix.Rmd | 122 - GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/inst/doc/GeneralizedUmatrix.html | 158 - GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/man/Chainlink.Rd | 2 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/man/NormalizeUmatrix.Rd | 21 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/man/TopviewTopographicMap.Rd | 170 +- GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/man/plotTopographicMap.Rd | 2 GeneralizedUmatrix-1.1.9/GeneralizedUmatrix/vignettes/GeneralizedUmatrix.Rmd | 122 - 16 files changed, 838 insertions(+), 744 deletions(-)
More information about GeneralizedUmatrix at CRAN
Permanent link
Title: Import and Manipulate ForestGEO Data
Description: To help you access, transform, analyze, and
visualize ForestGEO data, we developed a collection of R packages
(<https://forestgeo.github.io/fgeo/>). This package, in particular,
helps you to easily import, filter, and modify ForestGEO data. To
learn more about ForestGEO visit <http://www.forestgeo.si.edu/>.
Author: Mauro Lepore [aut, ctr, cre] (<https://orcid.org/0000-0002-1986-7988>),
Richard Condit [aut],
Suzanne Lao [aut],
Anudeep Singh [aut],
CTFS-ForestGEO [cph, fnd]
Maintainer: Mauro Lepore <maurolepore@gmail.com>
Diff between fgeo.tool versions 1.2.5 dated 2019-06-17 and 1.2.6 dated 2020-03-23
DESCRIPTION | 8 +++---- MD5 | 46 ++++++++++++++++++++-------------------- NEWS.md | 2 - R/add_var.R | 11 +++++++-- README.md | 51 ++++++++++++++++++++++----------------------- man/add_status_tree.Rd | 24 +++++++++++++-------- man/add_subquad.Rd | 29 ++++++++++++++----------- man/add_var.Rd | 33 ++++++++++++++++------------- man/check_crucial_names.Rd | 16 ++++++++------ man/extract_insensitive.Rd | 16 ++++++++------ man/fgeo.tool-package.Rd | 2 - man/flag_if.Rd | 11 ++++----- man/flag_if_group.Rd | 16 ++++++++------ man/guess_plotdim.Rd | 22 ++++++++++++------- man/is_multiple.Rd | 24 ++++++++++++--------- man/nms_try_rename.Rd | 11 ++++++--- man/pick_drop.Rd | 20 +++++++++++------ man/pick_main_stem.Rd | 3 +- man/read_vft.Rd | 5 ++-- man/recode_subquad.Rd | 4 +-- man/reexports.Rd | 6 ++--- man/rename_matches.Rd | 14 +++++++----- man/type_ensure.Rd | 15 +++++++------ man/type_vft.Rd | 10 +++++--- 24 files changed, 229 insertions(+), 170 deletions(-)
Title: Analyze ForestGEO Data
Description: To help you access, transform, analyze, and
visualize ForestGEO data, we developed a collection of R packages
(<https://forestgeo.github.io/fgeo/>). This package, in particular,
helps you to implement analyses of plot species distributions,
topography, demography, and biomass. It also includes a torus
translation test to determine habitat associations of tree species as
described by Zuleta et al. (2018) <doi:10.1007/s11104-018-3878-0>. To
learn more about ForestGEO visit <http://www.forestgeo.si.edu/>.
Author: Mauro Lepore [aut, ctr, cre] (<https://orcid.org/0000-0002-1986-7988>),
Gabriel Arellano [aut, rev],
Richard Condit [aut],
Matteo Detto [aut],
Kyle Harms [aut],
Suzanne Lao [aut, rev],
KangMin Ngo [rev],
Haley Overstreet [rev],
Sabrina Russo [aut, rev],
Daniel Zuleta [aut, rev],
CTFS-ForestGEO [cph]
Maintainer: Mauro Lepore <maurolepore@gmail.com>
Diff between fgeo.analyze versions 1.1.12 dated 2020-03-15 and 1.1.13 dated 2020-03-23
DESCRIPTION | 6 +- MD5 | 10 ++-- NEWS.md | 4 + README.md | 88 +++++++++++++++++++++------------------- tests/testthat/test-as_tibble.R | 2 tests/testthat/test-summary.R | 5 +- 6 files changed, 64 insertions(+), 51 deletions(-)
Title: Representation of Archaeological Data
Description: A collection of classes that represent
archaeological data. This package provides a set of S4 classes that
extend the basic matrix data type (absolute/relative frequency,
presence/absence data, co-occurrence matrix, etc.) upon which package
developers can build subclasses. It also provides a set of generic
methods (mutators and coercion mechanisms) and functions (e.g.
predicates). In addition, a few classes of general interest (e.g. that
represent stratigraphic relationships) are implemented.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>)
Maintainer: Nicolas Frerebeau
<nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between arkhe versions 0.2.1 dated 2020-02-15 and 0.2.2 dated 2020-03-23
DESCRIPTION | 10 MD5 | 73 NEWS.md | 11 R/arkhe-package.R | 2 build/vignette.rds |binary inst/CITATION | 8 inst/doc/arkhe.R | 41 inst/doc/arkhe.Rmd | 10 inst/doc/arkhe.html |14862 --------------------------------------- man/AbundanceMatrix-class.Rd | 19 man/CountMatrix-class.Rd | 28 man/IncidenceMatrix-class.Rd | 35 man/LogicalMatrix-class.Rd | 19 man/Matrix-class.Rd | 19 man/NumericMatrix-class.Rd | 19 man/OccurrenceMatrix-class.Rd | 19 man/SimilarityMatrix-class.Rd | 19 man/StratigraphicMatrix-class.Rd | 19 man/arkhe-package.Rd | 2 man/check-attribute.Rd | 9 man/check-graph.Rd | 9 man/check-matrix.Rd | 9 man/check-missing.Rd | 9 man/check-numeric.Rd | 9 man/check-type.Rd | 9 man/coerce.Rd | 19 man/mutator.Rd | 3 man/predicate-graph.Rd | 13 man/predicate-matrix.Rd | 13 man/predicate-numeric.Rd | 13 man/predicate-scalar.Rd | 13 man/predicate-trend.Rd | 13 man/predicate-type.Rd | 13 man/predicate-utils.Rd | 13 man/subset.Rd | 3 tests/testthat/test-coerce.R | 6 vignettes/arkhe.Rmd | 10 vignettes/uml-1.png |only 38 files changed, 332 insertions(+), 15069 deletions(-)
Title: Quantification of Asymmetric Dependence
Description: A copula-based measure for quantifying asymmetry in dependence and associations.
Author: Florian Griessenberger, Robert R. Junker, Wolfgang Trutschnig
Maintainer: Florian Griessenberger <Florian.Griessenberger@sbg.ac.at>
Diff between qad versions 0.1.1 dated 2019-07-18 and 0.1.2 dated 2020-03-23
DESCRIPTION | 8 ++-- MD5 | 18 ++++----- R/plots.R | 98 +++++++++++++++++++++++++++++++++++++++++++++------- man/heatmap.qad.Rd | 18 ++++++--- man/pairwise.qad.Rd | 12 ++++-- man/plot.qad.Rd | 16 ++++++-- man/plot_density.Rd | 8 +++- man/predict.qad.Rd | 14 +++++-- man/qad.Rd | 29 ++++++++++++--- man/summary.qad.Rd | 9 +++- 10 files changed, 178 insertions(+), 52 deletions(-)
Title: Bayesian Preference Learning with the Mallows Rank Model
Description: An implementation of the Bayesian version of the Mallows rank model (Vitelli et al., Journal of Machine Learning Research, 2018 <http://jmlr.org/papers/v18/15-481.html>; Crispino et al., to appear in Annals of Applied Statistics). Both Cayley, footrule, Hamming, Kendall, Spearman, and Ulam distances are supported in the models. The rank data to be analyzed can be in the form of complete rankings, top-k rankings, partially missing rankings, as well as consistent and inconsistent pairwise preferences. Several functions for plotting and studying the posterior distributions of parameters are provided. The package also provides functions for estimating the partition function (normalizing constant) of the Mallows rank model, both with the importance sampling algorithm of Vitelli et al. and asymptotic approximation with the IPFP algorithm (Mukherjee, Annals of Statistics, 2016 <doi:10.1214/15-AOS1389>).
Author: Oystein Sorensen, Valeria Vitelli, Marta Crispino, Qinghua Liu
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallows versions 0.4.1 dated 2019-09-05 and 0.4.2 dated 2020-03-23
DESCRIPTION | 10 MD5 | 198 ++-- NAMESPACE | 50 - NEWS.md | 218 ++--- R/BayesMallows.R | 60 - R/RcppExports.R | 335 ++++---- R/assess_convergence.R | 396 ++++----- R/assign_cluster.R | 164 ++-- R/compute_consensus.R | 332 ++++---- R/compute_mallows.R | 754 +++++++++--------- R/compute_mallows_mixtures.R | 90 +- R/compute_posterior_intervals.R | 256 +++--- R/data.R | 62 - R/estimate_partition_function.R | 196 ++-- R/generate_constraints.R | 162 ++-- R/generate_initial_ranking.R | 116 +- R/generate_transitive_closure.R | 214 ++--- R/label_switching.R | 42 - R/misc.R | 144 +-- R/plot.BayesMallows.R | 282 +++--- R/plot_elbow.R | 134 +-- R/plot_top_k.R | 168 ++-- R/predict_top_k.R | 130 +-- R/print.BayesMallows.R | 52 - R/print.BayesMallowsMixtures.R | 58 - R/rank_conversion.R | 178 ++-- R/sample_mallows.R | 282 +++--- R/tidy_mcmc.R | 506 ++++++------ build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 36 inst/REFERENCES.bib | 436 +++++----- inst/doc/BayesMallowsPackage.Rmd | 214 ++--- inst/doc/BayesMallowsPackage.html | 809 +++++++++----------- inst/examples/compute_consensus_example.R | 80 - inst/examples/compute_mallows_example.R | 212 ++--- inst/examples/compute_mallows_mixtures_example.R | 122 +-- inst/examples/compute_posterior_intervals_example.R | 56 - inst/examples/estimate_partition_function_example.R | 130 +-- inst/examples/generate_constraints_example.R | 42 - inst/examples/generate_initial_ranking_example.R | 78 - inst/examples/generate_transitive_closure_example.R | 106 +- inst/examples/label_switching_example.R | 150 +-- inst/examples/plot.BayesMallows_example.R | 98 +- inst/examples/plot_top_k_example.R | 42 - inst/examples/sample_mallows_example.R | 98 +- man/BayesMallows.Rd | 63 - man/assess_convergence.Rd | 72 - man/assign_cluster.Rd | 86 +- man/asymptotic_partition_function.Rd | 72 + man/beach_preferences.Rd | 36 man/compute_consensus.Rd | 136 +-- man/compute_importance_sampling_estimate.Rd | 52 - man/compute_mallows.Rd | 633 ++++++++------- man/compute_mallows_mixtures.Rd | 180 ++-- man/compute_posterior_intervals.Rd | 149 +-- man/dot-generate_transitive_closure.Rd | 32 man/estimate_partition_function.Rd | 251 +++--- man/generate_constraints.Rd | 112 +- man/generate_initial_ranking.Rd | 141 +-- man/generate_transitive_closure.Rd | 204 ++--- man/get_partition_function.Rd | 65 - man/get_rank_distance.Rd | 70 - man/label_switching.Rd | 198 ++-- man/plot.BayesMallows.Rd | 163 ++-- man/plot_elbow.Rd | 188 ++-- man/plot_top_k.Rd | 112 +- man/potato_true_ranking.Rd | 36 man/potato_visual.Rd | 40 man/potato_weighing.Rd | 40 man/predict_top_k.Rd | 64 - man/print.BayesMallows.Rd | 34 man/print.BayesMallowsMixtures.Rd | 34 man/rank_conversion.Rd | 120 +- man/rmallows.Rd | 81 +- man/run_mcmc.Rd | 191 ++-- man/sample_mallows.Rd | 230 ++--- man/sushi_rankings.Rd | 38 man/validate_permutation.Rd | 36 src/RcppExports.cpp | 9 src/partitionfuns.cpp | 17 tests/testthat.R | 10 tests/testthat/test_assess_convergence.R | 28 tests/testthat/test_compute_consensus.R | 20 tests/testthat/test_compute_mallows.R | 182 ++-- tests/testthat/test_distance_function.R | 164 ++-- tests/testthat/test_generate_ranking.R | 50 - tests/testthat/test_mcmc_function.R | 80 - tests/testthat/test_misc_cpp.R | 102 +- tests/testthat/test_misc_functions.R | 46 - tests/testthat/test_partition_function.R | 242 ++--- tests/testthat/test_plot.R | 20 tests/testthat/test_plot_elbow.R | 24 tests/testthat/test_plot_top_k.R | 64 - tests/testthat/test_print.R | 40 tests/testthat/test_random_number_seed.R | 102 +- tests/testthat/test_rank_conversion.R | 52 - tests/testthat/test_sample_mallows.R | 68 - tests/testthat/test_transitive_closure.R | 100 +- vignettes/BayesMallowsPackage.Rmd | 214 ++--- 100 files changed, 7006 insertions(+), 6885 deletions(-)
Title: General Bivariate Copula Theory and Many Utility Functions
Description: Extensive functions for bivariate copula (bicopula) computations and related operations
for bicopula theory. The lower, upper, product, and select other bicopula are implemented along
with operations including the diagonal, survival copula, dual of a copula, co-copula, and
numerical bicopula density. Level sets, horizontal and vertical sections are supported. Numerical
derivatives and inverses of a bicopula are provided through which simulation is implemented.
Bicopula composition, convex combination, and products also are provided. Support
extends to the Kendall Function as well as the Lmoments thereof. Kendall Tau,
Spearman Rho and Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer-
Wolff Sigma, tail dependency, tail order, skewness, and bivariate Lmoments are implemented, and
positive/negative quadrant dependency, left (right) increasing (decreasing) are available.
Other features include Kullback-Leibler divergence, Vuong procedure, spectral measure, and
Lcomoments for inference, maximum likelihood, and AIC, BIC, and RMSE for goodness-of-fit.
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between copBasic versions 2.1.4 dated 2019-07-02 and 2.1.5 dated 2020-03-23
copBasic-2.1.4/copBasic/inst/testdata |only copBasic-2.1.5/copBasic/ChangeLog | 38 +++++++- copBasic-2.1.5/copBasic/DESCRIPTION | 8 - copBasic-2.1.5/copBasic/MD5 | 109 +++++++++++------------- copBasic-2.1.5/copBasic/R/AMHcop.R | 59 +++++++++--- copBasic-2.1.5/copBasic/R/EMPIRcop.R | 20 ++-- copBasic-2.1.5/copBasic/R/EMPIRgrid.R | 2 copBasic-2.1.5/copBasic/R/EMPIRgridder.R | 13 ++ copBasic-2.1.5/copBasic/R/EMPIRgridder2.R | 10 +- copBasic-2.1.5/copBasic/R/EMPIRgridderinv.R | 21 +++- copBasic-2.1.5/copBasic/R/EMPIRgridderinv2.R | 21 +++- copBasic-2.1.5/copBasic/R/EMPIRqua.regress.R | 2 copBasic-2.1.5/copBasic/R/EMPIRqua.regress2.R | 2 copBasic-2.1.5/copBasic/R/RFcop.R | 24 +++-- copBasic-2.1.5/copBasic/R/semicorCOP.R | 2 copBasic-2.1.5/copBasic/man/AMHcop.Rd | 34 ++++--- copBasic-2.1.5/copBasic/man/COP.Rd | 19 ++++ copBasic-2.1.5/copBasic/man/EMPIRcop.Rd | 46 +++++++--- copBasic-2.1.5/copBasic/man/EMPIRgrid.Rd | 12 +- copBasic-2.1.5/copBasic/man/EMPIRgridder.Rd | 6 - copBasic-2.1.5/copBasic/man/EMPIRgridderinv.Rd | 5 - copBasic-2.1.5/copBasic/man/EMPIRgridderinv2.Rd | 5 - copBasic-2.1.5/copBasic/man/EMPIRsim.Rd | 17 --- copBasic-2.1.5/copBasic/man/FGMcop.Rd | 2 copBasic-2.1.5/copBasic/man/FRECHETcop.Rd | 6 - copBasic-2.1.5/copBasic/man/GLcop.Rd | 6 - copBasic-2.1.5/copBasic/man/HRcop.Rd | 2 copBasic-2.1.5/copBasic/man/N4212cop.Rd | 2 copBasic-2.1.5/copBasic/man/P.Rd | 2 copBasic-2.1.5/copBasic/man/PARETOcop.Rd | 2 copBasic-2.1.5/copBasic/man/PLACKETTpar.Rd | 3 copBasic-2.1.5/copBasic/man/RFcop.Rd | 20 ++-- copBasic-2.1.5/copBasic/man/aicCOP.Rd | 11 +- copBasic-2.1.5/copBasic/man/asCOP.Rd | 10 +- copBasic-2.1.5/copBasic/man/bicCOP.Rd | 1 copBasic-2.1.5/copBasic/man/bilmoms.Rd | 2 copBasic-2.1.5/copBasic/man/blomCOP.Rd | 4 copBasic-2.1.5/copBasic/man/composite1COP.Rd | 3 copBasic-2.1.5/copBasic/man/densityCOP.Rd | 3 copBasic-2.1.5/copBasic/man/derCOPinv.Rd | 8 - copBasic-2.1.5/copBasic/man/gEVcop.Rd | 10 +- copBasic-2.1.5/copBasic/man/hoefCOP.Rd | 2 copBasic-2.1.5/copBasic/man/joint.curvesCOP2.Rd | 1 copBasic-2.1.5/copBasic/man/level.setCOP.Rd | 2 copBasic-2.1.5/copBasic/man/level.setCOP2.Rd | 4 copBasic-2.1.5/copBasic/man/rhoCOP.Rd | 2 copBasic-2.1.5/copBasic/man/rmseCOP.Rd | 1 copBasic-2.1.5/copBasic/man/simCOPmicro.Rd | 3 copBasic-2.1.5/copBasic/man/simcomposite3COP.Rd | 2 copBasic-2.1.5/copBasic/man/simcompositeCOP.Rd | 4 copBasic-2.1.5/copBasic/man/statTn.Rd | 7 - copBasic-2.1.5/copBasic/man/surfuncCOP.Rd | 9 - copBasic-2.1.5/copBasic/man/tEVcop.Rd | 2 copBasic-2.1.5/copBasic/man/tailordCOP.Rd | 3 copBasic-2.1.5/copBasic/man/tauCOP.Rd | 2 copBasic-2.1.5/copBasic/man/uvlmoms.Rd | 6 - 56 files changed, 401 insertions(+), 221 deletions(-)
Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut],
Martin Studer [cre],
The Apache Software Foundation [ctb, cph] (Apache POI),
Graph Builder [ctb, cph] (Curvesapi Java library)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>
Diff between XLConnect versions 1.0.0 dated 2020-03-20 and 1.0.1 dated 2020-03-23
DESCRIPTION | 6 +- MD5 | 14 ++-- NEWS | 2 R/onLoad.R | 17 ++++- README.md | 2 inst/doc/XLConnect.pdf |binary inst/doc/XLConnectImpatient.pdf |binary man/appendWorksheet-methods.Rd | 114 ++++++++++++++++++++-------------------- 8 files changed, 84 insertions(+), 71 deletions(-)
Title: Single Trial Analysis (STA) of Field Trials
Description: Phenotypic analysis of field trials using mixed models with and
without spatial components. One of a series of statistical genetic packages
for streamlining the analysis of typical plant breeding experiments developed
by Biometris.
Some functions have been created to be used in conjunction with the R
package 'asreml' for the 'ASReml' software, which can be obtained upon
purchase from 'VSN' international (<http://www.vsni.co.uk/software/asreml-r>).
Author: Bart-Jan van Rossum [aut, cre],
Fred van Eeuwijk [ctb] (<https://orcid.org/0000-0003-3672-2921>),
Martin Boer [ctb],
Marcos Malosetti [ctb] (<https://orcid.org/0000-0002-8150-1397>),
Daniela Bustos-Korts [ctb] (<https://orcid.org/0000-0003-3827-6726>),
Emilie Millet [ctb] (<https://orcid.org/0000-0002-2913-4892>),
Joao Paulo [ctb] (<https://orcid.org/0000-0002-4180-0763>),
Maikel Verouden [ctb] (<https://orcid.org/0000-0002-4893-3323>),
Willem Kruijer [ctb] (<https://orcid.org/0000-0001-7179-1733>),
Ron Wehrens [ctb] (<https://orcid.org/0000-0002-8798-5599>),
Choazhi Zheng [ctb] (<https://orcid.org/0000-0001-6030-3933>)
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between statgenSTA versions 1.0.3 dated 2020-02-18 and 1.0.4 dated 2020-03-23
DESCRIPTION | 10 +-- MD5 | 26 ++++----- NAMESPACE | 2 NEWS.md | 4 + build/vignette.rds |binary inst/doc/statgenSTA.html | 28 +++++----- man/TDHeat05.Rd | 76 ++++++++++++++-------------- man/TDMaize.Rd | 102 +++++++++++++++++++------------------- man/report.Rd | 36 ++++++------- man/wheatChl.Rd | 94 +++++++++++++++++------------------ tests/testthat/Rplots.pdf |binary tests/testthat/test-ExtractLme4.R | 36 ++++++++++--- tests/testthat/test-STA.R | 4 + tests/testthat/test-outliers.R | 6 +- 14 files changed, 229 insertions(+), 195 deletions(-)
Title: Simultaneous Enrichment Analysis
Description: SEA performs simultaneous feature-set testing for (gen)omics data. It tests the unified null hypothesis controls the family-wise error rate for all possible pathways. The unified null hypothesis is defined as: "The proportion of true features in the set is less than or equal to the threshold c", where c is selected by the user. Family-wise error rate control is provided through use of closed testing with Simes test. For more information on closed testing with Simes see Goeman et al. (2019) <doi:10.1093/biomet/asz041> and for more information about the properties and performance of SEA procedure see Ebrahimpoor et al. (2019) <doi:10.1093/bib/bbz074>.
Author: Mitra Ebrahimpoor
Maintainer: Mitra Ebrahimpoor<mitra.ebrahimpoor@gmail.com>
Diff between rSEA versions 2.1.0 dated 2019-10-06 and 2.1.1 dated 2020-03-23
DESCRIPTION | 15 - MD5 | 13 - NAMESPACE | 11 + R/plotsea.R |only R/sea.R | 17 + README.md |only inst/doc/rSEA_vignette.html | 439 ++++++++++++++++++++++---------------------- man/SEA.Rd | 17 + man/plotSEA.Rd |only 9 files changed, 273 insertions(+), 239 deletions(-)
Title: A Collection of Physical and Chemical Adsorption Isotherm Models
Description: Adsorption isotherm equations are linearized plots of different solid-liquid phase equilibria used in calculating different parameters related to the adsorption process. Isotherm equations deals with physical adsorption of gases and vapor and gives the most important characteristics of industrial adsorbents that include pore volume, pore size or energy distribution. PUPAIM has 28 documented adsorption isotherm models listed by Dabrowski (2001) <doi:10.1016/S0001-8686(00)00082-8> and Ayawei et al.(2017) <doi:10.1155/2017/3039817>. These models could be easily fitted in R using adsorption data (Ce and Qe) obtained from experiments.
Author: John Ray V. Saroyda, Ranya Yyan S. Cruz, Roel Joseph C. Antonio, Carl Luis P. Flestado, Jeff Ryan S. Magalong, Kim Zyrell P. Zagala, Carmela L. Barbacena, Jeann M. Bumatay, Leslie F. Bautista, Chester C. Deocaris
Maintainer: Chester C. Deocaris <ccdeocaris@pup.edu.ph>
Diff between PUPAIM versions 0.1.0 dated 2019-02-18 and 0.2.0 dated 2020-03-23
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Title: Microeconomics and Pricing Tools
Description: Functions to aid in microeconomic analysis and handling of price and currency data. This includes extraction of relevant data (e.g. from World Bank API, and other sources), data cleaning/parsing, and standardisation.
Author: Steve Condylios [aut, cre] (<https://orcid.org/0000-0003-0599-844X>)
Maintainer: Steve Condylios <steve.condylios@gmail.com>
Diff between priceR versions 0.1.0 dated 2019-03-31 and 0.1.1 dated 2020-03-23
priceR-0.1.0/priceR/man/priceR.Rd |only priceR-0.1.1/priceR/DESCRIPTION | 18 +++-- priceR-0.1.1/priceR/MD5 | 33 ++++++++-- priceR-0.1.1/priceR/NAMESPACE | 18 +++++ priceR-0.1.1/priceR/R/adjust_for_inflation.R |only priceR-0.1.1/priceR/R/extract_salary.R | 64 +++++++++++---------- priceR-0.1.1/priceR/R/format.R |only priceR-0.1.1/priceR/R/priceR.R | 5 - priceR-0.1.1/priceR/R/round_to_nearest.R |only priceR-0.1.1/priceR/README.md |only priceR-0.1.1/priceR/man/adjust_for_inflation.Rd |only priceR-0.1.1/priceR/man/convert_to_iso2Code.Rd |only priceR-0.1.1/priceR/man/country_input_type.Rd |only priceR-0.1.1/priceR/man/currency_characters.Rd |only priceR-0.1.1/priceR/man/currency_to_numeric.Rd |only priceR-0.1.1/priceR/man/extract_salary.Rd | 31 +++++----- priceR-0.1.1/priceR/man/format_currency.Rd |only priceR-0.1.1/priceR/man/format_dollars.Rd |only priceR-0.1.1/priceR/man/priceR-package.Rd |only priceR-0.1.1/priceR/man/retrieve_inflation_data.Rd |only priceR-0.1.1/priceR/man/round_down_to_nearest.Rd |only priceR-0.1.1/priceR/man/round_to_nearest.Rd |only priceR-0.1.1/priceR/man/round_up_to_nearest.Rd |only priceR-0.1.1/priceR/man/show_countries.Rd |only priceR-0.1.1/priceR/man/url_all_results.Rd |only priceR-0.1.1/priceR/tests |only 26 files changed, 112 insertions(+), 57 deletions(-)
Title: Markov Chain Monte Carlo for Potts Models
Description: Do Markov chain Monte Carlo (MCMC) simulation of Potts models
(Potts, 1952, <doi:10.1017/S0305004100027419>),
which are the multi-color generalization of Ising models
(so, as as special case, also simulates Ising models).
Use the Swendsen-Wang algorithm (Swendsen and Wang, 1987,
<doi:10.1103/PhysRevLett.58.86>) so MCMC is fast.
Do maximum composite likelihood estimation of parameters
(Besag, 1975, <doi:10.2307/2987782>,
Lindsay, 1988, <doi:10.1090/conm/080>).
Author: Charles J. Geyer <charlie@stat.umn.edu> and Leif Johnson
<ltjohnson@google.com>
Maintainer: Charles J. Geyer <charlie@stat.umn.edu>
Diff between potts versions 0.5-8 dated 2019-03-10 and 0.5-9 dated 2020-03-23
ChangeLog | 2 ++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- build/vignette.rds |binary inst/doc/cll.pdf |binary src/potts.c | 3 +++ 6 files changed, 14 insertions(+), 9 deletions(-)
Title: Optimistic Optimization in R
Description: Implementation of optimistic optimization methods for global optimization of deterministic or stochastic functions. The algorithms feature guarantees of the convergence to a global optimum. They require minimal assumptions on the (only local) smoothness, where the smoothness parameter does not need to be known. They are expected to be useful for the most difficult functions when we have no information on smoothness and the gradients are unknown or do not exist. Due to the weak assumptions, however, they can be mostly effective only in small dimensions, for example, for hyperparameter tuning.
Author: M. Binois [cre, aut, trl] (R port),
A. Carpentier [aut] (Matlab original),
J.-B. Grill [aut] (Python original),
R. Munos [aut] (Python and Matlab original),
M. Valko [aut, ctb] (Python and Matlab original)
Maintainer: M. Binois <mickael.binois@inria.fr>
Diff between OOR versions 0.1.2 dated 2018-01-31 and 0.1.3 dated 2020-03-23
DESCRIPTION | 16 +++++++++------- MD5 | 11 ++++++----- NEWS | 6 ++++++ README.md |only man/OOR.Rd | 1 - man/StoSOO.Rd | 12 +++++++++--- man/Testfunctions.Rd | 1 - 7 files changed, 30 insertions(+), 17 deletions(-)
Title: Fast Access to Large ASCII Files
Description: Methods for fast access to large ASCII files. Currently the
following file formats are supported: comma separated format (CSV) and fixed
width format. It is assumed that the files are too large to fit into memory,
although the package can also be used to efficiently access files that do
fit into memory. Methods are provided to access and process files blockwise.
Furthermore, an opened file can be accessed as one would an ordinary
data.frame. The LaF vignette gives an overview of the functionality
provided.
Author: Jan van der Laan
Maintainer: Jan van der Laan <r@eoos.dds.nl>
Diff between LaF versions 0.8.0 dated 2017-11-20 and 0.8.4 dated 2020-03-23
LaF-0.8.0/LaF/src/Makevars |only LaF-0.8.0/LaF/src/Makevars.win |only LaF-0.8.4/LaF/DESCRIPTION | 12 - LaF-0.8.4/LaF/MD5 | 96 +++++------ LaF-0.8.4/LaF/R/laf_column.R | 1 LaF-0.8.4/LaF/R/meta.R | 75 ++++++-- LaF-0.8.4/LaF/R/open.R | 14 + LaF-0.8.4/LaF/R/read_dm_blaise.R | 14 + LaF-0.8.4/LaF/R/textutils.R | 37 +++- LaF-0.8.4/LaF/build/vignette.rds |binary LaF-0.8.4/LaF/inst/doc/LaF-benchmark.pdf |binary LaF-0.8.4/LaF/inst/doc/LaF-manual.Rnw | 2 LaF-0.8.4/LaF/inst/doc/LaF-manual.pdf |binary LaF-0.8.4/LaF/man/begin.Rd | 1 LaF-0.8.4/LaF/man/cindexing.Rd | 1 LaF-0.8.4/LaF/man/close.Rd | 1 LaF-0.8.4/LaF/man/current_line.Rd | 1 LaF-0.8.4/LaF/man/datamodels.Rd | 22 +- LaF-0.8.4/LaF/man/detect_dm_csv.Rd | 32 ++- LaF-0.8.4/LaF/man/determine_nlines.Rd | 10 - LaF-0.8.4/LaF/man/get_lines.Rd | 10 - LaF-0.8.4/LaF/man/goto.Rd | 1 LaF-0.8.4/LaF/man/indexing.Rd | 1 LaF-0.8.4/LaF/man/laf_open.Rd | 31 ++- LaF-0.8.4/LaF/man/laf_open_csv.Rd | 23 ++ LaF-0.8.4/LaF/man/laf_open_fwf.Rd | 12 + LaF-0.8.4/LaF/man/levels.Rd | 1 LaF-0.8.4/LaF/man/names.Rd | 1 LaF-0.8.4/LaF/man/ncol.Rd | 1 LaF-0.8.4/LaF/man/next_block.Rd | 1 LaF-0.8.4/LaF/man/nrow.Rd | 1 LaF-0.8.4/LaF/man/process_blocks.Rd | 12 + LaF-0.8.4/LaF/man/read_dm_blaise.Rd | 14 + LaF-0.8.4/LaF/man/read_lines.Rd | 1 LaF-0.8.4/LaF/man/sample_lines.Rd | 10 - LaF-0.8.4/LaF/man/show.Rd | 1 LaF-0.8.4/LaF/man/stats.Rd | 1 LaF-0.8.4/LaF/src/doublecolumn.cpp | 2 LaF-0.8.4/LaF/src/intcolumn.cpp | 2 LaF-0.8.4/LaF/tests/testthat/test_bom.R | 3 LaF-0.8.4/LaF/tests/testthat/test_conversion.R | 2 LaF-0.8.4/LaF/tests/testthat/test_csv.R | 68 +++---- LaF-0.8.4/LaF/tests/testthat/test_fwf.R | 68 +++---- LaF-0.8.4/LaF/tests/testthat/test_ignore_failed_conversion.R | 3 LaF-0.8.4/LaF/tests/testthat/test_levels.R | 22 +- LaF-0.8.4/LaF/tests/testthat/test_meta.R | 62 +++---- LaF-0.8.4/LaF/tests/testthat/test_skip.R | 36 ++-- LaF-0.8.4/LaF/tests/testthat/test_stats.R | 84 ++++----- LaF-0.8.4/LaF/tests/testthat/test_trim.R | 8 LaF-0.8.4/LaF/vignettes/LaF-manual.Rnw | 2 50 files changed, 479 insertions(+), 324 deletions(-)
Title: Palaeoecological and Palaeogeographical Analysis Tools
Description: A set of analytical tools useful in analysing ecological and geographical data sets, both ancient and modern. The package includes functions for estimating species richness (Chao 1 and 2, ACE, ICE, Jacknife), shared species/beta diversity, species area curves and geographic distances and areas.
Author: Matthew J. Vavrek <matthew@matthewvavrek.com>
Maintainer: Matthew J. Vavrek <matthew@matthewvavrek.com>
Diff between fossil versions 0.3.7 dated 2012-03-30 and 0.4.0 dated 2020-03-23
DESCRIPTION | 16 ++----- MD5 | 38 ++++++++-------- NAMESPACE | 8 +++ R/earth.dist.R | 26 +++++------ R/earth.poly.R | 116 +++++++++++++++++++++++++-------------------------- R/euler.rot.R |only R/lats2Shape.R | 19 +++----- R/loc.map.R | 52 +++++++++++----------- R/msn2Shape.R | 5 -- R/rclust.R | 13 +---- R/rclust.dist.R | 2 R/rclust.null.R | 2 R/sac.R | 30 ++++++------- inst/CITATION | 2 man/create.matrix.Rd | 97 ++++++++++++++++++++++-------------------- man/deg.dist.Rd | 9 +++ man/euler.rot.Rd |only man/new.lat.long.Rd | 49 ++++++++++----------- man/rclust.Rd | 52 +++++++++++----------- man/rclust.dist.Rd | 50 ++++++++++----------- man/rclust.null.Rd | 48 ++++++++++----------- 21 files changed, 325 insertions(+), 309 deletions(-)
Title: Continuous-Time Movement Modeling
Description: Functions for identifying, fitting, and applying continuous-space, continuous-time stochastic movement models to animal tracking data.
The package is described in Calabrese et al (2016) <doi:10.1111/2041-210X.12559>, with models and methods based on those introduced in
Fleming & Calabrese et al (2014) <doi:10.1086/675504>,
Fleming et al (2014) <doi:10.1111/2041-210X.12176>,
Fleming et al (2015) <doi:10.1103/PhysRevE.91.032107>,
Fleming et al (2015) <doi:10.1890/14-2010.1>,
Fleming et al (2016) <doi:10.1890/15-1607>,
Péron & Fleming et al (2016) <doi:10.1186/s40462-016-0084-7>,
Fleming & Calabrese (2017) <doi:10.1111/2041-210X.12673>,
Péron et al (2017) <doi:10.1002/ecm.1260>,
Fleming et al (2017) <doi:10.1016/j.ecoinf.2017.04.008>,
Fleming et al (2018) <doi:10.1002/eap.1704>,
Winner & Noonan et al (2018) <doi:10.1111/2041-210X.13027>,
Fleming et al (2019) <doi:10.1111/2041-210X.13270>,
and
Noonan & Fleming et al (2019) <doi:10.1186/s40462-019-0177-1>.
Author: Christen H. Fleming [aut, cre],
Justin M. Calabrese [aut],
Xianghui Dong [ctb],
Kevin Winner [ctb],
Guillaume Péron [ctb],
Michael J. Noonan [ctb],
Bart Kranstauber [ctb],
Eliezer Gurarie [ctb],
Kamran Safi [ctb],
Paul C. Cross [dtc],
Thomas Mueller [dtc],
Rogério C. de Paula [dtc],
Thomas Akre [dtc],
Jonathan Drescher-Lehman [dtc],
Autumn-Lynn Harrison [dtc],
Ronaldo G. Morato [dtc]
Maintainer: Christen H. Fleming <flemingc@si.edu>
Diff between ctmm versions 0.5.8 dated 2019-12-11 and 0.5.9 dated 2020-03-23
DESCRIPTION | 14 MD5 | 111 ++-- NAMESPACE | 11 NEWS.md | 33 + R/covm.R | 98 +--- R/crayon.R | 4 R/ctmm.R | 34 + R/emulate.R | 5 R/encounter.R | 4 R/fit.R |only R/gaussian.R | 8 R/generic.R | 23 R/kalman.R | 72 ++- R/krige.R | 4 R/likelihood.R | 532 +--------------------- R/matrix.R | 65 ++ R/mean.R | 25 - R/meta.R |only R/numDeriv.R | 31 + R/optim.R | 1094 +++++++++++++++++++++++++--------------------- R/outlier.R | 8 R/overlap.R | 8 R/parameters.R | 42 - R/projection.R | 27 + R/select.R | 169 +++++-- R/speed.R | 18 R/stats.R | 9 R/summary.ctmm.R | 9 R/telemetry.R | 56 +- R/uere.R | 18 R/units.R | 12 R/variogram.R | 103 +++- TODO | 52 +- build/vignette.rds |binary data/datalist | 1 data/jaguar.rda |only inst/doc/akde.html | 12 inst/doc/error.R | 6 inst/doc/error.Rmd | 10 inst/doc/error.html | 54 +- inst/doc/periodogram.Rmd | 6 inst/doc/periodogram.html | 72 +-- inst/doc/variogram.html | 44 - man/akde.Rd | 9 man/as.telemetry.Rd | 21 man/bandwidth.Rd | 8 man/buffalo.Rd | 2 man/coati.Rd | 2 man/ctmm-package.Rd | 4 man/ctmm.fit.Rd | 14 man/gazelle.Rd | 2 man/jaguar.Rd |only man/mean.Rd |only man/optimizer.Rd | 4 man/pelican.Rd | 2 man/turtle.Rd | 2 man/variogram.Rd | 4 vignettes/error.Rmd | 10 vignettes/periodogram.Rmd | 6 59 files changed, 1505 insertions(+), 1489 deletions(-)
Title: High Dimensional Numerical and Symbolic Calculus
Description: Efficient C++ optimized functions for numerical and symbolic calculus. It includes basic symbolic arithmetic, tensor calculus, Einstein summing convention, fast computation of the Levi-Civita symbol and generalized Kronecker delta, Taylor series expansion, multivariate Hermite polynomials, accurate high-order derivatives, differential operators (Gradient, Jacobian, Hessian, Divergence, Curl, Laplacian) and numerical integration in arbitrary orthogonal coordinate systems: cartesian, polar, spherical, cylindrical, parabolic or user defined by custom scale factors.
Author: Emanuele Guidotti [aut, cre] (<https://orcid.org/0000-0002-8961-6623>)
Maintainer: Emanuele Guidotti <emanuele.guidotti@unine.ch>
Diff between calculus versions 0.2.0 dated 2020-01-07 and 0.2.1 dated 2020-03-23
DESCRIPTION | 12 +- MD5 | 72 ++++++++-------- NAMESPACE | 2 NEWS.md | 4 R/package.R | 25 ----- man/c2e.Rd | 54 ++++++------ man/cross.Rd | 78 ++++++++--------- man/curl.Rd | 127 ++++++++++++++-------------- man/derivative.Rd | 158 ++++++++++++++++++----------------- man/det.Rd | 52 +++++------ man/diag.Rd | 108 ++++++++++++------------ man/divergence.Rd | 117 ++++++++++++-------------- man/e2c.Rd | 58 ++++++------ man/einstein.Rd | 106 +++++++++++------------ man/evaluate.Rd | 120 +++++++++++++------------- man/gradient.Rd | 133 ++++++++++++++--------------- man/grapes-diff-grapes.Rd | 72 ++++++++-------- man/grapes-div-grapes.Rd | 72 ++++++++-------- man/grapes-dot-grapes.Rd | 62 ++++++------- man/grapes-inner-grapes.Rd | 58 ++++++------ man/grapes-kronecker-grapes.Rd | 54 ++++++------ man/grapes-matrix-grapes.Rd | 74 ++++++++-------- man/grapes-outer-grapes.Rd | 54 ++++++------ man/grapes-prod-grapes.Rd | 72 ++++++++-------- man/grapes-sum-grapes.Rd | 72 ++++++++-------- man/hermite.Rd | 88 +++++++++---------- man/hessian.Rd | 113 ++++++++++++------------- man/index.Rd | 98 ++++++++++----------- man/integral.Rd | 184 +++++++++++++++++++++-------------------- man/inverse.Rd | 54 ++++++------ man/kronecker.Rd | 54 ++++++------ man/laplacian.Rd | 127 ++++++++++++++-------------- man/levicivita.Rd | 48 +++++----- man/partitions.Rd | 107 +++++++++++------------ man/taylor.Rd | 88 +++++++++---------- man/trace.Rd | 106 +++++++++++------------ man/wrap.Rd | 64 +++++++------- 37 files changed, 1469 insertions(+), 1478 deletions(-)
Title: Mixture Models for Binomial and Longitudinal Data
Description: Provides a clustering method of non-gaussian longitudinal data with a mixture of generalized linear models. The longitudinal data should be defined as repeated observations for each individual. The number of observations for each individual can be different. In runEM(), an expectation-maximization algorithm is developed for both binomial and longitudinal data mixture model.
Author: Faustine Bousquet <faustine.bousquet@umontpellier.fr>, Sophie Lèbre <sophie.lebre@umontpellier.fr>, Christian Lavergne <christian.lavergne@umontpellier.fr>
Maintainer: Faustine Bousquet <faustine.bousquet@umontpellier.fr>
Diff between binomialMix versions 1.0 dated 2019-12-15 and 1.0.1 dated 2020-03-23
binomialMix-1.0.1/binomialMix/DESCRIPTION | 8 ++--- binomialMix-1.0.1/binomialMix/MD5 | 13 ++++----- binomialMix-1.0.1/binomialMix/build/vignette.rds |binary binomialMix-1.0.1/binomialMix/tests/testthat/test-extract_id.R | 3 +- binomialMix-1.0.1/binomialMix/tests/testthat/test-init_design_matrices.R | 14 ++++++---- binomialMix-1.0.1/binomialMix/tests/testthat/test-init_tau.R | 3 +- binomialMix-1.0.1/binomialMix/tests/testthat/test-log_density_binomial.R | 3 +- binomialMix-1.0/binomialMix/tests/testthat/test-init-beta.R |only 8 files changed, 25 insertions(+), 19 deletions(-)
Title: Bayesian Variable Selection Using Simplified Shotgun Stochastic
Search with Screening (S5)
Description: In p >> n settings, full posterior sampling using existing Markov chain Monte
Carlo (MCMC) algorithms is highly inefficient and often not feasible from a practical
perspective. To overcome this problem, we propose a scalable stochastic search algorithm that is called the Simplified Shotgun Stochastic Search (S5) and aimed at rapidly explore interesting regions of model space and finding the maximum a posteriori(MAP) model. Also, the S5 provides an approximation of posterior probability of each model (including the marginal inclusion probabilities). This algorithm is a part of an article titled "Scalable Bayesian Variable Selection Using Nonlocal Prior Densities in Ultrahigh-dimensional Settings" (2018) by Minsuk Shin, Anirban Bhattacharya, and Valen E. Johnson and "Nonlocal Functional Priors for Nonparametric Hypothesis Testing and High-dimensional Model Selection" (2020+) by Minsuk Shin and Anirban Bhattacharya.
Author: Minsuk Shin and Ruoxuan Tian
Maintainer: Minsuk Shin <minsuk000@gmail.com>
Diff between BayesS5 versions 1.31 dated 2018-10-26 and 1.40 dated 2020-03-23
DESCRIPTION | 16 +- MD5 | 36 +++--- NAMESPACE | 2 R/S5.R | 18 ++- R/S5_additive.R |only R/S5_parallel.R | 11 - R/ind_fun_NLfP.R |only R/result.R | 9 - man/S5.Rd | 298 +++++++++++++++++++++++++------------------------- man/S5_additive.Rd |only man/S5_parallel.Rd | 59 ++++----- man/hyper_par.Rd | 160 +++++++++++++------------- man/ind_fun_NLfP.Rd |only man/ind_fun_pemom.Rd | 36 +++--- man/ind_fun_pimom.Rd | 38 +++--- man/obj_fun_g.Rd | 37 +++--- man/obj_fun_pemom.Rd | 37 +++--- man/obj_fun_pimom.Rd | 36 +++--- man/result.Rd | 173 ++++++++++++++--------------- man/result_est_LS.Rd | 159 +++++++++++++------------- man/result_est_MAP.Rd | 157 +++++++++++++------------- 21 files changed, 640 insertions(+), 642 deletions(-)
Title: Comprehensive and Easy to Use Quality Control of GWAS Results
Description: When evaluating the results of a genome-wide association study (GWAS), it is important to perform a quality control to ensure that the results are valid, complete, correctly formatted, and, in case of meta-analysis, consistent with other studies that have applied the same analysis. This package was developed to facilitate and streamline this process and provide the user with a comprehensive report.
Author: Alireza Ani [aut, cre],
Peter J. van der Most [aut],
Ahmad Vaez [aut],
Ilja M. Nolte [aut]
Maintainer: Alireza Ani <a.ani@umcg.nl>
Diff between GWASinspector versions 1.4.5 dated 2020-03-15 and 1.4.6 dated 2020-03-23
DESCRIPTION | 8 ++-- MD5 | 44 +++++++++++------------ R/Study.R | 2 - R/aaa.R | 2 - R/calculationFunctions.R | 5 ++ R/class_definition.R | 2 - R/compare_GWASs.R | 10 +++-- R/excelReportFunctions.R | 32 +++++++++++++---- R/multiStudyFunctions.R | 10 +++-- R/multiStudyPlots.R | 20 +++++++++- R/processColumns.R | 58 +++++++++++++++++++++++++++++++ R/processInputFile.R | 5 ++ R/reportRelatedFunctions.R | 10 ++++- R/studyFunctions.R | 25 ++++++++++--- R/zzz.R | 3 + inst/doc/GWASinspector.R | 4 -- inst/doc/GWASinspector.Rmd | 19 +++------- inst/doc/GWASinspector.html | 56 ++++++++++++++--------------- inst/rmd/mainReport_extra.rmd | 8 ++++ inst/rmd/multiFileReport.rmd | 2 - inst/rmd/multiFileReport_alone_extra.rmd | 8 ++-- inst/rmd/multiFileReport_extra.rmd | 8 ++-- vignettes/GWASinspector.Rmd | 19 +++------- 23 files changed, 242 insertions(+), 118 deletions(-)
Title: Required 'libphonenumber' jars for the 'dialr' Package
Description: Collects 'libphonenumber' jars required for the
'dialr' package.
Author: Danny Smith [aut, cre],
Google Inc. [ctb, cph] (libphonenumber),
Vonage Holdings Corp. [ctb, cph] (libphonenumber),
Ian Galpin [ctb, cph] (libphonenumber),
Ben Gertzfield [ctb, cph] (libphonenumber)
Maintainer: Danny Smith <danny@gorcha.org>
Diff between dialrjars versions 8.11.4 dated 2020-02-25 and 8.12.0 dated 2020-03-23
dialrjars-8.11.4/dialrjars/inst/java/carrier-1.124.jar |only dialrjars-8.11.4/dialrjars/inst/java/geocoder-2.134.jar |only dialrjars-8.11.4/dialrjars/inst/java/libphonenumber-8.11.4.jar |only dialrjars-8.11.4/dialrjars/inst/java/prefixmapper-2.134.jar |only dialrjars-8.12.0/dialrjars/DESCRIPTION | 8 ++-- dialrjars-8.12.0/dialrjars/MD5 | 12 +++--- dialrjars-8.12.0/dialrjars/NEWS.md | 20 ++++++++++ dialrjars-8.12.0/dialrjars/inst/java/carrier-1.126.jar |only dialrjars-8.12.0/dialrjars/inst/java/geocoder-2.136.jar |only dialrjars-8.12.0/dialrjars/inst/java/libphonenumber-8.12.0.jar |only dialrjars-8.12.0/dialrjars/inst/java/prefixmapper-2.136.jar |only 11 files changed, 30 insertions(+), 10 deletions(-)
Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation
of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>.
This package is its R interface. The package includes efficient linear
model solver and tree learning algorithms. The package can automatically
do parallel computation on a single machine which could be more than 10
times faster than existing gradient boosting packages. It supports
various objective functions, including regression, classification and ranking.
The package is made to be extensible, so that users are also allowed to define
their own objectives easily.
Author: Tianqi Chen [aut],
Tong He [aut, cre],
Michael Benesty [aut],
Vadim Khotilovich [aut],
Yuan Tang [aut] (<https://orcid.org/0000-0001-5243-233X>),
Hyunsu Cho [aut],
Kailong Chen [aut],
Rory Mitchell [aut],
Ignacio Cano [aut],
Tianyi Zhou [aut],
Mu Li [aut],
Junyuan Xie [aut],
Min Lin [aut],
Yifeng Geng [aut],
Yutian Li [aut],
XGBoost contributors [cph] (base XGBoost implementation)
Maintainer: Tong He <hetong007@gmail.com>
Diff between xgboost versions 0.90.0.2 dated 2019-08-01 and 1.0.0.1 dated 2020-03-23
xgboost-0.90.0.2/xgboost/src/Makevars.win-e |only xgboost-0.90.0.2/xgboost/src/dmlc-core/include/dmlc/build_config.h |only xgboost-0.90.0.2/xgboost/src/include/xgboost/build_config.h |only xgboost-0.90.0.2/xgboost/src/rabit/src/socket.h |only xgboost-0.90.0.2/xgboost/src/rabit/src/thread_local.h |only xgboost-0.90.0.2/xgboost/src/src/common/enum_class_param.h |only xgboost-0.90.0.2/xgboost/src/src/common/host_device_vector.h |only xgboost-0.90.0.2/xgboost/src/src/common/span.h |only xgboost-0.90.0.2/xgboost/src/src/data/sparse_page_source.cc |only xgboost-0.90.0.2/xgboost/src/src/data/sparse_page_writer.cc |only xgboost-0.90.0.2/xgboost/src/src/tree/updater_gpu.cu |only xgboost-1.0.0.1/xgboost/DESCRIPTION | 10 xgboost-1.0.0.1/xgboost/LICENSE | 2 xgboost-1.0.0.1/xgboost/MD5 | 388 +-- xgboost-1.0.0.1/xgboost/R/utils.R | 2 xgboost-1.0.0.1/xgboost/R/xgb.Booster.R | 17 xgboost-1.0.0.1/xgboost/R/xgb.cv.R | 22 xgboost-1.0.0.1/xgboost/R/xgb.train.R | 3 xgboost-1.0.0.1/xgboost/R/xgboost.R | 38 xgboost-1.0.0.1/xgboost/build/vignette.rds |binary xgboost-1.0.0.1/xgboost/configure | 1043 ++++++++ xgboost-1.0.0.1/xgboost/configure.ac | 32 xgboost-1.0.0.1/xgboost/demo/create_sparse_matrix.R | 6 xgboost-1.0.0.1/xgboost/demo/gpu_accelerated.R | 2 xgboost-1.0.0.1/xgboost/inst/doc/discoverYourData.R | 42 xgboost-1.0.0.1/xgboost/inst/doc/discoverYourData.Rmd | 6 xgboost-1.0.0.1/xgboost/inst/doc/discoverYourData.html | 891 +++---- xgboost-1.0.0.1/xgboost/inst/doc/xgboost.R | 16 xgboost-1.0.0.1/xgboost/inst/doc/xgboost.pdf |binary xgboost-1.0.0.1/xgboost/inst/doc/xgboostPresentation.R | 56 xgboost-1.0.0.1/xgboost/inst/doc/xgboostPresentation.html | 1029 ++++---- xgboost-1.0.0.1/xgboost/inst/doc/xgboostfromJSON.R | 44 xgboost-1.0.0.1/xgboost/inst/doc/xgboostfromJSON.Rmd | 22 xgboost-1.0.0.1/xgboost/inst/doc/xgboostfromJSON.html | 809 +++--- xgboost-1.0.0.1/xgboost/man/agaricus.test.Rd | 10 xgboost-1.0.0.1/xgboost/man/agaricus.train.Rd | 10 xgboost-1.0.0.1/xgboost/man/cb.early.stop.Rd | 8 xgboost-1.0.0.1/xgboost/man/predict.xgb.Booster.Rd | 21 xgboost-1.0.0.1/xgboost/man/xgb.create.features.Rd | 2 xgboost-1.0.0.1/xgboost/man/xgb.cv.Rd | 30 xgboost-1.0.0.1/xgboost/man/xgb.dump.Rd | 10 xgboost-1.0.0.1/xgboost/man/xgb.importance.Rd | 10 xgboost-1.0.0.1/xgboost/man/xgb.model.dt.tree.Rd | 10 xgboost-1.0.0.1/xgboost/man/xgb.plot.deepness.Rd | 14 xgboost-1.0.0.1/xgboost/man/xgb.plot.importance.Rd | 23 xgboost-1.0.0.1/xgboost/man/xgb.plot.multi.trees.Rd | 11 xgboost-1.0.0.1/xgboost/man/xgb.plot.shap.Rd | 34 xgboost-1.0.0.1/xgboost/man/xgb.plot.tree.Rd | 13 xgboost-1.0.0.1/xgboost/man/xgb.train.Rd | 42 xgboost-1.0.0.1/xgboost/src/Makevars.in | 6 xgboost-1.0.0.1/xgboost/src/Makevars.win | 4 xgboost-1.0.0.1/xgboost/src/amalgamation/xgboost-all0.cc | 14 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/base.h | 21 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/build_config_default.h |only xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/concurrency.h | 4 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/endian.h | 2 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/json.h | 5 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/logging.h | 23 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/omp.h | 2 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/parameter.h | 129 - xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/thread_group.h | 4 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/thread_local.h | 6 xgboost-1.0.0.1/xgboost/src/dmlc-core/include/dmlc/threadediter.h | 120 - xgboost-1.0.0.1/xgboost/src/include/xgboost/base.h | 57 xgboost-1.0.0.1/xgboost/src/include/xgboost/c_api.h | 145 - xgboost-1.0.0.1/xgboost/src/include/xgboost/data.h | 390 +-- xgboost-1.0.0.1/xgboost/src/include/xgboost/feature_map.h | 2 xgboost-1.0.0.1/xgboost/src/include/xgboost/gbm.h | 76 xgboost-1.0.0.1/xgboost/src/include/xgboost/generic_parameters.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/host_device_vector.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/json.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/json_io.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/learner.h | 143 - xgboost-1.0.0.1/xgboost/src/include/xgboost/linear_updater.h | 24 xgboost-1.0.0.1/xgboost/src/include/xgboost/logging.h | 32 xgboost-1.0.0.1/xgboost/src/include/xgboost/metric.h | 25 xgboost-1.0.0.1/xgboost/src/include/xgboost/model.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/objective.h | 37 xgboost-1.0.0.1/xgboost/src/include/xgboost/parameter.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/predictor.h | 101 xgboost-1.0.0.1/xgboost/src/include/xgboost/span.h |only xgboost-1.0.0.1/xgboost/src/include/xgboost/tree_model.h | 133 - 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xgboost-1.0.0.1/xgboost/src/src/predictor/cpu_predictor.cc | 213 + xgboost-1.0.0.1/xgboost/src/src/predictor/gpu_predictor.cu | 368 +-- xgboost-1.0.0.1/xgboost/src/src/predictor/predictor.cc | 15 xgboost-1.0.0.1/xgboost/src/src/tree/constraints.cc |only xgboost-1.0.0.1/xgboost/src/src/tree/constraints.cu |only xgboost-1.0.0.1/xgboost/src/src/tree/constraints.cuh |only xgboost-1.0.0.1/xgboost/src/src/tree/constraints.h |only xgboost-1.0.0.1/xgboost/src/src/tree/gpu_hist |only xgboost-1.0.0.1/xgboost/src/src/tree/param.cc |only xgboost-1.0.0.1/xgboost/src/src/tree/param.h | 195 - xgboost-1.0.0.1/xgboost/src/src/tree/split_evaluator.cc | 311 -- xgboost-1.0.0.1/xgboost/src/src/tree/split_evaluator.h | 10 xgboost-1.0.0.1/xgboost/src/src/tree/tree_model.cc | 877 ++++++- xgboost-1.0.0.1/xgboost/src/src/tree/tree_updater.cc | 11 xgboost-1.0.0.1/xgboost/src/src/tree/updater_basemaker-inl.h | 56 xgboost-1.0.0.1/xgboost/src/src/tree/updater_colmaker.cc | 464 +-- xgboost-1.0.0.1/xgboost/src/src/tree/updater_gpu_common.cuh | 112 xgboost-1.0.0.1/xgboost/src/src/tree/updater_gpu_hist.cu | 1072 ++------- xgboost-1.0.0.1/xgboost/src/src/tree/updater_histmaker.cc | 174 - xgboost-1.0.0.1/xgboost/src/src/tree/updater_prune.cc | 25 xgboost-1.0.0.1/xgboost/src/src/tree/updater_quantile_hist.cc | 439 ++- xgboost-1.0.0.1/xgboost/src/src/tree/updater_quantile_hist.h | 105 xgboost-1.0.0.1/xgboost/src/src/tree/updater_refresh.cc | 24 xgboost-1.0.0.1/xgboost/src/src/tree/updater_skmaker.cc | 5 xgboost-1.0.0.1/xgboost/src/src/tree/updater_sync.cc | 13 xgboost-1.0.0.1/xgboost/src/xgboost_R.cc | 35 xgboost-1.0.0.1/xgboost/src/xgboost_R.h | 4 xgboost-1.0.0.1/xgboost/tests/testthat/test_basic.R | 76 xgboost-1.0.0.1/xgboost/tests/testthat/test_callbacks.R | 3 xgboost-1.0.0.1/xgboost/tests/testthat/test_custom_objective.R | 2 xgboost-1.0.0.1/xgboost/tests/testthat/test_helpers.R | 38 xgboost-1.0.0.1/xgboost/vignettes/discoverYourData.Rmd | 6 xgboost-1.0.0.1/xgboost/vignettes/xgboostfromJSON.Rmd | 22 223 files changed, 13056 insertions(+), 9802 deletions(-)
Title: Tables of Descriptive Statistics in HTML
Description: Create HTML tables of descriptive statistics, as one would expect
to see as the first table (i.e. "Table 1") in a medical/epidemiological journal
article.
Author: Benjamin Rich [aut, cre, cph]
Maintainer: Benjamin Rich <mail@benjaminrich.net>
Diff between table1 versions 1.1 dated 2018-07-19 and 1.2 dated 2020-03-23
DESCRIPTION | 18 MD5 | 58 - NAMESPACE | 3 NEWS.md | 20 R/eqcut.R | 16 R/t1read.R |only R/table1.R | 250 ++----- README.md | 2 build/vignette.rds |binary inst/doc/table1-examples.R | 50 - inst/doc/table1-examples.Rmd | 10 inst/doc/table1-examples.html | 1210 +++++++++++++++++++------------------- man/eqcut.Rd | 211 +++--- man/label.Rd | 72 +- man/parse.abbrev.render.code.Rd | 108 +-- man/print.table1.Rd | 46 - man/render.categorical.default.Rd | 63 + man/render.continuous.default.Rd | 60 - man/render.default.Rd | 132 ++-- man/render.missing.default.Rd | 58 - man/render.strat.default.Rd | 42 - man/render.varlabel.Rd | 66 +- man/signif_pad.Rd | 129 ++-- man/stats.apply.rounding.Rd | 118 +-- man/stats.default.Rd | 128 ++-- man/subsetp.Rd | 56 - man/t1read.Rd |only man/table.rows.Rd | 128 ++-- man/table1.Rd | 281 ++++---- man/units.Rd | 72 +- vignettes/table1-examples.Rmd | 10 31 files changed, 1743 insertions(+), 1674 deletions(-)
Title: Analysis of the 'Elements of Metacommunity Structure'
Description: Functions to analyze coherence, boundary clumping, and turnover
following the pattern-based metacommunity analysis of Leibold and Mikkelson
2002 <doi:10.1034/j.1600-0706.2002.970210.x>. The package also includes
functions to visualize ecological networks, and to calculate modularity
as a replacement to boundary clumping.
Author: Tad Dallas [aut, cre],
Tom Pulliam [ctb]
Maintainer: Tad Dallas <tad.a.dallas@gmail.com>
Diff between metacom versions 1.5.2 dated 2019-10-13 and 1.5.3 dated 2020-03-23
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 6 ++++++ R/Coherence.R | 17 ++++++++++++----- R/Metacommunity.R | 18 +++++++++++++----- R/NullMaker.R | 3 ++- R/Turnover.R | 13 +++++++++---- man/Coherence.Rd | 11 ++++++++--- man/Metacommunity.Rd | 12 +++++++++--- man/Turnover.Rd | 11 ++++++++--- 10 files changed, 79 insertions(+), 36 deletions(-)
Title: Cubic Hermite Splines and Related Optimization Methods
Description: Constructs, plots and evaluates constrained cubic Hermite splines, which can be used to construct monotonic and bounded splines. Computes their first derivatives, indefinite integrals and smooth approximations of their first, second and higher derivatives. Also, computes their roots/solutions, along with their minima/maxima and inflection points.
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between kubik versions 0.1.2 dated 2019-11-30 and 0.2.0 dated 2020-03-23
kubik-0.1.2/kubik/man/01_spline_tangents.Rd |only kubik-0.1.2/kubik/man/02_spline_functions.Rd |only kubik-0.1.2/kubik/man/03_print_and_plot_methods.Rd |only kubik-0.1.2/kubik/man/04_spline_roots.Rd |only kubik-0.1.2/kubik/man/05_solve_method.Rd |only kubik-0.1.2/kubik/man/06_spline_function_evaluation.Rd |only kubik-0.1.2/kubik/man/07_spline_root_evaluation.Rd |only kubik-0.2.0/kubik/DESCRIPTION | 14 - kubik-0.2.0/kubik/MD5 | 42 ++--- kubik-0.2.0/kubik/NAMESPACE | 9 - kubik-0.2.0/kubik/R/chs.r | 133 +++++++---------- kubik-0.2.0/kubik/R/chs_eval.r | 72 ++++----- kubik-0.2.0/kubik/R/chs_interval_eval.r | 4 kubik-0.2.0/kubik/R/chs_slopes.r |only kubik-0.2.0/kubik/R/intoo_deriv.r |only kubik-0.2.0/kubik/R/methods.r | 35 ++-- kubik-0.2.0/kubik/R/params.r | 4 kubik-0.2.0/kubik/R/poly.r | 78 ++++++--- kubik-0.2.0/kubik/R/roots.r | 58 ++++--- kubik-0.2.0/kubik/R/roots_eval.r | 48 +++--- kubik-0.2.0/kubik/R/roots_eval_2.r | 27 ++- kubik-0.2.0/kubik/R/roots_interval_eval.r | 10 - kubik-0.2.0/kubik/man/11_cubic_hermite_splines.Rd |only kubik-0.2.0/kubik/man/12_constraints.Rd |only kubik-0.2.0/kubik/man/13_print_and_plot_methods.Rd |only kubik-0.2.0/kubik/man/14_roots.Rd |only kubik-0.2.0/kubik/man/15_solve_method.Rd |only kubik-0.2.0/kubik/man/16_slopes_and_tangents.Rd |only kubik-0.2.0/kubik/man/21_direct_chs_evaluation.Rd |only kubik-0.2.0/kubik/man/22_direct_chs_root_evaluation.Rd |only kubik-0.2.0/kubik/man/31_deprecated.Rd |only 31 files changed, 286 insertions(+), 248 deletions(-)
Title: Harrell Miscellaneous
Description: Contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, importing and annotating datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of R objects to LaTeX and html code,
and recoding variables.
Author: Frank E Harrell Jr <f.harrell@vanderbilt.edu>, with
contributions from Charles Dupont and many others.
Maintainer: Frank E Harrell Jr <f.harrell@vanderbilt.edu>
Diff between Hmisc versions 4.3-1 dated 2020-02-07 and 4.4-0 dated 2020-03-23
DESCRIPTION | 10 +-- MD5 | 46 ++++++++-------- NAMESPACE | 2 NEWS | 7 ++ R/Misc.s | 24 ++++++++ R/combplotp.r |only R/html.s | 24 ++++++++ R/label.s | 37 ++++++------- R/plotlyM.r | 72 ++++++++++++++++++++------ R/scat1d.s | 93 ++++++++++++++++++++++++++++++++++ R/summaryP.s | 8 ++ R/summaryS.s | 10 +-- man/Misc.Rd | 23 +++++++- man/addMarginal.Rd | 2 man/aregImpute.Rd | 4 - man/combplotp.Rd |only man/contents.Rd | 3 - man/data.frame.create.modify.check.Rd | 6 +- man/hidingTOC.Rd | 11 ++-- man/label.Rd | 8 +- man/mChoice.Rd | 2 man/plotlyM.Rd | 46 ++++++++++++---- man/scat1d.Rd | 42 ++++++++++++--- man/stat_plsmo.Rd | 18 +++++- man/summaryS.Rd | 4 + 25 files changed, 393 insertions(+), 109 deletions(-)
Title: Efficient Effect Size Computation
Description: A collection of functions to compute the standardized
effect sizes for experiments (Cohen d, Hedges g, Cliff delta, Vargha-Delaney A).
The computation algorithms have been optimized to allow efficient computation even
with very large data sets.
Author: Marco Torchiano [aut, cre]
Maintainer: Marco Torchiano <marco.torchiano@polito.it>
Diff between effsize versions 0.7.8 dated 2020-02-10 and 0.7.9 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/CohenD.R | 2 +- man/effsize-package.Rd | 2 +- tests/testthat/testCliff.R | 2 +- 5 files changed, 11 insertions(+), 11 deletions(-)
Title: Modeling Correlational Magnitude Transformations in
Discretization Contexts
Description: Modeling the correlation transitions under specified distributional assumptions within the realm of discretization in the context of the latency and threshold concepts. The details of the method are explained in Demirtas, H. and Vardar-Acar, C. (2017) <DOI:10.1007/978-981-10-3307-0_4>.
Author: Rawan Allozi, Hakan Demirtas, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between CorrToolBox versions 1.6.1 dated 2019-05-17 and 1.6.2 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/CorrToolBox-package.Rd | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-02-21 0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-01-29 0.5.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-02 0.1.6
2019-10-01 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-28 1.3
2015-12-25 1.2
2015-09-06 1.1
2015-05-31 1.0
Title: Antarctic Spatial Data Manipulation
Description: Loads and creates spatial data, including layers and tools that are relevant
to the activities of the Commission for the Conservation of Antarctic Marine Living
Resources. Provides two categories of functions: load functions and create functions.
Load functions are used to import existing spatial layers from the online CCAMLR GIS
such as the ASD boundaries. Create functions are used to create layers from user data
such as polygons and grids.
Author: Stephane Thanassekos [aut, cre],
Keith Reid [aut],
Lucy Robinson [aut],
Michael D. Sumner [ctb],
Roger Bivand [ctb]
Maintainer: Stephane Thanassekos <stephane.thanassekos@ccamlr.org>
Diff between CCAMLRGIS versions 3.0.2 dated 2020-03-16 and 3.0.3 dated 2020-03-23
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/cGrid.r | 26 +++++++++++++++++++++++--- inst/doc/CCAMLRGIS.html | 4 ++-- 5 files changed, 37 insertions(+), 13 deletions(-)