Title: Utility Functions for Forest Inventory Estimation and Analysis
Description: A set of tools for data wrangling, spatial data analysis,
statistical modeling (including direct, model-assisted, photo-based, and
small area tools), and USDA Forest Service data base tools. These tools are
aimed to help Foresters, Analysts, and Scientists extract and perform
analyses on USDA Forest Service data.
Author: Tracey Frescino [aut],
Chris Toney [aut],
Grayson White [aut, cre]
Maintainer: Grayson White <graysonwhite13@gmail.com>
Diff between FIESTAutils versions 1.1.2 dated 2022-06-14 and 1.1.3 dated 2022-08-06
DESCRIPTION | 10 ++++----- MD5 | 36 ++++++++++++++++++----------------- NEWS.md | 7 ++++++ R/DBinternal.R | 4 +-- R/cool_functions.R | 11 ++++------ R/datExportData.R | 10 ++++++++- R/getadjfactorGB.R | 49 ++++++++++++++++++++++++++++++++++++------------ R/groupUnits.R | 4 +-- R/pcheck.functions.R | 9 +++++--- R/save_largeList.R |only R/savedata_options.R | 2 + R/strata_options.R | 8 +++++-- R/write2sqlite.R | 2 - data/ref_codes.rda |binary data/ref_domain.rda |binary man/internal_desc.Rd | 2 + man/savedata_options.Rd | 3 ++ man/strata_options.Rd | 6 +++++ src/Makevars |only src/r_rasterize.cpp | 19 ++++++++---------- 20 files changed, 121 insertions(+), 61 deletions(-)
Title: The Distributed Local PCA Algorithm
Description: Algorithm to handle with optimal subset selection for distributed local principal component analysis. The philosophy of the package is described in Guo G. (2020) <doi:10.1080/02331888.2020.1823979>.
Author: Guangbao Guo [aut, cre] ,
Guoqi Qian [aut],
Yixiao Liu [aut],
Haoyue Song [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between DLPCA versions 0.0.2 dated 2022-05-18 and 0.0.5 dated 2022-08-06
DLPCA-0.0.2/DLPCA/data/Ontime.rda |only DLPCA-0.0.2/DLPCA/man/Ontime.Rd |only DLPCA-0.0.5/DLPCA/DESCRIPTION | 11 +++++++---- DLPCA-0.0.5/DLPCA/MD5 | 22 ++++++++++++++++------ DLPCA-0.0.5/DLPCA/R/DLPCA.R | 30 ++++++++++++++++++++---------- DLPCA-0.0.5/DLPCA/R/MSEpca.R | 4 ++-- DLPCA-0.0.5/DLPCA/data/gt2011.rda |only DLPCA-0.0.5/DLPCA/data/gt2012.rda |only DLPCA-0.0.5/DLPCA/data/gt2013.rda |only DLPCA-0.0.5/DLPCA/data/gt2014.rda |only DLPCA-0.0.5/DLPCA/data/gt2015.rda |only DLPCA-0.0.5/DLPCA/man/DLPCA.Rd | 22 +++++++++++++--------- DLPCA-0.0.5/DLPCA/man/gt2011.Rd |only DLPCA-0.0.5/DLPCA/man/gt2012.Rd |only DLPCA-0.0.5/DLPCA/man/gt2013.Rd |only DLPCA-0.0.5/DLPCA/man/gt2014.Rd |only DLPCA-0.0.5/DLPCA/man/gt2015.Rd |only DLPCA-0.0.5/DLPCA/tests |only 18 files changed, 58 insertions(+), 31 deletions(-)
Title: Signal Processing Toolbox for Analyzing 'Electrophysiology' Data
Description: Implemented fast and memory-efficient 'Notch'-filter,
'Welch-periodogram', and discrete wavelet transform algorithm for hours of
high-resolution signals; providing fundamental toolbox
for 'iEEG' preprocess pipelines.
Documentation and examples about 'RAVE' project are provided at
<https://openwetware.org/wiki/RAVE>, and the paper by John F. Magnotti,
Zhengjia Wang, Michael S. Beauchamp (2020)
<doi:10.1016/j.neuroimage.2020.117341>; see 'citation("ravetools")' for
details.
Author: Zhengjia Wang [aut, cre, cph],
Beauchamp lab [cph],
Karim Rahim [cph] ,
Prerau Lab [cph] ,
RcppParallel Authors [cph] ,
Marcus Geelnard [cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between ravetools versions 0.0.4 dated 2022-05-29 and 0.0.5 dated 2022-08-06
DESCRIPTION | 13 - MD5 | 45 ++- NAMESPACE | 9 NEWS.md | 7 R/RcppExports.R | 56 +++- R/aaa.R | 5 R/multitaper.R | 2 R/notch.R | 2 R/pwelch.R | 4 R/raw_to_sexp.R |only R/wavelet.R | 25 +- inst/include/ravetools.h |only inst/include/ravetools_RcppExports.h |only man/raw-to-sexp.Rd |only man/wavelet.Rd | 3 src/RcppExports.cpp | 429 +++++++++++++++++++++++++++++++---- src/collapse-cplx.cpp | 1 src/collapse-real.cpp | 2 src/fastColMeans.cpp | 1 src/fastcov.cpp | 2 src/ffts.cpp | 64 ++++- src/ffts.h | 6 src/fftw-wrapper.cpp | 80 +++--- src/rawToSEXP.cpp |only src/rawToSEXP.h |only tests/testthat/test-fftw.R | 91 +++++++ tests/testthat/test-rawToSEXP.R |only 27 files changed, 712 insertions(+), 135 deletions(-)
Title: Generate Samples from Multivariate Truncated Normal
Distributions
Description: Efficient sampling from high-dimensional truncated Gaussian
distributions, or multivariate truncated normal (MTN). Techniques include
zigzag Hamiltonian Monte Carlo as in Akihiko Nishimura, Zhenyu Zhang and
Marc A. Suchard (2021) <arXiv:2104.07694>, and harmonic Monte in Ari Pakman
and Liam Paninski (2014) <doi:10.1080/10618600.2013.788448>.
Author: Zhenyu Zhang [aut, cre],
Andrew Chin [aut],
Akihiko Nishimura [aut],
Marc A. Suchard [aut],
John W. Ratcliff et al. [cph, ctb]
Maintainer: Zhenyu Zhang <zhangzhenyusa@gmail.com>
Diff between hdtg versions 0.1.0 dated 2022-06-28 and 0.2.0 dated 2022-08-06
DESCRIPTION | 16 ++--- MD5 | 32 ++++++----- NAMESPACE | 6 ++ R/RcppExports.R | 58 +++++++++++++++++--- R/getSampleFunctions.R | 121 +++++++++++++++++++++++++++++++++--------- R/harmonicHMC.R | 79 ++++++++++++--------------- R/zigzagHMC.R | 59 ++++---------------- build/partial.rdb |binary man/cholesky.Rd | 4 - man/createEngine.Rd |only man/createNutsEngine.Rd |only man/getInitialPosition.Rd |only man/getZigzagSample.Rd |only man/harmonicHMC.Rd | 46 ++++++---------- man/setMean.Rd |only man/setPrecision.Rd |only man/zigzagHMC.Rd | 19 ++---- src/RcppExports.cpp | 37 ++++-------- src/RcppHarmonic.cpp | 5 + src/RcppZigZag.cpp | 132 +++++++++++++++++++++------------------------- 20 files changed, 330 insertions(+), 284 deletions(-)
Title: Nonparametric Analysis of Longitudinal Data in Factorial
Experiments
Description: Performs nonparametric
analysis of longitudinal data in factorial experiments.
Longitudinal data are those which are collected from the same
subjects over time, and they frequently arise in biological
sciences. Nonparametric methods do not require distributional
assumptions, and are applicable to a variety of data types
(continuous, discrete, purely ordinal, and dichotomous). Such
methods are also robust with respect to outliers and for small
sample sizes.
Author: Kimihiro Noguchi <noguchk@wwu.edu>, Mahbub Latif
<mlatif@isrt.ac.bd>, Karthinathan Thangavelu,
Frank Konietschke <frank.konietschke@charite.de>, Yulia R. Gel
<yxg142030@utdallas.edu>, Edgar Brunner
<ebrunne1@gwdg.de>
Maintainer: Frank Konietschke <frank.konietschke@charite.de>
Diff between nparLD versions 2.1-1 dated 2022-06-27 and 2.2 dated 2022-08-06
DESCRIPTION | 20 ++++++++++---------- MD5 | 2 +- 2 files changed, 11 insertions(+), 11 deletions(-)
Title: Miscellaneous, Analytic R Kernels
Description: Miscellaneous functions and wrappers for development in other
packages created, maintained by Jordan Mark Barbone.
Author: Jordan Mark Barbone [aut, cph, cre]
Maintainer: Jordan Mark Barbone <jmbarbone@gmail.com>
Diff between mark versions 0.5.0 dated 2022-03-09 and 0.5.1 dated 2022-08-06
DESCRIPTION | 10 MD5 | 36 - NEWS.md | 670 ++++++++++++++++++------------------- R/directory.R | 2 R/searches.R | 2 README.md | 34 - man/get_recent_file.Rd | 2 man/multi_grepl.Rd | 4 man/switch-ext.Rd | 204 +++++------ man/tableNA.Rd | 3 man/that.Rd | 3 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/bib.md | 6 tests/testthat/_snaps/diff-time.md | 176 ++++----- tests/testthat/_snaps/handlers.md | 16 tests/testthat/_snaps/note.md | 84 ++-- tests/testthat/_snaps/pseudo_id.md | 16 tests/testthat/_snaps/todos.md | 20 - tests/testthat/test-note.R | 26 + 19 files changed, 667 insertions(+), 647 deletions(-)
Title: Meta-Analysis with Mean Differences
Description: A collection of functions for conducting a meta-analysis with mean differences data. It uses recommended procedures as described in The Handbook of Research Synthesis and Meta-Analysis (Cooper, Hedges, & Valentine, 2009).
Author: AC Del Re [aut, cre] ,
William Hoyt [aut]
Maintainer: AC Del Re <acdelre@gmail.com>
Diff between MAd versions 0.8-2.1 dated 2018-08-31 and 0.8-3 dated 2022-08-06
MAd-0.8-2.1/MAd/man/OmnibusES.Rd |only MAd-0.8-2.1/MAd/man/r2.mareg.rd |only MAd-0.8-2.1/MAd/man/r2.rd |only MAd-0.8-2.1/MAd/man/wd.default.rd |only MAd-0.8-2.1/MAd/man/wd.macat.rd |only MAd-0.8-2.1/MAd/man/wd.mareg.rd |only MAd-0.8-2.1/MAd/man/wd.omni.rd |only MAd-0.8-2.1/MAd/man/wd.rd |only MAd-0.8-3/MAd/DESCRIPTION | 28 + MAd-0.8-3/MAd/MD5 | 42 +- MAd-0.8-3/MAd/NAMESPACE | 25 - MAd-0.8-3/MAd/NEWS | 9 MAd-0.8-3/MAd/R/MAd.R | 525 +++++++++++++++++----------------- MAd-0.8-3/MAd/R/global.R |only MAd-0.8-3/MAd/README.md |only MAd-0.8-3/MAd/data/dat.cooper15.3.rda |binary MAd-0.8-3/MAd/data/dat.cooperA2.rda |binary MAd-0.8-3/MAd/data/dat.hoyt.rda |binary MAd-0.8-3/MAd/data/dat.sim.es.rda |binary MAd-0.8-3/MAd/data/dat.sim.final.rda |binary MAd-0.8-3/MAd/data/dat.sim.raw.rda |binary MAd-0.8-3/MAd/data/dat.sim1.rda |binary MAd-0.8-3/MAd/data/dat.sim2.rda |binary MAd-0.8-3/MAd/inst/CITATION | 4 MAd-0.8-3/MAd/man/MAd-package.Rd | 5 MAd-0.8-3/MAd/man/macat.rd | 3 MAd-0.8-3/MAd/man/mareg.rd | 7 27 files changed, 333 insertions(+), 315 deletions(-)
Title: Functions to Efficiently Access NFL Play by Play Data
Description: A set of functions to access National Football
League play-by-play data from <https://www.nfl.com/>.
Author: Sebastian Carl [aut],
Ben Baldwin [cre, aut],
Lee Sharpe [ctb],
Maksim Horowitz [ctb],
Ron Yurko [ctb],
Samuel Ventura [ctb],
Tan Ho [ctb],
John Edwards [ctb]
Maintainer: Ben Baldwin <bbaldwin206@gmail.com>
Diff between nflfastR versions 4.3.0 dated 2021-10-06 and 4.4.0 dated 2022-08-06
DESCRIPTION | 23 LICENSE | 4 MD5 | 120 - NAMESPACE | 111 - NEWS.md | 982 ++++++------ R/aggregate_game_stats.R | 1364 +++++++++-------- R/build_nflfastR_pbp.R | 180 +- R/calculate_standings.R |only R/data_documentation.R | 122 - R/ep_wp_calculators.R | 376 ++-- R/helper_add_cp_cpoe.R | 140 - R/helper_add_ep_wp.R | 2845 ++++++++++++++++++------------------- R/helper_add_fixed_drives.R | 326 ++-- R/helper_add_game_data.R | 106 - R/helper_add_nflscrapr_mutations.R | 1313 ++++++++--------- R/helper_add_series_data.R | 170 +- R/helper_add_xpass.R | 194 +- R/helper_add_xyac.R | 410 ++--- R/helper_additional_functions.R | 800 +++++----- R/helper_database_functions.R | 362 ++-- R/helper_decode_player_ids.R | 196 +- R/helper_get_scheds_and_rosters.R | 61 R/helper_scrape_gc.R | 603 ++++--- R/helper_scrape_nfl.R | 832 +++++----- R/helper_tidy_play_stats.R | 2608 ++++++++++++++++----------------- R/helper_variable_selector.R | 328 ++-- R/load_pbp.R | 31 R/load_player_stats.R | 66 R/nflfastR-package.R | 253 +-- R/report.R | 143 - R/sysdata.rda |binary R/top-level_scraper.R | 1060 ++++++------- R/utils.R | 367 ++-- README.md | 286 +-- data/field_descriptions.rda |binary data/teams_colors_logos.rda |binary man/add_qb_epa.Rd | 42 man/add_xpass.Rd | 56 man/add_xyac.Rd | 60 man/build_nflfastR_pbp.Rd | 124 - man/calculate_expected_points.Rd | 136 - man/calculate_player_stats.Rd | 206 +- man/calculate_standings.Rd |only man/calculate_win_probability.Rd | 136 - man/clean_pbp.Rd | 120 - man/decode_player_ids.Rd | 96 - man/fast_scraper.Rd | 816 +++++----- man/fast_scraper_roster.Rd | 95 - man/fast_scraper_schedules.Rd | 88 - man/field_descriptions.Rd | 52 man/load_pbp.Rd | 79 - man/load_player_stats.Rd | 71 man/nflfastR-package.Rd | 280 +-- man/report.Rd | 74 man/stat_ids.Rd | 50 man/teams_colors_logos.Rd | 84 - man/update_db.Rd | 121 - tests/testthat.R | 10 tests/testthat/helpers.R | 40 tests/testthat/test-columns.R | 32 tests/testthat/test-schedule.R | 30 tests/testthat/test-scrapers.R | 132 - 62 files changed, 9858 insertions(+), 9954 deletions(-)
Title: Download 'nflverse' Data
Description: A minimal package for downloading data from 'GitHub'
repositories of the 'nflverse' project.
Author: Tan Ho [aut, cre, cph] ,
Sebastian Carl [aut],
John Edwards [ctb],
Ben Baldwin [ctb],
Thomas Mock [ctb],
Lee Sharpe [ctb],
Pranav Rajaram [ctb]
Maintainer: Tan Ho <tan@tanho.ca>
Diff between nflreadr versions 1.2.0 dated 2022-03-17 and 1.3.0 dated 2022-08-06
nflreadr-1.2.0/nflreadr/R/cache_clear.R |only nflreadr-1.2.0/nflreadr/R/load_nflverse.R |only nflreadr-1.2.0/nflreadr/R/name_cleaning.R |only nflreadr-1.2.0/nflreadr/R/sitrep.R |only nflreadr-1.2.0/nflreadr/man/most_recent_season.Rd |only nflreadr-1.2.0/nflreadr/tests/testthat/test-name_cleaning.R |only nflreadr-1.3.0/nflreadr/DESCRIPTION | 25 nflreadr-1.3.0/nflreadr/MD5 | 192 nflreadr-1.3.0/nflreadr/NAMESPACE | 18 nflreadr-1.3.0/nflreadr/NEWS.md | 46 nflreadr-1.3.0/nflreadr/R/data.R | 8 nflreadr-1.3.0/nflreadr/R/from_url.R | 159 nflreadr-1.3.0/nflreadr/R/load_combine.R |only nflreadr-1.3.0/nflreadr/R/load_contracts.R |only nflreadr-1.3.0/nflreadr/R/load_depth_charts.R |only nflreadr-1.3.0/nflreadr/R/load_draft_picks.R |only nflreadr-1.3.0/nflreadr/R/load_espn_qbr.R |only nflreadr-1.3.0/nflreadr/R/load_ffverse.R | 38 nflreadr-1.3.0/nflreadr/R/load_injuries.R |only nflreadr-1.3.0/nflreadr/R/load_nextgen_stats.R |only nflreadr-1.3.0/nflreadr/R/load_officials.R |only nflreadr-1.3.0/nflreadr/R/load_participation.R |only nflreadr-1.3.0/nflreadr/R/load_pbp.R |only nflreadr-1.3.0/nflreadr/R/load_pfr_advstats.R |only nflreadr-1.3.0/nflreadr/R/load_player_stats.R |only nflreadr-1.3.0/nflreadr/R/load_players.R |only nflreadr-1.3.0/nflreadr/R/load_rosters.R |only nflreadr-1.3.0/nflreadr/R/load_rosters_weekly.R |only nflreadr-1.3.0/nflreadr/R/load_schedules.R |only nflreadr-1.3.0/nflreadr/R/load_snap_counts.R |only nflreadr-1.3.0/nflreadr/R/load_teams.R |only nflreadr-1.3.0/nflreadr/R/load_trades.R |only nflreadr-1.3.0/nflreadr/R/utils.R | 63 nflreadr-1.3.0/nflreadr/R/utils_cache_clear.R |only nflreadr-1.3.0/nflreadr/R/utils_date.R |only nflreadr-1.3.0/nflreadr/R/utils_download_nflverse.R |only nflreadr-1.3.0/nflreadr/R/utils_name_cleaning.R |only nflreadr-1.3.0/nflreadr/R/utils_sitrep.R |only nflreadr-1.3.0/nflreadr/R/zzz.R | 44 nflreadr-1.3.0/nflreadr/README.md | 58 nflreadr-1.3.0/nflreadr/build/vignette.rds |binary nflreadr-1.3.0/nflreadr/data/dictionary_contracts.rda |only nflreadr-1.3.0/nflreadr/data/dictionary_depth_charts.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_draft_picks.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_ff_opportunity.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_pbp.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_schedules.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_snap_counts.rda |binary nflreadr-1.3.0/nflreadr/data/dictionary_trades.rda |binary nflreadr-1.3.0/nflreadr/inst/doc/dictionary_combine.html | 200 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_contracts.R |only nflreadr-1.3.0/nflreadr/inst/doc/dictionary_contracts.Rmd |only nflreadr-1.3.0/nflreadr/inst/doc/dictionary_contracts.html |only nflreadr-1.3.0/nflreadr/inst/doc/dictionary_depth_charts.html | 214 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_draft_picks.html | 373 + nflreadr-1.3.0/nflreadr/inst/doc/dictionary_espn_qbr.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_ff_opportunity.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_ff_playerids.html | 264 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_ff_rankings.html | 233 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_injuries.html | 206 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_nextgen_stats.html | 274 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_pbp.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_pfr_passing.html | 197 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_player_stats.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_rosters.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_schedules.html | 3248 +++++++++- nflreadr-1.3.0/nflreadr/inst/doc/dictionary_snap_counts.html | 241 nflreadr-1.3.0/nflreadr/inst/doc/dictionary_trades.html | 203 nflreadr-1.3.0/nflreadr/inst/doc/exporting_nflreadr.html | 215 nflreadr-1.3.0/nflreadr/man/clean_homeaway.Rd | 2 nflreadr-1.3.0/nflreadr/man/clean_player_names.Rd | 2 nflreadr-1.3.0/nflreadr/man/clean_team_abbrs.Rd | 2 nflreadr-1.3.0/nflreadr/man/csv_from_url.Rd | 4 nflreadr-1.3.0/nflreadr/man/dictionary_contracts.Rd |only nflreadr-1.3.0/nflreadr/man/dictionary_draft_picks.Rd | 2 nflreadr-1.3.0/nflreadr/man/dictionary_ff_opportunity.Rd | 2 nflreadr-1.3.0/nflreadr/man/dictionary_pbp.Rd | 2 nflreadr-1.3.0/nflreadr/man/dictionary_schedules.Rd | 2 nflreadr-1.3.0/nflreadr/man/dictionary_snap_counts.Rd | 2 nflreadr-1.3.0/nflreadr/man/dot-clear_cache.Rd | 2 nflreadr-1.3.0/nflreadr/man/get_current_week.Rd |only nflreadr-1.3.0/nflreadr/man/latest_season.Rd |only nflreadr-1.3.0/nflreadr/man/load_combine.Rd | 12 nflreadr-1.3.0/nflreadr/man/load_contracts.Rd |only nflreadr-1.3.0/nflreadr/man/load_depth_charts.Rd | 12 nflreadr-1.3.0/nflreadr/man/load_draft_picks.Rd | 14 nflreadr-1.3.0/nflreadr/man/load_espn_qbr.Rd | 2 nflreadr-1.3.0/nflreadr/man/load_ff_opportunity.Rd | 4 nflreadr-1.3.0/nflreadr/man/load_ff_playerids.Rd | 2 nflreadr-1.3.0/nflreadr/man/load_ff_rankings.Rd | 2 nflreadr-1.3.0/nflreadr/man/load_from_url.Rd |only nflreadr-1.3.0/nflreadr/man/load_injuries.Rd | 12 nflreadr-1.3.0/nflreadr/man/load_nextgen_stats.Rd | 9 nflreadr-1.3.0/nflreadr/man/load_officials.Rd |only nflreadr-1.3.0/nflreadr/man/load_participation.Rd |only nflreadr-1.3.0/nflreadr/man/load_pbp.Rd | 8 nflreadr-1.3.0/nflreadr/man/load_pfr_advstats.Rd | 10 nflreadr-1.3.0/nflreadr/man/load_pfr_passing.Rd | 2 nflreadr-1.3.0/nflreadr/man/load_player_stats.Rd | 8 nflreadr-1.3.0/nflreadr/man/load_players.Rd |only nflreadr-1.3.0/nflreadr/man/load_rosters.Rd | 15 nflreadr-1.3.0/nflreadr/man/load_rosters_weekly.Rd |only nflreadr-1.3.0/nflreadr/man/load_schedules.Rd | 4 nflreadr-1.3.0/nflreadr/man/load_snap_counts.Rd | 12 nflreadr-1.3.0/nflreadr/man/load_teams.Rd | 4 nflreadr-1.3.0/nflreadr/man/load_trades.Rd | 2 nflreadr-1.3.0/nflreadr/man/nflreadr-package.Rd | 1 nflreadr-1.3.0/nflreadr/man/nflverse_data-class.Rd |only nflreadr-1.3.0/nflreadr/man/nflverse_download.Rd |only nflreadr-1.3.0/nflreadr/man/nflverse_releases.Rd |only nflreadr-1.3.0/nflreadr/man/parquet_from_url.Rd |only nflreadr-1.3.0/nflreadr/man/progressively.Rd | 4 nflreadr-1.3.0/nflreadr/man/qs_from_url.Rd | 8 nflreadr-1.3.0/nflreadr/man/raw_from_url.Rd | 2 nflreadr-1.3.0/nflreadr/man/rbindlist_with_attrs.Rd |only nflreadr-1.3.0/nflreadr/man/rds_from_url.Rd | 4 nflreadr-1.3.0/nflreadr/man/sitrep.Rd | 15 nflreadr-1.3.0/nflreadr/tests/testthat/test-from_url.R | 53 nflreadr-1.3.0/nflreadr/tests/testthat/test-nflverse.R | 199 nflreadr-1.3.0/nflreadr/tests/testthat/test-utils_date.R |only nflreadr-1.3.0/nflreadr/tests/testthat/test-utils_name_cleaning.R |only nflreadr-1.3.0/nflreadr/tests/testthat/test-utils_sitrep.R |only nflreadr-1.3.0/nflreadr/vignettes/dictionary_contracts.Rmd |only 123 files changed, 22688 insertions(+), 513 deletions(-)
Title: Discrete Beta Regression
Description: Bayesian Beta Regression, adapted for bounded discrete responses, commonly seen in survey responses.
Estimation is done via Markov Chain Monte Carlo sampling, using a Gibbs wrapper around univariate slice sampler
(Neal (2003) <DOI:10.1214/aos/1056562461>), as implemented in the R package MfUSampler
(Mahani and Sharabiani (2017) <DOI: 10.18637/jss.v078.c01>).
Author: Alireza Mahani [cre, aut],
Mansour Sharabiani [aut],
Alex Bottle [aut],
Cathy Price [aut]
Maintainer: Alireza Mahani <alireza.s.mahani@gmail.com>
Diff between DBR versions 1.3.0 dated 2022-07-18 and 1.4.0 dated 2022-08-06
DBR-1.3.0/DBR/vignettes/coef_dbr_long.pdf |only DBR-1.3.0/DBR/vignettes/coef_dbr_long.rds |only DBR-1.3.0/DBR/vignettes/est_dbr_long.rds |only DBR-1.3.0/DBR/vignettes/est_dbr_short.rds |only DBR-1.3.0/DBR/vignettes/hist_interference.pdf |only DBR-1.3.0/DBR/vignettes/pred_dbr_point_hist.pdf |only DBR-1.3.0/DBR/vignettes/pred_point.rds |only DBR-1.3.0/DBR/vignettes/pred_sample.rds |only DBR-1.3.0/DBR/vignettes/summary_dbr_long.pdf |only DBR-1.3.0/DBR/vignettes/summary_dbr_long.txt |only DBR-1.3.0/DBR/vignettes/summary_dbr_short.pdf |only DBR-1.3.0/DBR/vignettes/summary_dbr_short.txt |only DBR-1.4.0/DBR/ChangeLog | 5 DBR-1.4.0/DBR/DESCRIPTION | 14 - DBR-1.4.0/DBR/MD5 | 41 ++-- DBR-1.4.0/DBR/NAMESPACE | 1 DBR-1.4.0/DBR/R/aaa.R | 2 DBR-1.4.0/DBR/R/dbr.R | 23 +- DBR-1.4.0/DBR/R/dbr2.R |only DBR-1.4.0/DBR/build/vignette.rds |binary DBR-1.4.0/DBR/inst/doc/DBR.R | 129 ++++++--------- DBR-1.4.0/DBR/inst/doc/DBR.Rnw | 198 ++++++++++++------------ DBR-1.4.0/DBR/inst/doc/DBR.pdf |binary DBR-1.4.0/DBR/man/summary_dbr.Rd | 27 +-- DBR-1.4.0/DBR/vignettes/DBR.Rnw | 198 ++++++++++++------------ DBR-1.4.0/DBR/vignettes/DBR.bib | 21 ++ DBR-1.4.0/DBR/vignettes/est_2.rds |only DBR-1.4.0/DBR/vignettes/plot_1.pdf |only DBR-1.4.0/DBR/vignettes/plot_2.pdf |only DBR-1.4.0/DBR/vignettes/summary_est_2.pdf |only 30 files changed, 344 insertions(+), 315 deletions(-)
Title: Tipping Point Analyses
Description: The strength of evidence provided by epidemiological and observational
studies is inherently limited by the potential for unmeasured confounding.
We focus on three key quantities: the observed bound of the confidence interval
closest to the null, a plausible residual effect size for an unmeasured continuous
or binary confounder, and a realistic mean difference or prevalence difference for
this hypothetical confounder. Building on the methods put forth by
Lin, Psaty, & Kronmal (1998) <doi:10.2307/2533848>, we can use these quantities to
assess how an unmeasured confounder may tip our result to insignificance, rendering the
study inconclusive.
Author: Lucy D'Agostino McGowan [aut, cre]
Maintainer: Lucy D'Agostino McGowan <lucydagostino@gmail.com>
Diff between tipr versions 0.4.1 dated 2022-05-05 and 1.0.0 dated 2022-08-06
DESCRIPTION | 18 + LICENSE | 2 MD5 | 76 +++-- NAMESPACE | 1 NEWS.md | 18 + R/adjust_coef_with_r2.R | 43 +-- R/adjust_coefficient.R | 525 +++++++++++++++++++++++------------------ R/e_value.R | 10 R/exdata_continuous.R |only R/exdata_rr.R |only R/r_value.R | 10 R/tip-helpers.R | 373 +++++++++++++++-------------- R/tip.R | 184 +++++++------- R/tip_coef.R | 123 ++++----- R/tip_coef_with_r2.R | 54 ++-- R/tip_with_binary.R | 224 ++++++++--------- README.md | 249 ++++++++++++++----- data |only man/adjust_coef.Rd | 20 + man/adjust_coef_with_binary.Rd | 8 man/adjust_coef_with_r2.Rd | 14 - man/adjust_hr.Rd | 18 - man/adjust_hr_with_binary.Rd | 8 man/adjust_or.Rd | 18 - man/adjust_or_with_binary.Rd | 12 man/adjust_rr.Rd | 20 + man/adjust_rr_with_binary.Rd | 8 man/e_value.Rd | 4 man/exdata_continuous.Rd |only man/exdata_rr.Rd |only man/r_value.Rd | 8 man/tip.Rd | 36 +- man/tip_coef.Rd | 45 +-- man/tip_coef_with_r2.Rd | 20 - man/tip_hr.Rd | 28 +- man/tip_hr_with_binary.Rd | 22 - man/tip_or.Rd | 30 +- man/tip_or_with_binary.Rd | 22 - man/tip_rr.Rd | 33 +- man/tip_rr_with_binary.Rd | 22 - man/tip_with_binary.Rd | 42 +-- 41 files changed, 1304 insertions(+), 1044 deletions(-)
Title: Evaluation Metrics for Implicit-Feedback Recommender Systems
Description: Calculates evaluation metrics for implicit-feedback recommender systems
that are based on low-rank matrix factorization models, given the fitted model
matrices and data, thus allowing to compare models from a variety of libraries.
Metrics include P@K (precision-at-k, for top-K recommendations), R@K (recall at k),
AP@K (average precision at k), NDCG@K (normalized discounted cumulative gain at k),
Hit@K (from which the 'Hit Rate' is calculated), RR@K (reciprocal rank at k, from
which the 'MRR' or 'mean reciprocal rank' is calculated), ROC-AUC (area under the
receiver-operating characteristic curve), and PR-AUC (area under the
precision-recall curve).
These are calculated on a per-user basis according to the ranking of items induced
by the model, using efficient multi-threaded routines. Also provides functions
for creating train-test splits for model fitting and evaluation.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between recometrics versions 0.1.6 dated 2022-01-20 and 0.1.6-1 dated 2022-08-06
DESCRIPTION | 6 MD5 | 13 build/vignette.rds |binary inst/doc/Evaluating_recommender_systems.html | 577 ++++++++++++++------------- src/Makevars.in | 2 src/Makevars.win | 2 src/Rwrapper.cpp | 1 src/recometrics_signatures.h |only 8 files changed, 316 insertions(+), 285 deletions(-)
Title: Read and Write Sparse Matrices in 'SVMLight' and 'LibSVM'
Formats
Description: Read and write labelled sparse matrices in text format as used by
software such as 'SVMLight', 'LibSVM', 'ThunderSVM', 'LibFM', 'xLearn', 'XGBoost', 'LightGBM',
and others. Supports labelled data for regression, classification (binary, multi-class, multi-label),
and ranking (with 'qid' field), and can handle header metadata and comments in files.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between readsparse versions 0.1.5-1 dated 2021-10-14 and 0.1.5-2 dated 2022-08-06
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- src/Makevars.in | 2 +- src/Makevars.win | 2 +- src/Rwrapper.cpp | 1 - 5 files changed, 9 insertions(+), 10 deletions(-)
Title: Explainable Outlier Detection Through Decision Tree Conditioning
Description: Outlier detection method that flags suspicious values within observations,
constrasting them against the normal values in a user-readable format, potentially
describing conditions within the data that make a given outlier more rare.
Full procedure is described in Cortes (2020) <arXiv:2001.00636>.
Loosely based on the 'GritBot' <https://www.rulequest.com/gritbot-info.html> software.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between outliertree versions 1.8.1 dated 2022-02-17 and 1.8.1-1 dated 2022-08-06
DESCRIPTION | 8 MD5 | 20 build/vignette.rds |binary inst/doc/Explainable_Outlier_Detection_in_Titanic_dataset.R | 58 inst/doc/Explainable_Outlier_Detection_in_Titanic_dataset.Rmd | 70 inst/doc/Explainable_Outlier_Detection_in_Titanic_dataset.html | 1774 +++++++++- inst/doc/Introducing_OutlierTree.html | 572 ++- src/Makevars.in | 2 src/Makevars.win | 2 src/Rwrapper.cpp | 1 vignettes/Explainable_Outlier_Detection_in_Titanic_dataset.Rmd | 70 11 files changed, 2167 insertions(+), 410 deletions(-)
Title: Extra Methods for Sparse Matrices
Description: Extends sparse matrix and vector classes from the 'Matrix' package by providing:
(a) Methods and operators that work natively on CSR formats (compressed sparse row,
a.k.a. 'RsparseMatrix') such as slicing/sub-setting, assignment, rbind(),
mathematical operators for CSR and COO such as addition ("+") or sqrt(), and methods such as diag();
(b) Multi-threaded matrix multiplication and cross-product for many <sparse, dense> types,
including the 'float32' type from 'float';
(c) Coercion methods between pairs of classes which are not present in 'Matrix',
such as 'dgCMatrix' -> 'ngRMatrix', as well as convenience conversion functions;
(d) Utility functions for sparse matrices such as sorting the indices or removing
zero-valued entries;
(e) Fast transposes that work by outputting in the opposite storage format;
(f) Faster replacements for many 'Matrix' methods for all sparse types, such as
slicing and elementwise multiplication.
(g) Convenience functions for sparse objects, such as 'mapSparse' or a shorter 'show' method.
Author: David Cortes [aut, cre, cph],
Dmitry Selivanov [cph],
Thibaut Goetghebuer-Planchon [cph] ,
Martin Maechler [cph] ,
Robert Gentleman [cph] ,
Ross Ihaka [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between MatrixExtra versions 0.1.10 dated 2022-05-15 and 0.1.11 dated 2022-08-06
MatrixExtra-0.1.10/MatrixExtra/inst/doc/Introducing_MatrixExtra.R |only MatrixExtra-0.1.10/MatrixExtra/inst/doc/Introducing_MatrixExtra.Rmd |only MatrixExtra-0.1.11/MatrixExtra/DESCRIPTION | 9 - MatrixExtra-0.1.11/MatrixExtra/MD5 | 26 +-- MatrixExtra-0.1.11/MatrixExtra/build/vignette.rds |binary MatrixExtra-0.1.11/MatrixExtra/configure | 22 +-- MatrixExtra-0.1.11/MatrixExtra/configure.ac | 5 MatrixExtra-0.1.11/MatrixExtra/inst/doc/Introducing_MatrixExtra.html | 73 ++++++++-- MatrixExtra-0.1.11/MatrixExtra/src/Makevars.in | 4 MatrixExtra-0.1.11/MatrixExtra/src/Makevars.win.in | 5 MatrixExtra-0.1.11/MatrixExtra/src/MatrixExtra.h | 1 MatrixExtra-0.1.11/MatrixExtra/src/matmul.cpp | 31 ++++ MatrixExtra-0.1.11/MatrixExtra/src/operators.cpp | 3 MatrixExtra-0.1.11/MatrixExtra/src/robinmap/include/tsl/robin_hash.h | 21 ++ MatrixExtra-0.1.11/MatrixExtra/vignettes/Introducing_MatrixExtra.R |only MatrixExtra-0.1.11/MatrixExtra/vignettes/Introducing_MatrixExtra.html |only 16 files changed, 146 insertions(+), 54 deletions(-)
Title: Isolation-Based Outlier Detection
Description: Fast and multi-threaded implementation of
isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>),
extended isolation forest (Hariri, Kind, Brunner (2018) <arXiv:1811.02141>),
SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>),
fair-cut forest (Cortes (2021) <arXiv:2110:13402>),
robust random-cut forest (Guha, Mishra, Roy, Schrijvers (2016) <http://proceedings.mlr.press/v48/guha16.html>),
and customizable variations of them, for isolation-based outlier detection, clustered outlier detection,
distance or similarity approximation (Cortes (2019) <arXiv:1910.12362>),
isolation kernel calculation (Ting, Zhu, Zhou (2018) <doi:10.1145/3219819.3219990>),
and imputation of missing values (Cortes (2019) <arXiv:1911.06646>),
based on random or guided decision tree splitting, and providing different metrics for
scoring anomalies based on isolation depth or density (Cortes (2021) <arXiv:2111.11639>).
Provides simple heuristics for fitting the model to categorical columns and handling missing data,
and offers options for varying between random and guided splits, and for using different splitting criteria.
Author: David Cortes [aut, cre, cph],
Thibaut Goetghebuer-Planchon [cph] ,
David Blackman [cph] ,
Sebastiano Vigna [cph] ,
NumPy Developers [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between isotree versions 0.5.15 dated 2022-03-31 and 0.5.16 dated 2022-08-06
DESCRIPTION | 6 MD5 | 28 build/vignette.rds |binary configure | 18 configure.ac | 2 inst/doc/An_Introduction_to_Isolation_Forests.html | 1891 ++++++++++++++++++--- src/Makevars.in | 2 src/Makevars.win | 2 src/Rwrapper.cpp | 1 src/crit.h | 1 src/isotree.h | 2 src/robinmap/include/tsl/robin_growth_policy.h | 6 src/robinmap/include/tsl/robin_hash.h | 40 src/robinmap/include/tsl/robin_map.h | 8 src/xoshiro.h | 1 15 files changed, 1768 insertions(+), 240 deletions(-)
Title: Tools for Analyzing Climate Extremes
Description: Functions for fitting GEV and POT (via point process fitting)
models for extremes in climate data, providing return values, return
probabilities, and return periods for stationary and nonstationary models.
Also provides differences in return values and differences in log return
probabilities for contrasts of covariate values. Functions for estimating risk
ratios for event attribution analyses, including uncertainty. Under the hood,
many of the functions use functions from 'extRemes', including for fitting the
statistical models. Details are given in Paciorek, Stone, and Wehner (2018)
<doi:10.1016/j.wace.2018.01.002>.
Author: Christopher Paciorek [aut, cre],
Harinarayan Krishnan [ctb]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between climextRemes versions 0.2.2 dated 2020-08-26 and 0.3.0 dated 2022-08-06
climextRemes-0.2.2/climextRemes/inst/python_wrapper/climextremes.egg-info |only climextRemes-0.2.2/climextRemes/inst/python_wrapper/dist |only climextRemes-0.2.2/climextRemes/inst/python_wrapper/test_installation.sh |only climextRemes-0.2.2/climextRemes/inst/python_wrapper/test_installation_0.2.1.sh |only climextRemes-0.3.0/climextRemes/DESCRIPTION | 10 climextRemes-0.3.0/climextRemes/MD5 | 126 - climextRemes-0.3.0/climextRemes/NEWS | 32 climextRemes-0.3.0/climextRemes/R/auxil.R | 12 climextRemes-0.3.0/climextRemes/R/climextRemes-package.R | 2 climextRemes-0.3.0/climextRemes/R/gev.R | 54 climextRemes-0.3.0/climextRemes/R/helper.R | 97 - climextRemes-0.3.0/climextRemes/R/pot.R | 49 climextRemes-0.3.0/climextRemes/R/return_calcs.R | 36 climextRemes-0.3.0/climextRemes/R/risk_ratio.R | 52 climextRemes-0.3.0/climextRemes/inst/CITATION | 2 climextRemes-0.3.0/climextRemes/inst/README.md | 6 climextRemes-0.3.0/climextRemes/inst/conda/deploy.sh | 11 climextRemes-0.3.0/climextRemes/inst/conda/noarch/meta.yaml | 8 climextRemes-0.3.0/climextRemes/inst/examples/input_usage_examples.py | 3 climextRemes-0.3.0/climextRemes/inst/python/climextRemes_wrapper.py | 876 +++++----- climextRemes-0.3.0/climextRemes/inst/python_help/calc_riskRatio_gev_args.txt | 7 climextRemes-0.3.0/climextRemes/inst/python_help/calc_riskRatio_pot_args.txt | 7 climextRemes-0.3.0/climextRemes/inst/python_help/fit_gev_args.txt | 7 climextRemes-0.3.0/climextRemes/inst/python_help/fit_pot_args.txt | 7 climextRemes-0.3.0/climextRemes/inst/python_wrapper/README.md | 3 climextRemes-0.3.0/climextRemes/inst/python_wrapper/build/lib/climextremes/__init__.py | 209 +- climextRemes-0.3.0/climextRemes/inst/python_wrapper/climextremes/__init__.py | 209 +- climextRemes-0.3.0/climextRemes/inst/python_wrapper/climextremes/__pycache__/__init__.cpython-38.pyc |only climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/build_sphinx_docs.sh | 4 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/climextremesDocumentation.pdf |binary climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_modules/climextRemes_wrapper.html | 274 ++- climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_modules/climextremes.html | 43 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_modules/index.html | 30 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/basic.css | 324 +++ climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/doctools.js | 91 - climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/documentation_options.js | 8 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/jquery-3.5.1.js |only climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/jquery.js | 6 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/language_data.js | 6 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/pygments.css | 7 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/searchtools.js | 129 - climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/underscore-1.13.1.js |only climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/_static/underscore.js | 37 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/genindex.html | 37 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/index.html | 344 ++- climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/objects.inv |binary climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/search.html | 58 climextRemes-0.3.0/climextRemes/inst/python_wrapper/docs/html/searchindex.js | 2 climextRemes-0.3.0/climextRemes/inst/python_wrapper/setup.py | 2 climextRemes-0.3.0/climextRemes/inst/python_wrapper/version.py | 2 climextRemes-0.3.0/climextRemes/inst/tests/test-gev-pot.R | 37 climextRemes-0.3.0/climextRemes/man/calc_logReturnPeriod_fevd.Rd | 4 climextRemes-0.3.0/climextRemes/man/calc_logReturnProbDiff_fevd.Rd | 12 climextRemes-0.3.0/climextRemes/man/calc_logReturnProb_fevd.Rd | 11 climextRemes-0.3.0/climextRemes/man/calc_returnValueDiff_fevd.Rd | 10 climextRemes-0.3.0/climextRemes/man/calc_returnValue_fevd.Rd | 1 climextRemes-0.3.0/climextRemes/man/calc_riskRatio_binom.Rd | 18 climextRemes-0.3.0/climextRemes/man/calc_riskRatio_gev.Rd | 72 climextRemes-0.3.0/climextRemes/man/calc_riskRatio_pot.Rd | 91 - climextRemes-0.3.0/climextRemes/man/climextRemes.Rd | 4 climextRemes-0.3.0/climextRemes/man/fit_gev.Rd | 63 climextRemes-0.3.0/climextRemes/man/fit_pot.Rd | 76 climextRemes-0.3.0/climextRemes/man/normalize.Rd | 1 climextRemes-0.3.0/climextRemes/man/remove_runs.Rd | 3 climextRemes-0.3.0/climextRemes/man/screen_within_block.Rd | 1 65 files changed, 2200 insertions(+), 1433 deletions(-)
Title: Easy to Configure an Isolated 'Python' Environment
Description: Aims to create a single isolated 'Miniconda'
and 'Python' environment for reproducible pipeline scripts.
The package provides utilities to run system command within the 'conda'
environment, making it easy to install, launch, manage, and stop
'Jupyter-lab'.
Author: Zhengjia Wang [cph, aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between rpymat versions 0.1.2 dated 2022-02-19 and 0.1.3 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 6 ++++++ R/aaa.R | 2 ++ R/cmd.R | 27 ++++++++++++++++----------- R/install.R | 16 +++++++++++----- R/jupyter.R | 1 + 8 files changed, 48 insertions(+), 27 deletions(-)
Title: Regression Estimation and Presentation
Description: A collection of functions for interpretation and presentation
of regression analysis. These functions are used
to produce the statistics lectures in
<https://pj.freefaculty.org/guides/>. Includes regression
diagnostics, regression tables, and plots of interactions and
"moderator" variables. The emphasis is on "mean-centered" and
"residual-centered" predictors. The vignette 'rockchalk' offers a
fairly comprehensive overview. The vignette 'Rstyle' has advice
about coding in R. The package title 'rockchalk' refers to our
school motto, 'Rock Chalk Jayhawk, Go K.U.'.
Author: Paul E. Johnson [aut, cre],
Gabor Grothendieck [ctb],
Dimitri Papadopoulos OrfanosGabor [ctb]
Maintainer: Paul E. Johnson <pauljohn@ku.edu>
Diff between rockchalk versions 1.8.152 dated 2022-05-20 and 1.8.157 dated 2022-08-06
DESCRIPTION | 16 ++- MD5 | 180 ++++++++++++++++++++--------------------- R/descriptiveTable.R | 2 R/dir.create.unique.R | 2 R/drawnorm.R | 2 R/genCorrelatedData.R | 4 R/lazyCor.R | 2 R/lazyCov.R | 2 R/makeSymmetric.R | 2 R/makeVec.R | 2 R/mcDiagnose.R | 12 +- R/mcGraph.R | 2 R/meanCenter.R | 20 ++-- R/mvrnorm.R | 2 R/outreg.R | 2 R/pctable.R | 9 +- R/plotCurves.R | 2 R/plotPlane.R | 4 R/plotSlopes.R | 6 - R/predictOMatic.R | 10 +- R/recodeFactors.R | 2 R/residualCenter.R | 2 R/summarize.R | 14 +-- R/testSlopes.R | 4 R/utils.R | 10 +- R/vech2Corr.R | 2 R/waldt.R | 2 build/vignette.rds |binary data/cheating.RData |binary data/religioncrime.RData |binary inst/doc/Rchaeology.pdf |binary inst/doc/Rstyle.Rnw | 2 inst/doc/Rstyle.pdf |binary inst/doc/outreg.pdf |binary inst/doc/rockchalk.pdf |binary man/addLines.Rd | 2 man/centerNumerics.Rd | 2 man/checkPosDef.Rd | 2 man/combineLevels.Rd | 2 man/cutByQuantile.Rd | 2 man/cutBySD.Rd | 2 man/cutByTable.Rd | 2 man/descriptiveTable.Rd | 2 man/dir.create.unique.Rd | 2 man/drawnorm.Rd | 2 man/focalVals.Rd | 2 man/formatSummarizedFactors.Rd | 2 man/genCorrelatedData3.Rd | 2 man/genX.Rd | 2 man/getAuxRsq.Rd | 2 man/getDeltaRsquare.Rd | 2 man/getFocal.Rd | 2 man/getPartialCor.Rd | 2 man/getVIF.Rd | 2 man/kurtosis.Rd | 2 man/lazyCor.Rd | 2 man/lazyCov.Rd | 2 man/lmAuxiliary.Rd | 2 man/makeSymmetric.Rd | 2 man/makeVec.Rd | 2 man/mcDiagnose.Rd | 2 man/mcGraph.Rd | 2 man/meanCenter.Rd | 2 man/model.data.Rd | 2 man/model.data.default.Rd | 2 man/newdata.Rd | 2 man/outreg.Rd | 2 man/padW0.Rd | 2 man/pctable.Rd | 3 man/plot.testSlopes.Rd | 2 man/plotCurves.Rd | 2 man/plotFancy.Rd | 2 man/plotFancyCategories.Rd | 2 man/plotPlane.Rd | 2 man/plotSlopes.Rd | 2 man/predictOMatic.Rd | 2 man/print.pctable.Rd | 2 man/print.summary.pctable.Rd | 2 man/residualCenter.Rd | 2 man/skewness.Rd | 2 man/standardize.Rd | 2 man/summarize.Rd | 2 man/summarizeFactors.Rd | 2 man/summarizeNumerics.Rd | 2 man/summary.factor.Rd | 2 man/summary.pctable.Rd | 2 man/testSlopes.Rd | 2 man/vech2Corr.Rd | 2 man/waldt.Rd | 2 vignettes/Rstyle.Rnw | 2 vignettes/Rstyle.lyx | 2 91 files changed, 219 insertions(+), 215 deletions(-)
Title: A Dipping Sauce for Data Analysis and Visualizations
Description: Works as an "add-on" to packages like 'shiny', 'future', as well as
'rlang', and provides utility functions. Just like dipping sauce adding
flavors to potato chips or pita bread, 'dipsaus' for data analysis and
visualizations adds handy functions and enhancements to popular packages.
The goal is to provide simple solutions that are frequently asked for
online, such as how to synchronize 'shiny' inputs without freezing the app,
or how to get memory size on 'Linux' or 'MacOS' system. The enhancements
roughly fall into these four categories: 1. 'shiny' input widgets; 2.
high-performance computing using 'RcppParallel' and 'future' package; 3.
modify R calls and convert among numbers, strings, and other objects. 4.
utility functions to get system information such like CPU chip-set, memory
limit, etc.
Author: Zhengjia Wang [aut, cre],
John Magnotti [ctb] ,
Xiang Zhang [ctb]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between dipsaus versions 0.2.2 dated 2022-06-18 and 0.2.3 dated 2022-08-06
DESCRIPTION | 8 +++---- MD5 | 27 +++++++++++++------------- NAMESPACE | 1 NEWS.md | 14 +++++++++++++ R/language.R | 5 +--- R/shiny-compoundInput2.R | 12 +++-------- R/strings.R | 9 +++++--- R/utils-rstudio.R | 39 +++++++++++++++++++++++++++++++++++--- build/vignette.rds |binary demo/example-actionButtonStyled.R | 4 +-- inst/doc/r_expr_addons.html | 6 ++--- inst/doc/utility_functions.html | 2 - man/cat2.Rd | 4 +-- man/rs_edit_file.Rd |only man/rs_exec.Rd | 6 ++++- 15 files changed, 94 insertions(+), 43 deletions(-)
Title: Functions to Support Extension Education Program Evaluation
Description: Functions and datasets to support "Summary and Analysis of
Extension Program Evaluation in R" and "An R
Companion for the Handbook of Biological Statistics".
Vignettes are available at <http://rcompanion.org>.
Author: Salvatore Mangiafico [aut, cre]
Maintainer: Salvatore Mangiafico <mangiafico@njaes.rutgers.edu>
Diff between rcompanion versions 2.4.16 dated 2022-07-04 and 2.4.18 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++++------ NAMESPACE | 3 +++ R/mangiaficoD.r |only R/multiMangiaficoD.r |only R/wilcoxonOneSampleR.r | 27 +++++++++++++++++++++------ R/wilcoxonPairedR.r | 21 ++++++++++++++++----- man/mangiaficoD.Rd |only man/multiMangiaficoD.Rd |only man/wilcoxonOneSampleR.Rd | 25 +++++++++++++++++++++---- man/wilcoxonPairedR.Rd | 17 ++++++++++++++--- 11 files changed, 89 insertions(+), 28 deletions(-)
Title: A Shiny Dashboard Template System
Description: A template system based on 'AdminLTE3'
(<https://adminlte.io/themes/v3/>)
theme. Comes with default theme that can be easily customized.
Developers can upload modified templates on 'Github', and users can
easily download templates with 'RStudio' project wizard.
The key features of the default template include light and dark theme
switcher, resizing graphs, synchronizing inputs across sessions,
new notification system, fancy progress bars, and card-like flip
panels with back sides, as well as various of 'HTML' tool widgets.
Author: Zhengjia Wang [cph, aut, cre] ,
ColorlibHQ [cph] ,
Bootstrap contributors [ctb] ,
Twitter, Inc [cph] ,
Ivan Sagalaev [ctb, cph] ,
Rene Haas [ctb, cph] ,
Zeno Rocha [ctb, cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between shidashi versions 0.1.2 dated 2022-06-21 and 0.1.3 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/modules.R | 2 +- R/ui-adminlte.R | 5 ++++- man/flex_container.Rd | 4 ++-- 6 files changed, 20 insertions(+), 13 deletions(-)
Title: 'Rcpp' Bindings for the 'CCTZ' Library
Description: 'Rcpp' Access to the 'CCTZ' timezone library is provided. 'CCTZ' is
a C++ library for translating between absolute and civil times using the rules
of a time zone. The 'CCTZ' source code, released under the Apache 2.0 License,
is included in this package. See <https://github.com/google/cctz> for more
details.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppCCTZ versions 0.2.10 dated 2021-12-14 and 0.2.11 dated 2022-08-06
ChangeLog | 28 ++ DESCRIPTION | 8 MD5 | 38 +-- inst/NEWS.Rd | 10 inst/include/RcppCCTZ_API.h | 4 inst/include/cctz/civil_time.h | 2 inst/include/cctz/civil_time_detail.h | 74 +++--- inst/include/cctz/time_zone.h | 117 ++++++++-- src/time_tool.cc | 49 ++-- src/time_zone_fixed.cc | 30 +- src/time_zone_format.cc | 172 ++++++++++++--- src/time_zone_if.h | 3 src/time_zone_impl.cc | 58 ++--- src/time_zone_info.cc | 372 ++++++++++++++++++++-------------- src/time_zone_info.h | 9 src/time_zone_libc.cc | 14 + src/time_zone_lookup.cc | 49 ++++ src/time_zone_posix.cc | 10 src/tzfile.h | 2 src/zone_info_source.cc | 9 20 files changed, 708 insertions(+), 350 deletions(-)
Title: Marginal Effects, Marginal Means, Predictions, and Contrasts
Description: Compute and plot adjusted predictions, contrasts, marginal effects, and marginal means for over 65 classes of statistical models in R. Conduct linear and non-linear hypothesis tests using the delta method.
Author: Vincent Arel-Bundock [aut, cre, cph]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between marginaleffects versions 0.6.0 dated 2022-06-20 and 0.7.0 dated 2022-08-06
marginaleffects-0.6.0/marginaleffects/R/get_contrasts_character.R |only marginaleffects-0.6.0/marginaleffects/R/get_contrasts_data.R |only marginaleffects-0.6.0/marginaleffects/R/get_contrasts_factor.R |only marginaleffects-0.6.0/marginaleffects/R/get_contrasts_logical.R |only marginaleffects-0.6.0/marginaleffects/R/get_contrasts_numeric.R |only marginaleffects-0.6.0/marginaleffects/R/sanitize_eps.R |only marginaleffects-0.7.0/marginaleffects/DESCRIPTION | 75 +- marginaleffects-0.7.0/marginaleffects/MD5 | 291 ++++++-- marginaleffects-0.7.0/marginaleffects/NAMESPACE | 3 marginaleffects-0.7.0/marginaleffects/NEWS.md | 34 + marginaleffects-0.7.0/marginaleffects/R/attributes.R |only marginaleffects-0.7.0/marginaleffects/R/comparisons.R | 240 +++---- marginaleffects-0.7.0/marginaleffects/R/complete_levels.R | 14 marginaleffects-0.7.0/marginaleffects/R/datagrid.R | 192 +++-- marginaleffects-0.7.0/marginaleffects/R/deltamethod.R | 1 marginaleffects-0.7.0/marginaleffects/R/find_variable_class.R | 13 marginaleffects-0.7.0/marginaleffects/R/get_ci.R | 20 marginaleffects-0.7.0/marginaleffects/R/get_contrast_data.R |only marginaleffects-0.7.0/marginaleffects/R/get_contrast_data_character.R |only marginaleffects-0.7.0/marginaleffects/R/get_contrast_data_factor.R |only marginaleffects-0.7.0/marginaleffects/R/get_contrast_data_logical.R |only marginaleffects-0.7.0/marginaleffects/R/get_contrast_data_numeric.R |only marginaleffects-0.7.0/marginaleffects/R/get_contrasts.R | 324 ++++++---- marginaleffects-0.7.0/marginaleffects/R/get_hypothesis.R | 22 marginaleffects-0.7.0/marginaleffects/R/get_predict.R | 19 marginaleffects-0.7.0/marginaleffects/R/get_se_delta.R | 12 marginaleffects-0.7.0/marginaleffects/R/get_vcov.R | 13 marginaleffects-0.7.0/marginaleffects/R/github_issue.R |only marginaleffects-0.7.0/marginaleffects/R/hush.R |only marginaleffects-0.7.0/marginaleffects/R/marginaleffects.R | 95 -- marginaleffects-0.7.0/marginaleffects/R/marginalmeans.R | 16 marginaleffects-0.7.0/marginaleffects/R/methods_biglm.R |only marginaleffects-0.7.0/marginaleffects/R/methods_ordinal.R | 5 marginaleffects-0.7.0/marginaleffects/R/methods_sampleSelection.R | 4 marginaleffects-0.7.0/marginaleffects/R/package.R | 14 marginaleffects-0.7.0/marginaleffects/R/plot_cap.R | 6 marginaleffects-0.7.0/marginaleffects/R/plot_cco.R | 6 marginaleffects-0.7.0/marginaleffects/R/plot_cme.R | 14 marginaleffects-0.7.0/marginaleffects/R/posteriordraws.R | 9 marginaleffects-0.7.0/marginaleffects/R/predictions.R | 249 +++++-- marginaleffects-0.7.0/marginaleffects/R/sanitize_interaction.R | 7 marginaleffects-0.7.0/marginaleffects/R/sanitize_newdata.R | 73 +- marginaleffects-0.7.0/marginaleffects/R/sanitize_transform_pre.R | 109 +-- marginaleffects-0.7.0/marginaleffects/R/sanitize_type.R | 11 marginaleffects-0.7.0/marginaleffects/R/sanitize_variables.R | 241 ++++--- marginaleffects-0.7.0/marginaleffects/R/sanity.R | 4 marginaleffects-0.7.0/marginaleffects/R/sanity_dots.R | 2 marginaleffects-0.7.0/marginaleffects/R/sanity_model.R | 3 marginaleffects-0.7.0/marginaleffects/R/summary.R | 34 - marginaleffects-0.7.0/marginaleffects/R/tidy.R | 127 ++- marginaleffects-0.7.0/marginaleffects/R/type_dictionary.R | 4 marginaleffects-0.7.0/marginaleffects/README.md | 170 +++-- marginaleffects-0.7.0/marginaleffects/build/vignette.rds |binary marginaleffects-0.7.0/marginaleffects/inst/WORDLIST | 17 marginaleffects-0.7.0/marginaleffects/inst/doc/documentation.html | 2 marginaleffects-0.7.0/marginaleffects/inst/doc/elasticity.R |only marginaleffects-0.7.0/marginaleffects/inst/doc/elasticity.Rmd |only marginaleffects-0.7.0/marginaleffects/inst/doc/elasticity.html |only marginaleffects-0.7.0/marginaleffects/inst/tinytest |only marginaleffects-0.7.0/marginaleffects/man/comparisons.Rd | 74 +- marginaleffects-0.7.0/marginaleffects/man/complete_levels.Rd | 2 marginaleffects-0.7.0/marginaleffects/man/counterfactual.Rd | 13 marginaleffects-0.7.0/marginaleffects/man/datagrid.Rd | 13 marginaleffects-0.7.0/marginaleffects/man/datagridcf.Rd |only marginaleffects-0.7.0/marginaleffects/man/deltamethod.Rd | 1 marginaleffects-0.7.0/marginaleffects/man/get_predict.Rd | 17 marginaleffects-0.7.0/marginaleffects/man/get_vcov.Rd | 6 marginaleffects-0.7.0/marginaleffects/man/hush.Rd |only marginaleffects-0.7.0/marginaleffects/man/marginaleffects.Rd | 23 marginaleffects-0.7.0/marginaleffects/man/marginalmeans.Rd | 5 marginaleffects-0.7.0/marginaleffects/man/meffects.Rd | 23 marginaleffects-0.7.0/marginaleffects/man/plot_cap.Rd | 5 marginaleffects-0.7.0/marginaleffects/man/plot_cco.Rd | 21 marginaleffects-0.7.0/marginaleffects/man/plot_cme.Rd | 4 marginaleffects-0.7.0/marginaleffects/man/predictions.Rd | 53 + marginaleffects-0.7.0/marginaleffects/man/sanity_model_specific.Rd | 3 marginaleffects-0.7.0/marginaleffects/man/summary.comparisons.Rd | 7 marginaleffects-0.7.0/marginaleffects/man/summary.marginaleffects.Rd | 7 marginaleffects-0.7.0/marginaleffects/man/tidy.comparisons.Rd | 4 marginaleffects-0.7.0/marginaleffects/man/tidy.marginaleffects.Rd | 7 marginaleffects-0.7.0/marginaleffects/man/tidy.predictions.Rd | 4 marginaleffects-0.7.0/marginaleffects/man/typical.Rd | 9 marginaleffects-0.7.0/marginaleffects/tests/tinytest.R | 6 marginaleffects-0.7.0/marginaleffects/vignettes/elasticity.Rmd |only marginaleffects-0.7.0/marginaleffects/vignettes/modelsummary.html |only marginaleffects-0.7.0/marginaleffects/vignettes/predictions.html |only 86 files changed, 1785 insertions(+), 1017 deletions(-)
More information about marginaleffects at CRAN
Permanent link
Title: Directional Highest Density Regions
Description: We provide an R tool for computation and nonparametric plug-in estimation of Highest Density Regions (HDRs) and general level sets in the directional setting. Concretely, circular and spherical HDRs can be reconstructed from a data sample following Saavedra-Nieves and Crujeiras (2021) <doi:10.1007/s11634-021-00457-4>. This library also contains two real datasets in the circular and spherical settings. The first one concerns a problem from animal orientation studies and the second one is related to earthquakes occurrences.
Author: Paula Saavedra-Nieves [aut, cre],
Rosa M Crujeiras [aut],
Andres Prieto [ctb],
Felicita Scapini [dtc]
Maintainer: Paula Saavedra-Nieves <paula.saavedra@usc.es>
Diff between HDiR versions 1.1.1 dated 2021-03-31 and 1.1.2 dated 2022-08-06
DESCRIPTION | 10 +++++----- MD5 | 44 ++++++++++++++++++++++---------------------- NAMESPACE | 10 +++++----- R/circ.boot.bw.R | 6 +++--- R/circ.boot.sample.R | 1 + R/circ.hdr.R | 6 +++--- R/circ.plugin.hdr.R | 8 ++++---- R/circ.scatterplot.R | 2 +- R/sphere.hdr.R | 4 ++-- R/sphere.plugin.hdr.R | 20 ++++++++++---------- R/sphere.scatterplot.R | 4 ++-- man/circ.boot.bw.Rd | 12 +++++++----- man/circ.distances.Rd | 4 ++-- man/circ.hdr.Rd | 37 +++++++++++++++++++++++++------------ man/circ.plugin.hdr.Rd | 28 ++++++++++++++-------------- man/circ.scatterplot.Rd | 15 ++++++++------- man/dspheremix.Rd | 6 +++--- man/rspheremix.Rd | 6 +++--- man/sphere.boot.bw.Rd | 11 ++++++----- man/sphere.distances.Rd | 5 +++-- man/sphere.hdr.Rd | 40 +++++++++++++++++++++++++--------------- man/sphere.plugin.hdr.Rd | 14 ++++++++------ man/sphere.scatterplot.Rd | 10 ++++++---- 23 files changed, 168 insertions(+), 135 deletions(-)
Title: File-Backed Array for Out-of-Memory Computation
Description: Stores large arrays in files to avoid occupying large
memories. Implemented with super fast gigabyte-level multi-threaded
reading/writing via 'OpenMP'. Supports multiple non-character data
types (double, float, complex, integer, logical, and raw).
Author: Zhengjia Wang [aut, cre, cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between filearray versions 0.1.3 dated 2022-01-27 and 0.1.4 dated 2022-08-06
DESCRIPTION | 10 - MD5 | 24 ++-- NAMESPACE | 1 NEWS.md | 7 + R/class_filearray.R | 7 - R/load.R | 129 +++++++++++++++++++++++ R/methods.R | 7 - build/vignette.rds |binary inst/doc/performance.html | 248 +++++++++++++++++++++++++++++++++++++++++++--- man/S3-filearray.Rd | 32 +++-- man/filearray.Rd | 41 +++++++ src/core.cpp | 1 src/save.cpp | 123 +++++++++++++++------- 13 files changed, 541 insertions(+), 89 deletions(-)
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Analyze and model heteroskedastic behavior in financial time series.
Author: Diethelm Wuertz [aut] ,
Yohan Chalabi [aut],
Tobias Setz [aut],
Martin Maechler [aut] ,
Chris Boudt [ctb],
Pierre Chausse [ctb],
Michal Miklovac [ctb],
Georgi N. Boshnakov [cre, ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between fGarch versions 4021.86 dated 2022-07-16 and 4021.87 dated 2022-08-06
fGarch-4021.86/fGarch/data/dem2gbp.csv.gz |only fGarch-4021.86/fGarch/data/sp500dge.csv.gz |only fGarch-4021.87/fGarch/DESCRIPTION | 40 ++-- fGarch-4021.87/fGarch/MD5 | 35 +-- fGarch-4021.87/fGarch/R/dist-sged.R | 63 ++++++ fGarch-4021.87/fGarch/R/dist-snorm.R | 115 +++++++++++ fGarch-4021.87/fGarch/R/dist-sstd.R | 70 ++++++- fGarch-4021.87/fGarch/data/dem2gbp.csv |only fGarch-4021.87/fGarch/data/sp500dge.csv |only fGarch-4021.87/fGarch/inst/NEWS.Rd | 53 +++++ fGarch-4021.87/fGarch/inst/unitTests/runit.bugfix_6061.R |only fGarch-4021.87/fGarch/inst/unitTests/runit.sged.R | 4 fGarch-4021.87/fGarch/man/data.Rd | 35 +++ fGarch-4021.87/fGarch/man/dist-gedSlider.Rd | 2 fGarch-4021.87/fGarch/man/garchSim.Rd | 146 +++++++-------- fGarch-4021.87/fGarch/man/garchSpec.Rd | 128 ++++++++----- fGarch-4021.87/fGarch/man/methods-fitted.Rd | 2 fGarch-4021.87/fGarch/man/methods-formula.Rd | 2 fGarch-4021.87/fGarch/man/methods-predict.Rd | 2 fGarch-4021.87/fGarch/man/methods-residuals.Rd | 2 fGarch-4021.87/fGarch/man/methods-volatility.Rd | 2 21 files changed, 531 insertions(+), 170 deletions(-)
Title: Rmetrics - Modelling Extreme Events in Finance
Description: Provides functions for analysing
and modelling extreme events in financial time Series. The
topics include: (i) data pre-processing, (ii) explorative
data analysis, (iii) peak over threshold modelling, (iv) block
maxima modelling, (v) estimation of VaR and CVaR, and (vi) the
computation of the extreme index.
Author: Diethelm Wuertz [aut],
Tobias Setz [aut],
Yohan Chalabi [aut],
Paul J. Northrop [cre, ctb]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between fExtremes versions 3042.82 dated 2017-11-17 and 4021.83 dated 2022-08-06
DESCRIPTION | 30 + MD5 | 42 +- NEWS.md |only R/DataPreprocessing.R | 4 R/ExtremeIndex.R | 12 R/ExtremesData.R | 4 R/GpdRisk.R | 4 README.md |only inst/unitTests/runit.ExtremeIndex.R | 2 inst/unitTests/runit.ExtremesData.R | 4 man/00Extremes-package.Rd | 592 ++++++++++++++++++------------------ man/DataPreprocessing.Rd | 401 ++++++++++++------------ man/ExtremeIndex.Rd | 9 man/ExtremesData.Rd | 13 man/GevDistribution.Rd | 2 man/GevMdaEstimation.Rd | 3 man/GevModelling.Rd | 10 man/GevRisk.Rd | 1 man/GpdModelling.Rd | 8 man/GpdRisk.Rd | 9 man/ValueAtRisk.Rd | 2 man/data.Rd | 17 - tests/doRUnit.R | 7 23 files changed, 606 insertions(+), 570 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt [cre, aut]
Maintainer: Roeland Kindt <RoelandCEKindt@gmail.com>
Diff between BiodiversityR versions 2.14-2.1 dated 2022-07-04 and 2.14-3 dated 2022-08-06
BiodiversityR-2.14-2.1/BiodiversityR/R/residualssurface.R |only BiodiversityR-2.14-2.1/BiodiversityR/data/BCI.env.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/CucurbitaClim.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/faramea.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/ifri.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/transfgradient.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/transfspecies.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/warcom.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/data/warenv.txt.gz |only BiodiversityR-2.14-2.1/BiodiversityR/man/residualssurface.Rd |only BiodiversityR-2.14-3/BiodiversityR/DESCRIPTION | 26 - BiodiversityR-2.14-3/BiodiversityR/MD5 | 60 ++-- BiodiversityR-2.14-3/BiodiversityR/NAMESPACE | 2 BiodiversityR-2.14-3/BiodiversityR/R/CAPdiscrim.R | 4 BiodiversityR-2.14-3/BiodiversityR/R/diversitycomp.R | 4 BiodiversityR-2.14-3/BiodiversityR/R/diversityresult.R | 6 BiodiversityR-2.14-3/BiodiversityR/R/diversityvariables.R | 2 BiodiversityR-2.14-3/BiodiversityR/R/ensemble.evaluate.R | 11 BiodiversityR-2.14-3/BiodiversityR/R/nested.anova.dbrda.R | 112 ------- BiodiversityR-2.14-3/BiodiversityR/R/nested.npmanova.R | 61 ++-- BiodiversityR-2.14-3/BiodiversityR/build/partial.rdb |binary BiodiversityR-2.14-3/BiodiversityR/data/BCI.env.txt |only BiodiversityR-2.14-3/BiodiversityR/data/CucurbitaClim.txt |only BiodiversityR-2.14-3/BiodiversityR/data/faramea.txt |only BiodiversityR-2.14-3/BiodiversityR/data/ifri.txt |only BiodiversityR-2.14-3/BiodiversityR/data/transfgradient.txt |only BiodiversityR-2.14-3/BiodiversityR/data/transfspecies.txt |only BiodiversityR-2.14-3/BiodiversityR/data/warcom.txt |only BiodiversityR-2.14-3/BiodiversityR/data/warenv.txt |only BiodiversityR-2.14-3/BiodiversityR/inst/ChangeLog | 27 + BiodiversityR-2.14-3/BiodiversityR/inst/etc/BiodiversityGUI.R | 144 +++++----- BiodiversityR-2.14-3/BiodiversityR/man/CAPdiscrim.Rd | 14 BiodiversityR-2.14-3/BiodiversityR/man/NMSrandom.Rd | 4 BiodiversityR-2.14-3/BiodiversityR/man/add.spec.scores.Rd | 4 BiodiversityR-2.14-3/BiodiversityR/man/dist.zeroes.Rd | 12 BiodiversityR-2.14-3/BiodiversityR/man/distdisplayed.Rd | 9 BiodiversityR-2.14-3/BiodiversityR/man/disttransform.Rd | 4 BiodiversityR-2.14-3/BiodiversityR/man/diversityresult.Rd | 10 BiodiversityR-2.14-3/BiodiversityR/man/ensemble.blockCV.Rd | 2 BiodiversityR-2.14-3/BiodiversityR/man/nested.anova.dbrda.Rd | 9 40 files changed, 250 insertions(+), 277 deletions(-)
Title: Explore 'Wikidata' Through Tidy Data Frames
Description: Query 'Wikidata' API <https://www.wikidata.org/wiki/Wikidata:Main_Page> with ease, get tidy data frames in response, and cache data in a local 'SQLite' database.
Author: Giorgio Comai [aut, cre, cph] ,
EDJNet [fnd]
Maintainer: Giorgio Comai <giorgio.comai@cci.tn.it>
Diff between tidywikidatar versions 0.5.3 dated 2022-06-07 and 0.5.4 dated 2022-08-06
DESCRIPTION | 8 MD5 | 54 +- NEWS.md | 8 R/tw_caching.R | 2 R/tw_get_image.R | 10 R/tw_get_wikipedia_category_members.R | 10 R/tw_get_wikipedia_page_links.R | 116 ++++- R/tw_get_wikipedia_page_qid.R | 76 +-- R/tw_get_wikipedia_page_section_links.R | 4 R/tw_get_wikipedia_page_sections.R | 10 R/tw_label.R | 11 R/utils-tidy-eval.R | 4 data/tw_empty_wikipedia_page_links.rda |binary man/tidyeval.Rd | 5 man/tw_get_image_metadata.Rd | 4 man/tw_get_image_metadata_single.Rd | 4 man/tw_get_wikipedia_category_members.Rd | 4 man/tw_get_wikipedia_category_members_single.Rd | 4 man/tw_get_wikipedia_page_links.Rd | 4 man/tw_get_wikipedia_page_links_single.Rd | 4 man/tw_get_wikipedia_page_qid.Rd | 4 man/tw_get_wikipedia_page_qid_single.Rd | 4 man/tw_get_wikipedia_page_section_links.Rd | 4 man/tw_get_wikipedia_page_sections.Rd | 4 man/tw_get_wikipedia_page_sections_single.Rd | 4 man/tw_label.Rd | 11 tests/testthat/test-get_properties.R | 357 ++++++++-------- tests/testthat/test-tw_get_wikipedia_category_members.R | 2 28 files changed, 420 insertions(+), 312 deletions(-)
Title: Common Fragmentation and Connectivity Indices for Riverscapes
Description: Indices for assessing riverscape fragmentation, including the Dendritic Connectivity Index, the Population Connectivity Index, the River Fragmentation Index, the Probability of Connectivity, and the Integral Index of connectivity. For a review, see Jumani et al. (2020) <doi:10.1088/1748-9326/abcb37> and Baldan et al. (2022) <doi:10.1016/j.envsoft.2022.105470> Functions to calculate temporal indices improvement when fragmentation due to barriers is reduced are also included.
Author: Damiano Baldan [aut, cre] ,
David Cunillera-Montcusi [ctb]
,
Andrea Funk [ctb]
Maintainer: Damiano Baldan <damiano.baldan91@gmail.com>
Diff between riverconn versions 0.3.18 dated 2022-07-05 and 0.3.22 dated 2022-08-06
DESCRIPTION | 8 +- MD5 | 28 ++++---- R/B_ij_fun.R | 2 R/c_ij_fun.R | 2 R/d_index_calculation.R | 6 - R/index_calculation.R | 6 - R/set_B_directionality.R | 10 +-- README.md | 14 ++++ inst/doc/Tutorial.Rmd | 40 +++++++----- inst/doc/Tutorial.html | 142 +++++++++++++++++++++++---------------------- man/B_ij_fun.Rd | 4 - man/c_ij_fun.Rd | 4 - man/d_index_calculation.Rd | 8 +- man/index_calculation.Rd | 4 - vignettes/Tutorial.Rmd | 40 +++++++----- 15 files changed, 175 insertions(+), 143 deletions(-)
Title: Work with Hypergraphs in R
Description: Create and manipulate hypergraph objects. This early version of
rhype allows for the output of matrices associated with the hypergraphs
themselves. It also uses these matrices to calculate hypergraph spectra and
perform spectral comparison. Functionality coming soon includes calculation
of hyperpaths and hypergraph centrality measures.
Author: Hugh Warden [aut, cre]
Maintainer: Hugh Warden <hugh.warden@outlook.com>
Diff between rhype versions 0.2.0 dated 2022-02-16 and 0.3.0 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 19 ++++++++++++------- NAMESPACE | 4 ++++ NEWS.md | 9 +++++---- R/centrality.R |only R/getters_setters.R | 30 ++++++++++++++++++++++++++++++ R/spectral_calcs.R | 3 ++- R/validate_hypergraph.R | 2 +- build/partial.rdb |binary man/eigenvector_centrality.Rd |only man/eigenvector_centrality_factor.Rd |only man/hype_order.Rd |only man/hype_size.Rd |only 13 files changed, 58 insertions(+), 17 deletions(-)
Title: Visualize 'Confounder' Control in Meta-Analyses
Description: Visualize 'confounder' control in meta-analysis.
'metaconfoundr' is an approach to evaluating bias in studies used in
meta-analyses based on the causal inference framework. Study groups
create a causal diagram displaying their assumptions about the
scientific question. From this, they develop a list of important
'confounders'. Then, they evaluate whether studies controlled for
these variables well. 'metaconfoundr' is a toolkit to facilitate this
process and visualize the results as heat maps, traffic light plots,
and more.
Author: Malcolm Barrett [aut, cre] ,
Julie M. Petersen [aut] ,
Ludovic Trinquart [aut]
Maintainer: Malcolm Barrett <malcolmbarrett@gmail.com>
Diff between metaconfoundr versions 0.1.0 dated 2021-10-12 and 0.1.1 dated 2022-08-06
DESCRIPTION | 12 - MD5 | 15 - NEWS.md |only R/tidyselect-rexport.R | 6 README.md | 15 - build/vignette.rds |binary inst/doc/intro-to-metaconfoundr.html | 420 ++++++++++++++++++++++++++++------- inst/shiny_app/about.md | 8 inst/shiny_app/app.R | 6 9 files changed, 387 insertions(+), 95 deletions(-)
Title: International Assessment Data Manager
Description: Provides tools for importing, merging, and analysing data from
international assessment studies (TIMSS, PIRLS, PISA, ICILS, and PIAAC).
Author: Daniel Caro <dcarov@gmail.com>, Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Maintainer: Daniel Caro <dcarov@gmail.com>
Diff between intsvy versions 2.5 dated 2021-01-23 and 2.6 dated 2022-08-06
DESCRIPTION | 10 ++--- MD5 | 28 ++++++++-------- R/intsvy.ben.pv.R | 84 +++++++++++++++++++++++++++++++++++++++++------- R/intsvy.log.R | 53 +++++++++++++++++++++++++++++- R/intsvy.log.pv.R | 86 +++++++++++++++++++++++++++++++++++++++++++++++--- R/intsvy.mean.R | 29 +++++++++++++++- R/intsvy.mean.pv.R | 69 ++++++++++++++++++++++++++++++++++------ R/intsvy.per.pv.R | 67 ++++++++++++++++++++++++++++++++++---- R/intsvy.reg.R | 40 ++++++++++++++++++++++- R/intsvy.reg.pv.R | 80 +++++++++++++++++++++++++++++++++++++++++----- R/piaac.mean.pv.R | 2 - R/surv_conf.R | 28 ++++++++++++++++ data/confs.rda |binary man/confs.Rd | 2 + man/intsvy-package.Rd | 4 +- 15 files changed, 513 insertions(+), 69 deletions(-)
Title: Rmetrics - Modelling Trends and Unit Roots
Description: Provides four addons for analyzing trends and
unit roots in financial time series: (i) functions for the density
and probability of the augmented Dickey-Fuller Test, (ii) functions
for the density and probability of MacKinnon's unit root test
statistics, (iii) reimplementations for the ADF and MacKinnon
Test, and (iv) an 'urca' Unit Root Test Interface for Pfaff's
unit root test suite.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Georgi N. Boshnakov [cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between fUnitRoots versions 3042.79 dated 2017-11-16 and 4021.80 dated 2022-08-06
DESCRIPTION | 32 ++++++++++++++++++++------------ MD5 | 22 ++++++++++++---------- NAMESPACE | 34 ++++++++++++++++++++++++++-------- NEWS.md |only R/MacKinnonPValues.R | 4 ++-- R/UnitrootTests.R | 4 ++-- R/UnitrootUrcaInterface.R | 2 +- man/00fUnitroots-package.Rd | 42 +++++++++++++++++++++--------------------- man/DickeyFullerPValues.Rd | 2 +- man/MacKinnonPValues.Rd | 6 +++--- man/UnitrootTests.Rd | 4 ++-- man/UnitrootUrcaInterface.Rd | 20 ++++++++++---------- src/init.c |only 13 files changed, 100 insertions(+), 72 deletions(-)
Title: Facilitate Exploration of touRR optimisatioN
Description: Diagnostic plots for optimisation, with a focus on projection pursuit. These show paths the optimiser
takes in the high-dimensional space in multiple ways: by reducing the dimension using principal component analysis, and
also using the tour to show the path on the high-dimensional space. Several botanical colour palettes are included, reflecting the
name of the package. A paper describing the methodology can be found at <https://journal.r-project.org/archive/2021/RJ-2021-105/index.html>.
Author: H. Sherry Zhang [aut, cre] ,
Dianne Cook [aut] ,
Ursula Laa [aut] ,
Nicolas Langrene [aut] ,
Patricia Menendez [aut]
Maintainer: H. Sherry Zhang <huize.zhang@monash.edu>
Diff between ferrn versions 0.0.1 dated 2021-03-17 and 0.0.2 dated 2022-08-06
DESCRIPTION | 14 +++++++------- MD5 | 21 +++++++++++---------- NEWS.md | 5 +++++ R/explore_space.R | 10 +++++----- R/explore_trace.R | 2 +- R/utils.R | 2 +- README.md | 31 ++++++++++++++++++++++--------- inst/CITATION |only man/data.Rd | 12 ++++++------ man/ferrn-package.Rd | 9 +++------ man/figures/README-pca-plot-1.png |binary man/figures/README-trace-plot-1.png |binary 12 files changed, 61 insertions(+), 45 deletions(-)
Title: Bayesian Seemingly Unrelated Regression
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Bottolo et al. (2021) <doi:10.1111/rssc.12490>, the software paper is in Zhao et al. (2021) <doi:10.18637/jss.v100.i11>, and the model with random effects is described in Zhao et al. (2021) <arXiv:2101.05899>.
Author: Marco Banterle [aut],
Zhi Zhao [aut, cre],
Leonardo Bottolo [ctb],
Sylvia Richardson [ctb],
Waldir Leoncio [ctb],
Alex Lewin [aut],
Manuela Zucknick [aut]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between BayesSUR versions 2.1-0 dated 2022-06-30 and 2.1-1 dated 2022-08-06
DESCRIPTION | 14 +++++----- LICENSE | 2 - MD5 | 24 ++++++++--------- NAMESPACE | 1 NEWS.md | 4 ++ R/BayesSUR.R | 11 +++++--- R/getEstimator.R | 2 - inst/doc/BayesSUR.pdf |binary man/BayesSUR.Rd | 6 ++-- src/ESS_Sampler.h | 21 ++------------- src/SUR_Chain.cpp | 7 +---- src/SUR_Chain.h | 3 -- src/drive.cpp | 67 +++++++++++++++++--------------------------------- 13 files changed, 66 insertions(+), 96 deletions(-)
Title: Fast Bayesian Gaussian Process Regression Fitting
Description: Bayesian inferences on nonparametric regression via Gaussian Processes with a modified exponential square kernel using a basis expansion approach.
Author: Jian Kang [aut, cre],
John Burkardt [ctb]
Maintainer: Jian Kang <jiankang@umich.edu>
Diff between BayesGPfit versions 0.1.0 dated 2020-02-20 and 1.1.0 dated 2022-08-06
DESCRIPTION | 9 +- MD5 | 15 ++-- NAMESPACE | 4 - R/fastGPfit.R | 149 +++++++++++++++++++++++++++++++++++++--- man/GP.create.cols.Rd | 4 - man/GP.eigen.funcs.fast.orth.Rd |only man/GP.plot.curves.Rd | 10 ++ man/GP.simulate.curves.fast.Rd |only src/BayesGPfit_init.c |only src/GPlib.cpp | 134 +++++++++++++++++++++++++++++++++++ 10 files changed, 302 insertions(+), 23 deletions(-)
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.24 dated 2022-04-24 and 1.5.25 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Econometric Models for Spatial Panel Data
Description: ML and GM estimation and diagnostic testing of econometric models for spatial panel data.
Author: Giovanni Millo [aut, cre],
Gianfranco Piras [aut],
Roger Bivand [ctb]
Maintainer: Giovanni Millo <giovanni.millo@deams.units.it>
Diff between splm versions 1.5-3 dated 2022-01-12 and 1.6-2 dated 2022-08-06
DESCRIPTION | 8 +++--- MD5 | 50 ++++++++++++++++++++------------------- NAMESPACE | 32 ++++++++++++++++++++++--- R/fixed_effects.R | 4 +-- R/likelihoodsFE.R | 3 +- R/sarREmod.R | 2 - R/sarem2REmod.R | 4 +-- R/sarem2srREmod.R | 6 ++-- R/saremREmod.R | 4 +-- R/saremgREmod.R |only R/saremmod.R | 4 +-- R/saremsrREmod.R | 4 +-- R/saremsrmod.R | 4 +-- R/sarmod.R | 2 - R/sarsrREmod.R | 2 - R/sarsrmod.R | 2 - R/sem2REmod.R | 4 +-- R/sem2srREmod.R | 4 +-- R/semREmod.R | 4 +-- R/semgREmod.R |only R/semmod.R | 4 +-- R/semsrREmod.R | 4 +-- R/semsrmod.R | 4 +-- R/sparseBmethods.R | 2 - R/spreml.R | 67 ++++++++++++++++++++++++++++++++++------------------- man/RiceFarms.Rd | 3 -- man/spreml.Rd | 3 +- 27 files changed, 138 insertions(+), 92 deletions(-)
Title: Connect to Your 'Revenera' (Formerly 'Revulytics') Data
Description: Facilitates making a connection to the
'Revenera' API and executing various queries. You can use it to
get event data and metadata. The 'Revenera' documentation
is available at
<https://docs.revenera.com/ui560/report/>. This package is not
supported by 'Flexera' (owner of the software).
Author: Chris Umphlett [aut, cre],
Avinash Panigrahi [aut]
Maintainer: Chris Umphlett <christopher.umphlett@gmail.com>
Diff between reveneraR versions 0.1.1 dated 2022-02-03 and 0.1.2 dated 2022-08-06
DESCRIPTION | 6 ++-- MD5 | 12 ++++---- NEWS.md | 5 +++ R/get_client_metadata.R | 19 ++++++++++---- R/get_daily_client_properties.R | 50 +++++++++++++++++++++---------------- man/get_client_metadata.Rd | 7 ++++- man/get_daily_client_properties.Rd | 7 ++++- 7 files changed, 69 insertions(+), 37 deletions(-)
Title: Probabilistic Time Series Forecasting
Description: Probabilistic time series forecasting via Natural Gradient Boosting for Probabilistic Prediction.
Author: Resul Akay [aut, cre]
Maintainer: Resul Akay <resulakay1@gmail.com>
Diff between ngboostForecast versions 0.1.0 dated 2022-05-03 and 0.1.1 dated 2022-08-06
DESCRIPTION | 8 +-- MD5 | 17 +++---- NEWS.md | 2 R/ngbfor.R | 12 +++-- R/ngbforcv.R | 14 ++--- R/utils.R | 4 + man/NGBforecast.Rd | 42 ++++++++--------- man/NGBforecastCV.Rd | 18 +++---- tests/testthat/test-ngbforecastcv.R |only tests/testthat/test-ngboostfor.R | 85 ++++++++++++++++++++++++++++++++++++ 10 files changed, 149 insertions(+), 53 deletions(-)
More information about ngboostForecast at CRAN
Permanent link
Title: General Purpose Optimization in R using C++
Description: Perform general purpose optimization in R using C++. A unified
wrapper interface is provided to call C functions of the five optimization
algorithms ('Nelder-Mead', 'BFGS', 'CG', 'L-BFGS-B' and 'SANN') underlying
optim().
Author: Yi Pan [aut, cre]
Maintainer: Yi Pan <ypan1988@gmail.com>
Diff between roptim versions 0.1.5 dated 2020-06-29 and 0.1.6 dated 2022-08-06
roptim |only 1 file changed
Title: Empirical Dynamic Modeling ('EDM')
Description: An implementation of 'EDM' algorithms based on research software developed for internal use at the Sugihara Lab ('UCSD/SIO'). The package is implemented with 'Rcpp' wrappers around the 'cppEDM' library. It implements the 'simplex' projection method from Sugihara & May (1990) <doi:10.1038/344734a0>, the 'S-map' algorithm from Sugihara (1994) <doi:10.1098/rsta.1994.0106>, convergent cross mapping described in Sugihara et al. (2012) <doi:10.1126/science.1227079>, and, 'multiview embedding' described in Ye & Sugihara (2016) <doi:10.1126/science.aag0863>.
Author: Joseph Park [aut, cre] ,
Cameron Smith [aut] ,
George Sugihara [aut, ccp] ,
Ethan Deyle [aut] ,
Erik Saberski [ctb] ,
Hao Ye [ctb] ,
The Regents of the University of California [cph]
Maintainer: Joseph Park <JosephPark@IEEE.org>
Diff between rEDM versions 1.13.0 dated 2022-06-22 and 1.13.1 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 3 ++- R/EDM_AuxFuncs.R | 6 ++++-- R/apps/CCM-Multiprocess.R | 5 ++++- README.md | 4 ++-- build/vignette.rds |binary src/cppEDM/src/DateTime.cc | 19 ++++++++++--------- src/cppEDM/src/DateTime.h | 15 ++++++++++++++- src/cppEDM/src/Parameter.cc | 12 +++++++++++- vignettes/rEDM-tutorial.html | 20 ++++++++++---------- 11 files changed, 71 insertions(+), 41 deletions(-)
Title: Processing various types of data on GEO and TCGA
Description: Gene Expression Omnibus(GEO) and The Cancer Genome Atlas (TCGA)
provide us with a wealth of data, such as RNA-seq, DNA Methylation, SNP
and Copy number variation data. It's easy to download data from TCGA using the
gdc tool, but processing these data into a format suitable for bioinformatics
analysis requires more work. This R package was developed to handle these data.
Author: Erqiang Hu [aut, cre]
Maintainer: Erqiang Hu <13766876214@163.com>
Diff between GeoTcgaData versions 1.0.2 dated 2021-10-24 and 1.1.0 dated 2022-08-06
DESCRIPTION | 13 MD5 | 79 - NAMESPACE | 6 R/CNV.R | 111 - R/Merge_methylation.R | 347 +++-- R/RNA_seq.R | 409 ++++-- R/SNP.R | 136 +- R/arrayDiff.R |only README.md | 748 ++++++----- build/vignette.rds |binary inst/doc/GeoTcgaData.R | 25 inst/doc/GeoTcgaData.Rmd | 58 inst/doc/GeoTcgaData.html | 678 +++++++--- inst/extdata/cnv/00de3/HONGS_p_TCGAb3_75_76_77_NSP_G.txt | 148 +- inst/extdata/cnv/00e8/MICHE_p_TCGAb_428_429_NS.txt | 196 +-- inst/extdata/cnv/00f9/MINAE_p_TCGA_200_202_203_S.txt | 938 +++++++-------- inst/extdata/cnv/0a01/KNELT_p_TCGA_b123_131_S.txt | 912 +++++++------- inst/extdata/methy/0a0b4/logs/file1.parcel | 198 +-- inst/extdata/methy/0a6b/logs/file2.parcel | 198 +-- inst/extdata/methy/0ae7/logs/file3.parcel | 198 +-- inst/extdata/methy/0b32/logs/file4.parcel | 198 +-- inst/extdata/tcga_cli/at.orl.TCGA-2V-A95S.xml | 294 ++-- inst/extdata/tcga_cli/ati.org.TCGA-2Y-A9GT.xml | 364 ++--- inst/extdata/tcga_cli/ats.org.TCGA-2Y-A9GS.xml | 298 ++-- man/Diff_limma.Rd |only man/GSE66705_sample2.Rd | 38 man/arrayDiff.Rd |only man/classify_sample.Rd | 40 man/countToFpkm_matrix.Rd | 48 man/countToTpm_matrix.Rd | 48 man/diff_CNV.Rd | 4 man/diff_RNA.Rd | 29 man/diff_RNA_ucsc.Rd |only man/diff_SNP_tcga.Rd | 20 man/diff_gene.Rd | 42 man/id_ava.Rd | 34 man/kegg_liver.Rd | 38 man/methyDiff.Rd | 20 man/methyDiff_ucsc.Rd |only man/module.Rd | 32 man/profile.Rd | 38 man/ventricle.Rd | 38 vignettes/GeoTcgaData.Rmd | 58 43 files changed, 3896 insertions(+), 3183 deletions(-)
Title: Tidy Verbs for Fast Data Manipulation
Description: A toolkit of tidy data manipulation verbs with 'data.table' as the backend.
Combining the merits of syntax elegance from 'dplyr' and computing performance from 'data.table',
'tidyfst' intends to provide users with state-of-the-art data manipulation tools with least pain.
This package is an extension of 'data.table'. While enjoying a tidy syntax,
it also wraps combinations of efficient functions to facilitate frequently-used data operations.
Author: Tian-Yuan Huang [aut, cre]
Maintainer: Tian-Yuan Huang <huang.tian-yuan@qq.com>
Diff between tidyfst versions 1.6.5 dated 2022-04-28 and 1.7.0 dated 2022-08-06
DESCRIPTION | 6 ++-- MD5 | 19 ++++++++------ NAMESPACE | 5 +++ R/dummy_dt.R | 53 +++++++++++++++++++++++++++++------------ R/notin.R |only R/pkg_load.R |only R/sys_time_print.R | 5 +++ inst/doc/benchmark.html | 36 +++++++++++++-------------- inst/doc/chinese_tutorial.html | 26 ++++++++++---------- man/dummy_dt.Rd | 14 ++++++++++ man/pkg_load.Rd |only man/reexports.Rd | 3 +- 12 files changed, 108 insertions(+), 59 deletions(-)
Title: R6 Class for Structural Causal Models
Description: The implemented R6 class 'SCM' aims to simplify working with structural causal models. The missing data mechanism can be defined as a part of the structural model. The class contains methods for 1) defining a structural causal model via functions, text or conditional probability tables, 2) printing basic information on the model, 3) plotting the graph for the model using packages 'igraph' or 'qgraph', 4) simulating data from the model, 5) applying an intervention, 6) checking the identifiability of a query using the R packages 'causaleffect' and 'dosearch', 7) defining the missing data mechanism, 8) simulating incomplete data from the model according to the specified missing data mechanism and 9) checking the identifiability in a missing data problem using the R package 'dosearch'. In addition, there are functions for running experiments and doing counterfactual inference using simulation.
Author: Juha Karvanen [aut, cre]
Maintainer: Juha Karvanen <juha.karvanen@iki.fi>
Diff between R6causal versions 0.6.0 dated 2021-08-06 and 0.6.1 dated 2022-08-06
DESCRIPTION | 6 MD5 | 30 - NAMESPACE | 32 - NEWS.md | 4 R/R6causal.R | 6 build/vignette.rds |binary inst/doc/using_R6causal.pdf |binary man/R6causal.Rd | 44 +- man/SCM.Rd | 796 ++++++++++++++++++++++---------------------- man/backdoor.Rd | 40 +- man/backdoor_md.Rd | 44 +- man/counterfactual.Rd | 114 +++--- man/frontdoor.Rd | 40 +- man/generate_condprob.Rd | 72 +-- man/run_experiment.Rd | 64 +-- man/trapdoor.Rd | 52 +- 16 files changed, 674 insertions(+), 670 deletions(-)
Title: Easily Extracting Information About Your Data
Description: Makes it easy to display descriptive information on a data
set. Getting an easy overview of a data set by displaying and
visualizing sample information in different tables (e.g., time and
scope conditions). The package also provides publishable 'LaTeX' code
to present the sample information.
Author: Cosima Meyer [cre, aut],
Dennis Hammerschmidt [aut]
Maintainer: Cosima Meyer <cosima.meyer@gmail.com>
Diff between overviewR versions 0.0.10 dated 2022-04-15 and 0.0.11 dated 2022-08-06
DESCRIPTION | 6 MD5 | 56 ++++---- NEWS.md | 38 ++++-- R/calculate_share_non_row_wise.R | 20 +-- R/calculate_share_row_wise.R | 22 ++- R/overview_crossplot.R | 67 ++++++---- R/overview_crosstab.R | 63 ++++++---- R/overview_na.R | 5 R/overview_overlap.R | 30 +++- R/overview_plot.R | 31 ++-- R/overview_plot_absolute.R | 6 R/overview_plot_percentage.R | 6 R/overview_print.R | 33 ++--- R/overview_tab.R | 12 - R/overview_tab_df.R | 7 - R/overview_tab_dt.R | 20 +-- R/private_overview_heat.R | 40 +++--- R/private_overview_tab.R | 1 R/theme_heat_plot.R | 7 - R/theme_na_plot.R | 6 inst/doc/overviewR_vignette.R | 14 +- inst/doc/overviewR_vignette.Rmd | 15 +- inst/doc/overviewR_vignette.html | 24 ++- man/calculate_share_row_wise.Rd | 2 man/overview_overlap.Rd | 6 man/overview_tab.Rd | 6 tests/testthat/test-check_output.R | 231 ++++++++++++++++++++----------------- tests/testthat/test-dt_output.R | 79 ++++++------ vignettes/overviewR_vignette.Rmd | 15 +- 29 files changed, 492 insertions(+), 376 deletions(-)
Title: Generalized Random Forests
Description: Forest-based statistical estimation and inference.
GRF provides non-parametric methods for heterogeneous treatment effects estimation
(optionally using right-censored outcomes, multiple treatment arms or outcomes, or instrumental variables),
as well as least-squares regression, quantile regression, and survival regression,
all with support for missing covariates.
Author: Julie Tibshirani [aut, cre],
Susan Athey [aut],
Rina Friedberg [ctb],
Vitor Hadad [ctb],
David Hirshberg [ctb],
Luke Miner [ctb],
Erik Sverdrup [aut],
Stefan Wager [aut],
Marvin Wright [ctb]
Maintainer: Julie Tibshirani <jtibs@cs.stanford.edu>
Diff between grf versions 2.1.0 dated 2022-03-17 and 2.2.0 dated 2022-08-06
DESCRIPTION | 21 ++-- MD5 | 57 ++++++----- NAMESPACE | 2 R/RcppExports.R | 4 R/causal_forest.R | 2 R/causal_survival_forest.R | 20 +--- R/forest_summary.R | 14 ++ R/get_scores.R | 16 +-- R/grf-package.R | 5 - R/input_utilities.R | 2 R/ll_regression_forest.R | 2 R/lm_forest.R |only R/multi_arm_causal_forest.R | 1 R/survival_forest.R | 79 ++++++++++------ man/best_linear_projection.Rd | 8 + man/causal_survival_forest.Rd | 2 man/get_scores.causal_forest.Rd | 6 - man/grf-package.Rd | 5 - man/lm_forest.Rd |only man/predict.causal_forest.Rd | 2 man/predict.lm_forest.Rd |only man/predict.survival_forest.Rd | 24 +++- src/MultiCausalForestBindings.cpp | 5 - src/RcppExports.cpp | 9 + src/src/forest/ForestTrainers.cpp | 5 - src/src/forest/ForestTrainers.h | 3 src/src/prediction/CausalSurvivalPredictionStrategy.cpp | 4 src/src/prediction/InstrumentalPredictionStrategy.cpp | 2 src/src/relabeling/CausalSurvivalRelabelingStrategy.cpp | 4 src/src/relabeling/MultiCausalRelabelingStrategy.cpp | 15 ++- src/src/relabeling/MultiCausalRelabelingStrategy.h | 8 + 31 files changed, 199 insertions(+), 128 deletions(-)
Title: 'SAS' Linear Model
Description: This is a core implementation of 'SAS' procedures for linear models - GLM, REG, ANOVA, FREQ, and UNIVARIATE. Some R packages provide type II and type III SS. However, the results of nested and complex designs are often different from those of 'SAS.' Different results does not necessarily mean incorrectness. However, many wants the same results to SAS. This package aims to achieve that.
Reference: Littell RC, Stroup WW, Freund RJ (2002, ISBN:0-471-22174-0).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between sasLM versions 0.8.1 dated 2022-05-10 and 0.9.0 dated 2022-08-06
sasLM-0.8.1/sasLM/inst/doc/Report-Different-Simplest2203211206.pdf |only sasLM-0.8.1/sasLM/inst/doc/Report-NOT-OKs2203211207.pdf |only sasLM-0.8.1/sasLM/inst/doc/Validation-Report-GLM-2203211208.pdf |only sasLM-0.9.0/sasLM/DESCRIPTION | 8 +- sasLM-0.9.0/sasLM/MD5 | 36 +++++++--- sasLM-0.9.0/sasLM/NAMESPACE | 2 sasLM-0.9.0/sasLM/R/OR.R |only sasLM-0.9.0/sasLM/R/ORmn.R |only sasLM-0.9.0/sasLM/R/ORmn1.R |only sasLM-0.9.0/sasLM/R/RD.R |only sasLM-0.9.0/sasLM/R/RDmn.R |only sasLM-0.9.0/sasLM/R/RDmn1.R |only sasLM-0.9.0/sasLM/R/RR.R |only sasLM-0.9.0/sasLM/R/RRmn.R |only sasLM-0.9.0/sasLM/R/RRmn1.R |only sasLM-0.9.0/sasLM/R/ScoreCI.R |only sasLM-0.9.0/sasLM/R/T3MS.R | 2 sasLM-0.9.0/sasLM/inst/NEWS.Rd | 6 + sasLM-0.9.0/sasLM/inst/doc/Report-Different-Simplest2207240918.pdf |only sasLM-0.9.0/sasLM/inst/doc/Report-NOT-OKs2207240918.pdf |only sasLM-0.9.0/sasLM/inst/doc/Validation-Report-GLM-2207240919.pdf |only sasLM-0.9.0/sasLM/inst/doc/sasLM-manual.pdf |binary sasLM-0.9.0/sasLM/man/OR.Rd |only sasLM-0.9.0/sasLM/man/ORmn.Rd |only sasLM-0.9.0/sasLM/man/ORmn1.Rd |only sasLM-0.9.0/sasLM/man/RD.Rd |only sasLM-0.9.0/sasLM/man/RDmn.Rd |only sasLM-0.9.0/sasLM/man/RDmn1.Rd |only sasLM-0.9.0/sasLM/man/RR.Rd |only sasLM-0.9.0/sasLM/man/RRmn.Rd |only sasLM-0.9.0/sasLM/man/RRmn1.Rd |only sasLM-0.9.0/sasLM/man/ScoreCI.Rd |only 32 files changed, 40 insertions(+), 14 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 0.8.70 dated 2022-04-24 and 0.9.0 dated 2022-08-06
DESCRIPTION | 26 MD5 | 182 +++-- NAMESPACE | 7 R/ANOVA.R | 214 ++++--- R/ARMA_optim.R | 47 - R/Copula.R | 27 R/Dependence.R | 15 R/Dependence_matrix.R | 4 R/Internal_Functions.R | 73 ++ R/LPM_UPM_VaR.R | 13 R/Multivariate_Regression.R | 6 R/NNS_VAR.R | 202 +++--- R/Partial_Moments.R | 577 ++---------------- R/Partition_Map.R | 4 R/RcppExports.R |only R/Regression.R | 578 +++++++++---------- R/SD_Efficient_Set.R | 78 +- R/Stack.R | 6 R/Uni_Causation.R | 2 R/Uni_SD_Routines.R | 149 ++-- R/dy_d_wrt.R | 68 +- R/gvload.R | 15 README.md | 11 build/partial.rdb |binary inst/doc/NNSvignette_Classification.R | 1 inst/doc/NNSvignette_Classification.Rmd | 1 inst/doc/NNSvignette_Classification.html | 16 inst/doc/NNSvignette_Clustering_and_Regression.R | 1 inst/doc/NNSvignette_Clustering_and_Regression.Rmd | 1 inst/doc/NNSvignette_Clustering_and_Regression.html | 67 +- inst/doc/NNSvignette_Correlation_and_Dependence.R | 11 inst/doc/NNSvignette_Correlation_and_Dependence.Rmd | 12 inst/doc/NNSvignette_Correlation_and_Dependence.html | 57 - inst/doc/NNSvignette_Forecasting.R | 1 inst/doc/NNSvignette_Forecasting.Rmd | 1 inst/doc/NNSvignette_Forecasting.html | 11 inst/doc/NNSvignette_Partial_Moments.R | 12 inst/doc/NNSvignette_Partial_Moments.Rmd | 14 inst/doc/NNSvignette_Partial_Moments.html | 26 man/Co.LPM.Rd | 78 +- man/Co.UPM.Rd | 78 +- man/D.LPM.Rd | 80 +- man/D.UPM.Rd | 80 +- man/LPM.Rd | 66 +- man/LPM.VaR.Rd | 70 +- man/LPM.ratio.Rd | 102 +-- man/NNS.ANOVA.Rd | 146 ++-- man/NNS.ARMA.Rd | 210 +++--- man/NNS.ARMA.optim.Rd | 198 +++--- man/NNS.CDF.Rd | 122 ++-- man/NNS.FSD.Rd | 72 +- man/NNS.FSD.uni.Rd | 68 +- man/NNS.PDF.Rd | 84 +- man/NNS.SD.efficient.set.Rd | 74 +- man/NNS.SSD.Rd | 64 +- man/NNS.SSD.uni.Rd | 60 - man/NNS.TSD.Rd | 64 +- man/NNS.TSD.uni.Rd | 60 - man/NNS.VAR.Rd | 272 ++++---- man/NNS.boost.Rd | 194 +++--- man/NNS.caus.Rd | 94 +-- man/NNS.copula.Rd | 95 +-- man/NNS.dep.Rd | 112 +-- man/NNS.diff.Rd | 78 +- man/NNS.distance.Rd | 54 - man/NNS.meboot.Rd | 242 +++---- man/NNS.norm.Rd | 74 +- man/NNS.nowcast.Rd | 138 ++-- man/NNS.part.Rd | 148 ++-- man/NNS.reg.Rd | 373 ++++++------ man/NNS.seas.Rd | 80 +- man/NNS.stack.Rd | 236 +++---- man/NNS.term.matrix.Rd | 90 +- man/PM.matrix.Rd | 118 +-- man/UPM.Rd | 66 +- man/UPM.VaR.Rd | 56 - man/UPM.ratio.Rd | 80 +- man/dy.d_.Rd | 162 ++--- man/dy.dx.Rd | 96 +-- src |only tests |only vignettes/NNSvignette_Classification.Rmd | 1 vignettes/NNSvignette_Clustering_and_Regression.Rmd | 1 vignettes/NNSvignette_Correlation_and_Dependence.Rmd | 12 vignettes/NNSvignette_Forecasting.Rmd | 1 vignettes/NNSvignette_Partial_Moments.Rmd | 14 86 files changed, 3410 insertions(+), 3789 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Contains functions for the classification and ranking of top candidate features, reconstruction of networks from
adjacency matrices and data frames, analysis of the topology of the network
and calculation of centrality measures, and identification of the most
influential nodes. Also, a function is provided for running SIRIR model, which
is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment
of dependence and correlation of two network centrality measures as well as
the conditional probability of deviation from their corresponding means in opposite direction.
Fred Viole and David Nawrocki (2013, ISBN:1490523995).
Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695.
Adopted algorithms and sources are referenced in function document.
Author: Abbas Salavaty [aut, cre], Mirana Ramialison [ths], Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.2.5 dated 2022-04-14 and 2.2.6 dated 2022-08-06
DESCRIPTION | 10 MD5 | 27 NAMESPACE | 1 NEWS.md | 20 R/functions.R | 244 +++- inst/ShinyApps/ExIR/app.R | 95 + inst/doc/Vignettes.R | 39 inst/doc/Vignettes.Rmd | 135 +- inst/doc/Vignettes.html | 2264 +++++++++++++++++++++++++++++---------------- man/betweenness.Rd | 5 man/exir.Rd | 12 man/fcor.Rd |only man/figures/ExIR_Vis.png |binary man/influential-package.Rd | 2 vignettes/Vignettes.Rmd | 135 +- 15 files changed, 1993 insertions(+), 996 deletions(-)
Title: Intrinsic Peak Analysis (IPA) for HRMS Data
Description: A sophisticated pipeline for processing LC/HRMS data to extract signals of organic compounds. The package performs isotope pairing, peak detection, alignment, RT correction, gap filling, peak annotation and visualization of extracted ion chromatograms and total ion chromatograms.
Author: Sadjad Fakouri-Baygi [cre, aut]
,
Dinesh Barupal [aut]
Maintainer: Sadjad Fakouri-Baygi <sadjad.fakouri-baygi@mssm.edu>
Diff between IDSL.IPA versions 1.9 dated 2022-07-07 and 2.0 dated 2022-08-06
DESCRIPTION | 6 - MD5 | 40 ++++++------ R/IPA_GapFiller.R | 46 +++++++------- R/IPA_MSdeconvoluter.R | 5 - R/IPA_PeakAlignment.R | 123 +++++++++++++++++++-------------------- R/IPA_PeakAnalyzer.R | 16 ++--- R/IPA_PeaklistAnnotation.R | 52 ++++++++-------- R/IPA_TargetedAnalysis.R | 14 ++-- R/IPA_Workflow.R | 12 +-- R/chromatography_analysis.R | 2 R/der_5points_stencil.R | 2 R/mz_clustering_xic.R | 51 +++++++++------- R/peak_Xcol2.R | 5 - R/peak_alignment.R | 59 ++++++++++-------- R/pseudomoments_symmetry.R | 2 R/recursive_mass_correction.R | 10 +-- R/reference_peaks_detector.R | 23 +++++-- build/partial.rdb |binary inst/extdata/IPA_parameters.xlsx |binary man/peak_alignment.Rd | 6 - man/reference_peaks_detector.Rd | 20 +++--- 21 files changed, 266 insertions(+), 228 deletions(-)
Title: Version-Control for CRAN, GitHub, and GitLab Packages
Description: Make R scripts reproducible, by ensuring that
every time a given script is run, the same version of the used packages are
loaded (instead of whichever version the user running the script happens to
have installed). This is achieved by using the command
groundhog.library() instead of the base command library(), and including a
date in the call. The date is used to call on the same version of the
package every time (the most recent version available at that date).
Load packages from CRAN, GitHub, or Gitlab.
Author: Uri Simonsohn [aut, cre] ,
Hugo Gruson [ctb, aut]
Maintainer: Uri Simonsohn <urisohn@gmail.com>
Diff between groundhog versions 2.0.0 dated 2022-07-12 and 2.0.1 dated 2022-08-06
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/get.current.packages.R | 6 ++---- R/load.cran.toc.R | 21 ++++++++++++++++++--- R/utils.R | 4 ++-- README.md | 35 ++--------------------------------- man/mran.is.up.Rd | 26 +++++++++++++------------- 7 files changed, 47 insertions(+), 65 deletions(-)
Title: Relational Data Models
Description: Provides tools for working with multiple related
tables, stored as data frames or in a relational database. Multiple
tables (data and metadata) are stored in a compound object, which can
then be manipulated with a pipe-friendly syntax.
Author: Tobias Schieferdecker [aut],
Kirill Mueller [aut, cre] ,
Antoine Fabri [ctb],
Darko Bergant [aut],
Katharina Brunner [ctb],
James Wondrasek [ctb],
Indrajeet Patil [ctb] ,
Maelle Salmon [ctb] ,
energie360° AG [fnd],
cynkra GmbH [fnd, cph]
Maintainer: Kirill Mueller <krlmlr+r@mailbox.org>
Diff between dm versions 1.0.0 dated 2022-07-21 and 1.0.1 dated 2022-08-06
DESCRIPTION | 8 +-- MD5 | 66 ++++++++++++++++---------------- NAMESPACE | 1 NEWS.md | 11 +++++ R/dm.R | 5 +- R/dm_deconstruct.R |only R/dm_get_tables.R | 3 - R/dm_gui.R | 2 R/gui-dmSVG.R | 2 R/gui-gui_global.R | 6 +- R/gui-gui_ui.R | 24 +++++------ R/gui-mw_cg_make_dm_add_fk.R | 39 +++++++++++++----- R/gui-mw_cg_make_dm_add_pk.R | 27 +++++++++---- R/gui-mw_cg_make_dm_set_colors.R | 10 +++- README.md | 5 +- inst/doc/dm.html | 4 - inst/doc/howto-dm-copy.html | 4 - inst/doc/howto-dm-db.html | 4 - inst/doc/howto-dm-df.html | 4 - inst/doc/howto-dm-rows.html | 4 - inst/doc/howto-dm-theory.html | 4 - inst/doc/tech-dm-cdm.html | 4 - inst/doc/tech-dm-class.html | 4 - inst/doc/tech-dm-draw.html | 4 - inst/doc/tech-dm-filter.html | 4 - inst/doc/tech-dm-join.html | 4 - inst/doc/tech-dm-keyed.R | 4 + inst/doc/tech-dm-keyed.Rmd | 13 ++++++ inst/doc/tech-dm-keyed.html | 10 ++++ inst/doc/tech-dm-low-level.html | 4 - man/dm_deconstruct.Rd |only man/dm_get_tables.Rd | 3 - man/pull_tbl.Rd | 9 +++- tests/testthat/_snaps/dm_deconstruct.md |only tests/testthat/test-dm_deconstruct.R |only vignettes/tech-dm-keyed.Rmd | 13 ++++++ 36 files changed, 205 insertions(+), 104 deletions(-)
Title: Genetic Relatedness Between Polyclonal Infections
Description: An implementation of Dcifer (Distance for complex infections: fast estimation of relatedness), an identity by descent (IBD) based method to calculate genetic relatedness between polyclonal infections from biallelic and multiallelic data. The package includes functions that format and preprocess the data, implement the method, and visualize the results.
Gerlovina et al. (2022) <doi:10.1101/2022.04.14.488406>.
Author: Inna Gerlovina [aut, cre]
Maintainer: Inna Gerlovina <innager@berkeley.edu>
Diff between dcifer versions 1.0.1 dated 2022-07-15 and 1.1.0 dated 2022-08-06
DESCRIPTION | 9 ++-- MD5 | 35 +++++++++-------- NEWS.md |only R/ibd.R | 35 ++++++++--------- R/plot.R | 20 +++++----- R/probUxUy.R | 87 ++++++++++++++++++++++++++++++-------------- inst/doc/vignetteDcifer.pdf |binary man/logReval.Rd | 22 ++++++++--- man/plotColorbar.Rd | 18 ++++----- man/plotRel.Rd | 4 +- man/probUxUy.Rd | 7 ++- src/dcifer-init.c | 6 +++ src/llik.h | 2 - src/logr.c | 16 +++----- src/pSxSy.c | 12 ++---- src/pUxUy.c | 3 - src/pUxUy0.c |only src/pUxUy0M1.c |only src/pUxUyEqr.c | 6 +-- src/pUxUyM1.c | 17 ++++---- 20 files changed, 174 insertions(+), 125 deletions(-)
Title: Common Network Asset Indices Methodology (CNAIM)
Description: Implementation of the CNAIM standard in R. Contains a series of
algorithms which determine the probability of failure, consequences of
failure and monetary risk associated with electricity distribution
companies' assets such as transformers and cables. Results are visualized
in an easy-to-understand risk matrix.
Author: Emil Larsen [aut],
Kalle Hansen [aut],
Peter Larsen [aut],
Mohsin Vindhani [aut, cre]
Maintainer: Mohsin Vindhani <mohsin@utiligize.com>
Diff between CNAIM versions 2.1.1 dated 2022-07-14 and 2.1.2 dated 2022-08-06
DESCRIPTION | 6 MD5 | 355 +++++----- NAMESPACE | 2 R/pof_132kv_cb.R | 6 R/pof_board_04kv.R | 52 - R/pof_building.R | 39 - R/pof_cables_04kv_pex.R | 8 R/pof_cables_10kv_oil.R | 33 R/pof_cables_10kv_pex.R | 32 R/pof_cables_132kv.R | 6 R/pof_cables_60_30kv.R | 8 R/pof_cables_66_33kv.R | 26 R/pof_ehv_fittings.R | 48 - R/pof_ehv_switchgear.R | 57 - R/pof_future_board_04kv.R | 56 - R/pof_future_building.R | 45 - R/pof_future_cables_04kv_pex.R | 38 - R/pof_future_cables_10kv_oil.R | 38 - R/pof_future_cables_10kv_pex.R | 38 - R/pof_future_cables_132kv.R | 31 R/pof_future_cables_60_30.R | 37 - R/pof_future_cables_66_33kv.R | 38 - R/pof_future_hv_poles.R | 43 - R/pof_future_meter.R | 62 - R/pof_future_ohl_cond_132_66_33kv.R | 41 - R/pof_future_ohl_cond_50kv.R | 44 - R/pof_future_ohl_fittings_50kv.R | 59 - R/pof_future_pillar_04kv.R | 56 - R/pof_future_poles_ohl_support_50kv.R | 56 - R/pof_future_relay.R | 63 - R/pof_future_rtu.R | 63 - R/pof_future_serviceline.R | 37 - R/pof_future_submarine_cables.R | 12 R/pof_future_submarine_cables_10kv_oil.R | 12 R/pof_future_submarine_cables_10kv_pex.R | 13 R/pof_future_submarine_cables_30_60kv_oil.R | 50 - R/pof_future_submarine_cables_30_60kv_pex.R | 50 - R/pof_future_switchgear_30_60kv.R | 66 - R/pof_future_switchgear_primary_10kv.R | 65 - R/pof_future_switchgear_secondary_10kv.R | 62 - R/pof_future_transformer_04_10kv.R | 13 R/pof_future_transformer_11_20kv.R | 38 - R/pof_future_transformer_132kv.R | 88 +- R/pof_future_transformer_30_60kv.R | 99 +- R/pof_future_transformer_33_66kv.R | 89 +- R/pof_hv_poles.R | 44 - R/pof_hv_switchgear_distribution.R | 51 - R/pof_hv_switchgear_primary.R | 53 - R/pof_lv_switchgear_and_other.R | 6 R/pof_lv_ugb.R | 6 R/pof_meter.R | 56 - R/pof_ohl_cond_132_66_33kv.R | 33 R/pof_submarine_cables.R | 38 - R/pof_switchgear_primary_10kv.R | 61 - R/pof_switchgear_secondary_10kv.R | 57 - R/pof_tower_ohl_support_50kv.R | 54 - R/pof_towers.R | 6 R/pof_transformer_04_10kv.R | 40 - R/pof_transformer_11_20kv.R | 29 R/pof_transformer_132kv.R | 80 +- R/pof_transformer_30_60kv.R | 93 +- R/pof_transformer_33_66kv.R | 81 +- inst/doc/cnaim.html | 6 inst/testdata/pof_future_board_04kv.rds |only inst/testdata/pof_future_building.rds |only inst/testdata/pof_future_cables_04kv_pex.rds |only inst/testdata/pof_future_cables_10kv_oil.rds |only inst/testdata/pof_future_cables_10kv_pex.rds |only inst/testdata/pof_future_cables_132kv.rds |only inst/testdata/pof_future_cables_60_30.rds |only inst/testdata/pof_future_cables_66_33kv.rds |only inst/testdata/pof_future_meter.rds |only inst/testdata/pof_future_ohl_cond_132_66_33kv.rds |only inst/testdata/pof_future_ohl_cond_50kv.rds |only inst/testdata/pof_future_ohl_fittings_50kv.rds |only inst/testdata/pof_future_pillar_04kv.rds |only inst/testdata/pof_future_poles.rds |only inst/testdata/pof_future_poles_ohl_support_50kv.rds |only inst/testdata/pof_future_relay.rds |only inst/testdata/pof_future_rtu.rds |only inst/testdata/pof_future_serviceline.rds |only inst/testdata/pof_future_submarine_cables.rds |only inst/testdata/pof_future_submarine_cables_10kv_oil.rds |only inst/testdata/pof_future_submarine_cables_10kv_pex.rds |only inst/testdata/pof_future_submarine_cables_30_60kv_oil.rds |only inst/testdata/pof_future_submarine_cables_30_60kv_pex.rds |only inst/testdata/pof_future_switchgear_30_60kv.rds |only inst/testdata/pof_future_switchgear_primary_10kv.rds |only inst/testdata/pof_future_switchgear_secondary_10kv.rds |only inst/testdata/pof_future_transformer_04_10kv.rds |only inst/testdata/pof_future_transformer_11_20kv.rds |only inst/testdata/pof_future_transformer_132kv.rds |only inst/testdata/pof_future_transformer_30_60kv.rds |only inst/testdata/pof_future_transformer_33_66kv.rds |only man/pof_132kv_cb.Rd | 4 man/pof_board_04kv.Rd | 25 man/pof_building.Rd | 19 man/pof_cables_04kv_pex.Rd | 6 man/pof_cables_10kv_oil.Rd | 15 man/pof_cables_10kv_pex.Rd | 15 man/pof_cables_132kv.Rd | 4 man/pof_cables_60_30kv.Rd | 6 man/pof_cables_66_33kv.Rd | 14 man/pof_ehv_fittings.Rd | 25 man/pof_ehv_switchgear.Rd | 29 man/pof_future_board_04kv.Rd | 26 man/pof_future_building.Rd | 19 man/pof_future_cables_04kv_pex.Rd | 16 man/pof_future_cables_10kv_oil.Rd | 17 man/pof_future_cables_10kv_pex.Rd | 17 man/pof_future_cables_132kv.Rd | 4 man/pof_future_cables_60_30kv.Rd | 9 man/pof_future_cables_66_33kv.Rd | 9 man/pof_future_meter.Rd | 29 man/pof_future_ohl_cond_132_66_33kv.Rd | 18 man/pof_future_ohl_cond_50kv.Rd | 20 man/pof_future_ohl_fittings_50kv.Rd | 28 man/pof_future_pillar_04kv.Rd | 26 man/pof_future_poles.Rd | 18 man/pof_future_poles_ohl_support_50kv.Rd | 26 man/pof_future_relay.Rd | 29 man/pof_future_rtu.Rd | 29 man/pof_future_serviceline.Rd | 16 man/pof_future_submarine_cables.Rd | 4 man/pof_future_submarine_cables_10kv_oil.Rd | 4 man/pof_future_submarine_cables_10kv_pex.Rd | 5 man/pof_future_submarine_cables_30_60kv_oil.Rd | 23 man/pof_future_submarine_cables_30_60kv_pex.Rd | 23 man/pof_future_switchgear_30_60kv.Rd | 29 man/pof_future_switchgear_primary_10kv.Rd | 30 man/pof_future_switchgear_secondary_10kv.Rd | 29 man/pof_future_transformer_04_10kv.Rd | 5 man/pof_future_transformer_11_20kv.Rd | 3 man/pof_future_transformer_132kv.Rd | 3 man/pof_future_transformer_30_60kv.Rd | 46 + man/pof_future_transformer_33_66kv.Rd | 42 + man/pof_hv_switchgear_distribution.Rd | 26 man/pof_hv_switchgear_primary.Rd | 26 man/pof_lv_switchgear_and_other.Rd | 4 man/pof_lv_ugb.Rd | 4 man/pof_meter.Rd | 27 man/pof_ohl_cond_132_66_33kv.Rd | 17 man/pof_poles.Rd | 23 man/pof_submarine_cables.Rd | 20 man/pof_switchgear_primary_10kv.Rd | 29 man/pof_switchgear_secondary_10kV.Rd | 27 man/pof_tower_ohl_support_50kv.Rd | 26 man/pof_towers.Rd | 4 man/pof_transformer_04_10kv.Rd | 19 man/pof_transformer_11_20kv.Rd | 3 man/pof_transformer_132kv.Rd | 3 man/pof_transformer_30_60kv.Rd | 45 + man/pof_transformer_33_66kv.Rd | 41 + tests/testthat/test-future_transformer_04_10kv.R |only tests/testthat/test-future_transformer_132kv.R | 5 tests/testthat/test-future_transformer_30_60kv.R |only tests/testthat/test-pof_132kv_cb.R | 2 tests/testthat/test-pof_board_04kv.R |only tests/testthat/test-pof_building.R |only tests/testthat/test-pof_cables_04kv_pex.R |only tests/testthat/test-pof_cables_10kv_oil.R |only tests/testthat/test-pof_cables_10kv_pex.R |only tests/testthat/test-pof_cables_132kv.R | 7 tests/testthat/test-pof_cables_60_30kv.R |only tests/testthat/test-pof_cables_66_33kv.R | 5 tests/testthat/test-pof_ehv_fittings.R | 6 tests/testthat/test-pof_ehv_switchgear.R | 4 tests/testthat/test-pof_future_board_04kv.R |only tests/testthat/test-pof_future_building.R |only tests/testthat/test-pof_future_cables_04kv_pex.R |only tests/testthat/test-pof_future_cables_10kv_oil.R |only tests/testthat/test-pof_future_cables_10kv_pex.R |only tests/testthat/test-pof_future_cables_132kv.R | 5 tests/testthat/test-pof_future_cables_60_30.R |only tests/testthat/test-pof_future_cables_u66kv.R | 27 tests/testthat/test-pof_future_hl_cond_50kv.R |only tests/testthat/test-pof_future_hv_poles.R |only tests/testthat/test-pof_future_meter.R |only tests/testthat/test-pof_future_ohl_cond_132_66_33kv.R | 6 tests/testthat/test-pof_future_ohl_fittings_50kv.R |only tests/testthat/test-pof_future_pillar_04kv.R |only tests/testthat/test-pof_future_poles_ohl_support_50kv.R |only tests/testthat/test-pof_future_relay.R |only tests/testthat/test-pof_future_rtu.R |only tests/testthat/test-pof_future_serviceline.R |only tests/testthat/test-pof_future_submarine_cables.R | 6 tests/testthat/test-pof_future_submarine_cables_10kv_oil.R |only tests/testthat/test-pof_future_submarine_cables_10kv_pex.R |only tests/testthat/test-pof_future_submarine_cables_30_60_kv_oil.R |only tests/testthat/test-pof_future_submarine_cables_30_60kv_pex.R |only tests/testthat/test-pof_future_switchgear_30_60kv.R |only tests/testthat/test-pof_future_switchgear_primary_10kv.R |only tests/testthat/test-pof_future_switchgear_secondary_10kv.R |only tests/testthat/test-pof_future_transformer_11_20kv.R | 5 tests/testthat/test-pof_future_transformer_33_66kv.R | 5 tests/testthat/test-pof_hv_poles.R | 10 tests/testthat/test-pof_hv_switchgear_distribution.R | 2 tests/testthat/test-pof_hv_switchgear_primary.R | 2 tests/testthat/test-pof_lv_switchgear_and_other.R | 12 tests/testthat/test-pof_lv_ugb.R | 4 tests/testthat/test-pof_meter.R |only tests/testthat/test-pof_ohl_cond_132_66_33kv.R | 7 tests/testthat/test-pof_submarine_cables.R | 6 tests/testthat/test-pof_switchgear_primary_10kv.R |only tests/testthat/test-pof_switchgear_secondary_10kv.R |only tests/testthat/test-pof_tower_ohl_support_50kv.R |only tests/testthat/test-pof_towers.R | 4 tests/testthat/test-pof_transformer_04_10kv.R |only tests/testthat/test-pof_transformer_11_20kv.R | 8 tests/testthat/test-pof_transformer_132kv.R | 10 tests/testthat/test-pof_transformer_30_60kv.R |only tests/testthat/test-pof_transformer_33_66kv.R | 9 212 files changed, 2652 insertions(+), 1587 deletions(-)
Title: Different Models of Posterior Distributions of Adjusted Odds
Ratio
Description: Generates different posterior distributions of adjusted odds ratio under different priors of sensitivity and specificity, and plots the models for comparison. It also provides estimations for the specifications of the models using diagnostics of exposure status with a non-linear mixed effects model. It implements the methods that are first proposed in <doi:10.1016/j.annepidem.2006.04.001> and <doi:10.1177/0272989X09353452>.
Author: Jinhui Yang, Haitao Chu, and Lifeng Lin
Maintainer: Jinhui Yang <james.yangjinhui@gmail.com>
Diff between BayesSenMC versions 0.1.4 dated 2021-10-05 and 0.1.5 dated 2022-08-06
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/models.R | 22 +++++++++++----------- man/correctedOR.Rd | 4 ++-- man/crudeOR.Rd | 4 ++-- man/diffOR.Rd | 2 +- man/fixedCorrOR.Rd | 4 ++-- man/logitOR.Rd | 4 ++-- man/randCorrOR.Rd | 4 ++-- 9 files changed, 33 insertions(+), 33 deletions(-)
Title: Bayesian Additive Regression Trees for Confounder Selection
Description: Fit Bayesian Regression Additive Trees (BART) models to
select relevant confounders among a large set of potential confounders
and to estimate average treatment effect. For more information, see
Kim et al. (2022) <doi:10.48550/arXiv.2203.11798>.
Author: Yeonghoon Yoo [aut, cre]
Maintainer: Yeonghoon Yoo <yooyh.stat@gmail.com>
Diff between bartcs versions 0.1.1 dated 2022-07-19 and 0.1.2 dated 2022-08-06
DESCRIPTION | 8 +++--- MD5 | 22 ++++++++-------- NEWS.md | 6 +++- inst/doc/bartcs.html | 54 ++++++++++++++++++++--------------------- src/BartTree.cpp | 52 +++++++++++++++++++++++++++++---------- src/BartTree.h | 1 src/BartTree_change.cpp | 8 ++++-- src/BartTree_drawLeafValue.cpp | 16 +++++++++--- src/BartTree_grow.cpp | 10 +++++-- src/BartTree_predict.cpp | 8 ++++-- src/BartTree_prune.cpp | 8 ++++-- src/BartTree_update.cpp | 2 - 12 files changed, 124 insertions(+), 71 deletions(-)
Title: Rendering Font into 'data.frame'
Description: Extract glyph information from font data, and translate the
outline curves to flattened paths or tessellated polygons. The converted
data is returned as a 'data.frame' in easy-to-plot format.
Author: Hiroaki Yutani [aut, cre] ,
The authors of the dependency Rust crates [ctb]
Maintainer: Hiroaki Yutani <yutani.ini@gmail.com>
Diff between string2path versions 0.1.0 dated 2022-07-17 and 0.1.1 dated 2022-08-06
string2path-0.1.0/string2path/README.md |only string2path-0.1.0/string2path/man/figures |only string2path-0.1.0/string2path/src/Makevars.win |only string2path-0.1.1/string2path/DESCRIPTION | 39 +++--- string2path-0.1.1/string2path/LICENSE | 4 string2path-0.1.1/string2path/LICENSE.note |only string2path-0.1.1/string2path/MD5 | 42 ++---- string2path-0.1.1/string2path/NEWS.md | 9 + string2path-0.1.1/string2path/R/main.R | 41 ++++-- string2path-0.1.1/string2path/configure | 4 string2path-0.1.1/string2path/configure.win | 4 string2path-0.1.1/string2path/inst |only string2path-0.1.1/string2path/man/string2path.Rd | 44 +++--- string2path-0.1.1/string2path/src/Makevars.in | 17 ++ string2path-0.1.1/string2path/src/Makevars.ucrt | 2 string2path-0.1.1/string2path/src/Makevars.win.in | 29 +++- string2path-0.1.1/string2path/src/cargo_vendor_config.toml |only string2path-0.1.1/string2path/src/rust/Cargo.lock | 64 ++-------- string2path-0.1.1/string2path/src/rust/Cargo.toml | 2 string2path-0.1.1/string2path/src/rust/vendor.sh |only string2path-0.1.1/string2path/src/rust/vendor.tar.xz |only string2path-0.1.1/string2path/tests/testthat/_snaps/snapshot.md | 3 string2path-0.1.1/string2path/tools/print_r_version.R |only 23 files changed, 171 insertions(+), 133 deletions(-)
Title: Time Series Analysis Using the Innovations Algorithm
Description: Provides functions for modeling and forecasting time series data. Forecasting is based on the innovations algorithm. A description of the innovations algorithm can be found in the textbook "Introduction to Time Series and Forecasting" by Peter J. Brockwell and Richard A. Davis. <https://link.springer.com/book/10.1007/b97391>.
Author: George Weigt
Maintainer: George Weigt <g808391@icloud.com>
Diff between itsmr versions 1.9 dated 2018-09-10 and 1.10 dated 2022-08-06
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- R/itsmr.R | 2 +- man/itsmr-package.Rd | 6 +++--- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Semi-Parametric Joint Modeling of Longitudinal and Survival Data
Description: Maximum likelihood estimation for the semi-parametric joint modeling of competing risks and longitudinal data
applying customized linear scan algorithms, proposed by Li and colleagues (2022) <doi:10.1155/2022/1362913>. The time-to-event data is
modelled using a (cause-specific) Cox proportional hazards regression model with time-fixed covariates. The longitudinal
outcome is modelled using a linear mixed effects model. The association is captured by shared random effects. The model
is estimated using an Expectation Maximization algorithm.
Author: Shanpeng Li [aut, cre],
Ning Li [ctb],
Hong Wang [ctb],
Jin Zhou [ctb],
Hua Zhou [ctb],
Gang Li [ctb]
Maintainer: Shanpeng Li <lishanpeng0913@ucla.edu>
Diff between FastJM versions 1.1.3 dated 2022-06-01 and 1.2.0 dated 2022-08-06
DESCRIPTION | 12 MD5 | 51 ++- NAMESPACE | 6 NEWS.md | 4 R/CIF1.CR.R | 14 R/CIF2.CR.R | 11 R/FastJM.R | 4 R/GetGHmatrix.R |only R/GetVarSurvfit.R |only R/Getinit.R | 14 R/RcppExports.R | 12 R/getdummy.R | 2 R/jmcs.R | 78 ----- R/plot.survfitjmcs.R | 146 +++++----- R/print.survfitjmcs.R | 11 R/summary.jmcs.R |only R/survfitjmcs.R | 448 +++++++++++++++++-------------- R/vcov.jmcs.R | 3 README.md | 87 ++---- inst/WORDLIST | 6 man/figures/README-unnamed-chunk-4-1.png |binary man/jmcs.Rd | 5 man/plot.survfitjmcs.Rd | 7 man/summary.Rd |only man/survfitjmcs.Rd | 11 src/GetBreslowInit.cpp |only src/RcppExports.cpp | 67 ++++ src/getECpseudo.cpp | 6 src/getEWsik.cpp |only src/updateH0.cpp |only 30 files changed, 570 insertions(+), 435 deletions(-)
Title: Estimation and Additional Tools for Alternative Shared Frailty
Models
Description: Provide estimation and data generation tools for some new multivariate frailty models.
This version includes the gamma, inverse Gaussian and weighted Lindley as the distribution
for the frailty terms.
For the basal model, it is considered a parametric approach based on the Weibull distribution
and a semiparametric approach. For details, see Gallardo and Bourguignon (2022)
<arXiv:2206.12973>.
Author: Diego Gallardo [aut, cre],
Marcelo Bourguignon [aut]
Maintainer: Diego Gallardo <diego.gallardo@uda.cl>
Diff between extrafrail versions 1.0 dated 2022-06-30 and 1.1 dated 2022-08-06
extrafrail-1.0/extrafrail/R/frailtyWL.R |only extrafrail-1.0/extrafrail/man/frailtyWL.Rd |only extrafrail-1.1/extrafrail/DESCRIPTION | 17 +++++++------ extrafrail-1.1/extrafrail/INDEX |only extrafrail-1.1/extrafrail/MD5 | 18 ++++++++------ extrafrail-1.1/extrafrail/NAMESPACE | 3 +- extrafrail-1.1/extrafrail/NEWS.md |only extrafrail-1.1/extrafrail/R/frailty.fit.R |only extrafrail-1.1/extrafrail/R/print.extrafrail.R | 27 +++++++++++++++++++--- extrafrail-1.1/extrafrail/R/summary.extrafrail.R | 27 +++++++++++++++++++--- extrafrail-1.1/extrafrail/man/baseCH.Rd | 7 +++-- extrafrail-1.1/extrafrail/man/frailty.fit.Rd |only extrafrail-1.1/extrafrail/man/tools.extrafrail.Rd | 6 +++- 13 files changed, 77 insertions(+), 28 deletions(-)
Title: Tools for Gaussian Process Modeling in Uncertainty
Quantification
Description: Gaussian processes (GPs) have been widely used to model spatial data, spatio-temporal data, and computer experiments in diverse areas of statistics including spatial statistics, spatio-temporal statistics, uncertainty quantification, and machine learning. This package creates basic tools for fitting and prediction based on GPs with spatial data, spatio-temporal data, and computer experiments. Key characteristics for this GP tool include: (1) the comprehensive implementation of various covariance functions including the Matérn family and the Confluent Hypergeometric family with isotropic form, tensor form, and automatic relevance determination form, where the isotropic form is widely used in spatial statistics, the tensor form is widely used in design and analysis of computer experiments and uncertainty quantification, and the automatic relevance determination form is widely used in machine learning; (2) implementations via Markov chain Monte Carlo (MCMC) algorithms and optimization algorithms for GP models with all the implemented covariance functions. The methods for fitting and prediction are mainly implemented in a Bayesian framework; (3) model evaluation via Fisher information and predictive metrics such as predictive scores; (4) built-in functionality for simulating GPs with all the implemented covariance functions; (5) unified implementation to allow easy specification of various GPs.
Author: Pulong Ma [aut, cre]
Maintainer: Pulong Ma <mpulong@gmail.com>
Diff between GPBayes versions 0.1.0-3 dated 2021-12-03 and 0.1.0-4 dated 2022-08-06
DESCRIPTION | 9 ++--- MD5 | 14 ++++---- R/GaSPUtils.R | 4 +- configure | 20 +++++------ inst/NEWS.Rd | 7 ++++ man/gp.fisher.Rd | 2 - man/gp.model.adequacy.Rd | 2 - src/utils.cpp | 81 +++++++++++++++++++++++++++++------------------ 8 files changed, 84 insertions(+), 55 deletions(-)
Title: Bioequivalence Study Data Analysis
Description: Analyze bioequivalence study data with industrial strength. Sample size could be determined for various crossover designs, such as 2x2 design, 2x4 design, 4x4 design, Balaam design, Two-sequence dual design, and William design.
Reference: Chow SC, Liu JP. Design and Analysis of Bioavailability and Bioequivalence Studies. 3rd ed. (2009, ISBN:978-1-58488-668-6).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between BE versions 0.2.1 dated 2022-05-10 and 0.2.2 dated 2022-08-06
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/pow2x2mse.R | 2 +- R/powmse.R | 6 +++--- R/ssmse.R | 2 +- inst/NEWS.Rd | 6 ++++++ inst/doc/BE-manual.pdf |binary 7 files changed, 20 insertions(+), 14 deletions(-)