Title: Multi-Context Colocalization Analysis for QTL and GWAS Studies
Description: A multi-task learning approach to variable selection regression with highly correlated predictors and sparse effects,
based on frequentist statistical inference. It provides statistical evidence to identify which subsets of predictors have non-zero
effects on which subsets of response variables, motivated and designed for colocalization analysis across genome-wide association studies (GWAS)
and quantitative trait loci (QTL) studies.
The ColocBoost model is described in Cao et. al. (2025) <doi:10.1101/2025.04.17.25326042>.
Author: Xuewei Cao [cre, aut, cph],
Haochen Sun [aut, cph],
Ru Feng [aut, cph],
Daniel Nachun [aut, cph],
Kushal Dey [aut, cph],
Gao Wang [aut, cph]
Maintainer: Xuewei Cao <xc2270@cumc.columbia.edu>
Diff between colocboost versions 1.0.5 dated 2025-09-08 and 1.0.6 dated 2025-09-09
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/colocboost_check_update_jk.R | 11 +++++++---- R/colocboost_inference.R | 8 ++++---- R/colocboost_init.R | 2 +- R/colocboost_update.R | 8 ++++---- inst/doc/Individual_Level_Colocalization.html | 8 ++++---- 7 files changed, 29 insertions(+), 26 deletions(-)
Title: Use Open Data from the Czech Statistical Office in R
Description: Get programmatic access to the open data provided by the
Czech Statistical Office (CZSO, <https://csu.gov.cz>).
Author: Petr Bouchal [aut, cre] ,
Jindra Lacko [ctb]
Maintainer: Petr Bouchal <pbouchal@gmail.com>
This is a re-admission after prior archival of version 0.4.2 dated 2025-06-21
Diff between czso versions 0.4.2 dated 2025-06-21 and 0.4.3 dated 2025-09-09
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NEWS.md | 7 ++++++- man/czso-package.Rd | 2 +- 4 files changed, 15 insertions(+), 10 deletions(-)
Title: Transforms Institutional Data into Text Files for IPEDS
Automated Import/Upload
Description: Starting from user-supplied institutional data, these scripts
transform, aggregate, and reshape the information to produce
key-value pair data files that are able to be uploaded to IPEDS (Integrated Postsecondary Education Data System)
through their submission portal <https://surveys.nces.ed.gov/ipeds/>. Starting data specifications can be found in the vignettes.
Final files are saved locally to a location of the user's choice.
User-friendly readable files can also be produced for purposes of data review and validation.
Author: Alison Lanski [aut, cre],
Shiloh Fling [aut]
Maintainer: Alison Lanski <alanski@nd.edu>
Diff between IPEDSuploadables versions 2.10.0 dated 2024-12-08 and 2.11.0 dated 2025-09-09
DESCRIPTION | 6 MD5 | 72 +++++------ NEWS.md | 4 R/make_com_part_A.R | 1 R/make_com_part_C.R | 1 R/make_com_part_D.R | 1 R/make_com_part_E.R | 172 ++++++++++----------------- R/make_e1d_part_D.R | 163 +++++++++---------------- R/make_ef1_part_A.R | 1 R/make_ef1_part_B.R | 1 R/make_ef1_part_H.R | 164 +++++++++---------------- R/make_gr_part_E.R | 7 - R/produce_com_report.R | 37 ++++- R/produce_e1d_report.R | 38 ++++- R/produce_ef1_report.R | 32 +++-- R/zzz.R | 2 README.md | 14 +- data/part_outputs.rda |binary data/specs_COM.rda |binary data/specs_E1D.rda |binary data/specs_EF1.rda |binary inst/doc/howto_overall_ipedsuploadables.R | 5 inst/doc/howto_overall_ipedsuploadables.Rmd | 21 +-- inst/doc/howto_overall_ipedsuploadables.html | 58 ++++----- inst/doc/howto_use_autoformat.html | 2 inst/doc/setup_for_12monthenrollment.html | 4 inst/doc/setup_for_completions.html | 4 inst/doc/setup_for_fallenrollment.html | 4 man/make_com_part_E.Rd | 18 ++ man/make_e1d_part_D.Rd | 16 +- man/make_ef1_part_H.Rd | 24 ++- man/make_gr_part_E.Rd | 7 - man/produce_com_report.Rd | 16 +- man/produce_e1d_report.Rd | 18 +- man/produce_ef1_report.Rd | 14 +- tests/testthat/test-part-outputs.R | 73 +++++++++-- vignettes/howto_overall_ipedsuploadables.Rmd | 21 +-- 37 files changed, 526 insertions(+), 495 deletions(-)
More information about IPEDSuploadables at CRAN
Permanent link
Title: Wrapper Functions for 'FSL' ('FMRIB' Software Library) from
Functional MRI of the Brain ('FMRIB')
Description: Wrapper functions that interface with 'FSL'
<http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging'
software, using system commands. The goal is to be able to interface with 'FSL'
completely in R, where you pass R objects of class 'nifti', implemented by
package 'oro.nifti', and the function executes an 'FSL' command and returns an R
object of class 'nifti' if desired.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between fslr versions 2.25.3 dated 2024-05-10 and 2.27.0 dated 2025-09-09
DESCRIPTION | 11 - MD5 | 306 ++++++++++++++++++++--------------------- NAMESPACE | 1 NEWS.md | 4 R/applytopup.R | 2 R/applywarp.R | 4 R/convert_xfm.R | 2 R/dim_.R | 2 R/download_fsl.R | 2 R/enforce_form.R | 2 R/epi_reg.R | 4 R/face_removal_mask.R | 2 R/fast.R | 10 - R/flirt_apply.R | 4 R/fnirt.R | 12 - R/fsl_anat.R | 2 R/fsl_cluster.R | 4 R/fsl_deface.R | 4 R/fsl_dice.R | 2 R/fsl_read_xfm.R | 2 R/fsl_resample.R | 2 R/fsl_slicetimer.R | 4 R/fslabs.R | 4 R/fslacos.R | 4 R/fsladd.R | 4 R/fsland.R | 2 R/fslasin.R | 4 R/fslatan.R | 4 R/fslbin.R | 4 R/fslbinv.R | 4 R/fslchfiletype.R | 4 R/fslcos.R | 4 R/fslcpgeom.R | 6 R/fsldilate.R | 6 R/fsldiv.R | 4 R/fsledge.R | 4 R/fslexp.R | 4 R/fslfill2.R | 4 R/fslhd.R | 70 ++++----- R/fslindex.R | 4 R/fsllog.R | 4 R/fslmin_max.R | 2 R/fslmul.R | 4 R/fslnan.R | 4 R/fslnanm.R | 4 R/fslor.R | 4 R/fslrand.R | 4 R/fslrandn.R | 4 R/fslrecip.R | 4 R/fslrem.R | 4 R/fslrobustfov.R | 4 R/fslroi.R | 6 R/fslsin.R | 4 R/fslsplit.R | 2 R/fslsqr.R | 4 R/fslsqrt.R | 4 R/fslsub.R | 4 R/fsltan.R | 4 R/fslview.R | 11 - R/fslvol.R | 2 R/fslxor.R | 4 R/import_methods.R | 2 R/mcflirt.R | 4 R/mid_sagittal_align.R | 97 ++++++++++-- R/mni_fname.R | 4 R/pixdim.R | 2 R/probtrackx.R | 2 R/readrpi.R | 6 R/rpi_orient.R | 2 R/susan.R | 4 R/topup.R | 2 R/zzz.R | 2 build/vignette.rds |binary inst/doc/dti_data.R | 8 - inst/doc/dti_data.Rmd | 4 inst/doc/dti_data.html | 21 +- inst/doc/fslr.html | 5 man/check_file.Rd | 2 man/fast.Rd | 4 man/flirt.Rd | 4 man/flirt_apply.Rd | 4 man/fnirt.Rd | 4 man/fnirt_with_affine.Rd | 4 man/fnirt_with_affine_apply.Rd | 4 man/fsl_anat.Rd | 2 man/fsl_applywarp.Rd | 4 man/fsl_biascorrect.Rd | 4 man/fsl_cluster.Rd | 2 man/fsl_deface.Rd | 2 man/fsl_resample.Rd | 2 man/fslabs.Rd | 4 man/fslacos.Rd | 4 man/fsladd.Rd | 4 man/fslasin.Rd | 4 man/fslatan.Rd | 4 man/fslbet.Rd | 4 man/fslbin.Rd | 4 man/fslbinv.Rd | 4 man/fslchfiletype.Rd | 4 man/fslcmd.Rd | 4 man/fslcos.Rd | 4 man/fslcpgeom.Rd | 4 man/fsldilate.Rd | 4 man/fsldiv.Rd | 4 man/fsledge.Rd | 4 man/fslepi_reg.Rd | 4 man/fslerode.Rd | 4 man/fslexp.Rd | 4 man/fslfill.Rd | 4 man/fslfill2.Rd | 4 man/fslhd.Rd | 2 man/fslindex.Rd | 4 man/fsllog.Rd | 4 man/fslmask.Rd | 4 man/fslmaths.Rd | 4 man/fslmerge.Rd | 4 man/fslmul.Rd | 4 man/fslnan.Rd | 4 man/fslnanm.Rd | 4 man/fslor.Rd | 4 man/fslorient.Rd | 4 man/fslrand.Rd | 4 man/fslrandn.Rd | 4 man/fslrange.Rd | 2 man/fslrecip.Rd | 4 man/fslrem.Rd | 4 man/fslreorient2std.Rd | 4 man/fslrobustfov.Rd | 4 man/fslroi.Rd | 4 man/fslsin.Rd | 4 man/fslslicetimer.Rd | 4 man/fslsmooth.Rd | 4 man/fslsplit.Rd | 2 man/fslsqr.Rd | 4 man/fslsqrt.Rd | 4 man/fslstats.Rd | 2 man/fslsub.Rd | 4 man/fslsub2.Rd | 4 man/fslswapdim.Rd | 4 man/fsltan.Rd | 4 man/fslthresh.Rd | 4 man/fslval.Rd | 2 man/fslview.Rd | 4 man/fslview.help.Rd | 2 man/fslvol.Rd | 2 man/fslxor.Rd | 4 man/getForms.Rd | 2 man/mcflirt.Rd | 4 man/melodic.Rd | 2 man/mid_sagittal_align.Rd | 35 +++- man/mni_img.Rd | 2 man/readrpi.Rd | 4 man/susan.Rd | 2 vignettes/dti_data.Rmd | 4 154 files changed, 593 insertions(+), 494 deletions(-)
Title: Dithionite Scramblase Assay Analysis
Description: The lipid scrambling activity of protein extracts and purified
scramblases is often determined using a fluorescence-based assay involving
many manual steps. flippant offers an integrated solution for the analysis
and publication-grade graphical presentation of dithionite scramblase
assays, as well as a platform for review, dissemination and extension of the
strategies it employs. The package's name derives from a play on the fact
that lipid scrambling is also sometimes referred to as 'flipping'.
The package is originally published as Cotton, R.J., Ploier, B., Goren,
M.A., Menon, A.K., and Graumann, J. (2017). "flippant–An R package for the
automated analysis of fluorescence-based scramblase assays." BMC
Bioinformatics 18, 146. <DOI:10.1186/s12859-017-1542-y>.
Author: Johannes Graumann [cre, aut],
Richard Cotton [aut]
Maintainer: Johannes Graumann <johannes.graumann@uni-marburg.de>
Diff between flippant versions 1.5.5 dated 2024-04-09 and 1.5.7 dated 2025-09-09
DESCRIPTION | 8 ++--- MD5 | 10 +++---- R/flippant-package.R | 3 -- R/scramblase_assay_plot.R | 59 ++++++++++++++++++++++--------------------- man/flippant.Rd | 1 man/scramblase_assay_plot.Rd | 59 ++++++++++++++++++++++--------------------- 6 files changed, 73 insertions(+), 67 deletions(-)
Title: Perform Batch Balanced KNN in R
Description: A fast and intuitive batch effect removal tool for single-cell data. BBKNN is originally used in the 'scanpy' python package, and now can be used with 'Seurat' seamlessly.
Author: Yuchen Li [aut, cre]
Maintainer: Yuchen Li <ycli1995@outlook.com>
Diff between bbknnR versions 2.0.1 dated 2025-06-05 and 2.0.2 dated 2025-09-09
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/bbknn.R | 4 ++-- README.md | 3 +++ data/panc8_small.rda |binary inst/doc/bbknnR-tutorial.html | 8 ++++---- 6 files changed, 18 insertions(+), 15 deletions(-)
More information about RobustAdaptiveDecomposition at CRAN
Permanent link
Title: Access College Football Play by Play Data
Description: A utility to quickly obtain clean and tidy college football
data. Serves as a wrapper around the
<https://collegefootballdata.com/> API and provides functions to
access live play by play and box score data from ESPN
<https://www.espn.com> when available. It provides users the
capability to access a plethora of endpoints, and supplement that data
with additional information (Expected Points Added/Win Probability
added).
Author: Saiem Gilani [cre, aut],
Akshay Easwaran [aut],
Jared Lee [aut],
Eric Hess [aut],
Michael Egle [ctb],
Nate Manzo [ctb],
Jason DeLoach [ctb],
Tej Seth [ctb],
Conor McQuiston [ctb],
Tan Ho [ctb],
Keegan Abdoo [ctb],
Matt Spencer [ctb],
Sebastian Carl [ [...truncated...]
Maintainer: Saiem Gilani <saiem.gilani@gmail.com>
This is a re-admission after prior archival of version 1.9.0 dated 2022-06-13
Diff between cfbfastR versions 1.9.0 dated 2022-06-13 and 2.0.0 dated 2025-09-09
cfbfastR-1.9.0/cfbfastR/R/cfb_pbp.R |only cfbfastR-1.9.0/cfbfastR/inst |only cfbfastR-2.0.0/cfbfastR/DESCRIPTION | 26 cfbfastR-2.0.0/cfbfastR/MD5 | 349 +-- cfbfastR-2.0.0/cfbfastR/NAMESPACE | 18 cfbfastR-2.0.0/cfbfastR/NEWS.md | 102 cfbfastR-2.0.0/cfbfastR/R/cfbd_api_key.R | 79 cfbfastR-2.0.0/cfbfastR/R/cfbd_betting.R | 123 - cfbfastR-2.0.0/cfbfastR/R/cfbd_coaches.R | 77 cfbfastR-2.0.0/cfbfastR/R/cfbd_conferences.R | 23 cfbfastR-2.0.0/cfbfastR/R/cfbd_draft.R | 114 cfbfastR-2.0.0/cfbfastR/R/cfbd_drives.R | 142 - cfbfastR-2.0.0/cfbfastR/R/cfbd_games.R | 1095 +++++---- cfbfastR-2.0.0/cfbfastR/R/cfbd_metrics.R | 969 +++++--- cfbfastR-2.0.0/cfbfastR/R/cfbd_pbp_data.R | 1147 +++++----- cfbfastR-2.0.0/cfbfastR/R/cfbd_play.R | 808 +++++-- cfbfastR-2.0.0/cfbfastR/R/cfbd_players.R | 264 -- cfbfastR-2.0.0/cfbfastR/R/cfbd_ratings.R | 608 ++--- cfbfastR-2.0.0/cfbfastR/R/cfbd_recruiting.R | 242 -- cfbfastR-2.0.0/cfbfastR/R/cfbd_stats.R | 517 +--- cfbfastR-2.0.0/cfbfastR/R/cfbd_teams.R | 351 +-- cfbfastR-2.0.0/cfbfastR/R/cfbd_venues.R | 25 cfbfastR-2.0.0/cfbfastR/R/cfbfastR-package.R | 18 cfbfastR-2.0.0/cfbfastR/R/create_epa.R | 219 + cfbfastR-2.0.0/cfbfastR/R/create_wpa_naive.R | 2 cfbfastR-2.0.0/cfbfastR/R/espn_cfb_pbp.R | 99 cfbfastR-2.0.0/cfbfastR/R/espn_cfb_player_stats.R |only cfbfastR-2.0.0/cfbfastR/R/espn_cfb_team_stats.R | 665 +++-- cfbfastR-2.0.0/cfbfastR/R/espn_metrics_wp.R | 39 cfbfastR-2.0.0/cfbfastR/R/espn_ratings_fpi.R | 78 cfbfastR-2.0.0/cfbfastR/R/espn_scoreboard.R | 193 + cfbfastR-2.0.0/cfbfastR/R/helper_pbp_add_player_cols.R | 40 cfbfastR-2.0.0/cfbfastR/R/helper_pbp_add_yardage.R | 13 cfbfastR-2.0.0/cfbfastR/R/helper_pbp_penalty_detection.R | 2 cfbfastR-2.0.0/cfbfastR/R/load_cfb.R | 54 cfbfastR-2.0.0/cfbfastR/R/load_cfb_pbp.R |only cfbfastR-2.0.0/cfbfastR/R/utils.R | 114 cfbfastR-2.0.0/cfbfastR/README.md | 179 - cfbfastR-2.0.0/cfbfastR/man/cfbd_betting_lines.Rd | 9 cfbfastR-2.0.0/cfbfastR/man/cfbd_calendar.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/cfbd_coaches.Rd | 1 cfbfastR-2.0.0/cfbfastR/man/cfbd_conferences.Rd | 1 cfbfastR-2.0.0/cfbfastR/man/cfbd_draft.Rd | 76 cfbfastR-2.0.0/cfbfastR/man/cfbd_draft_picks.Rd | 7 cfbfastR-2.0.0/cfbfastR/man/cfbd_draft_positions.Rd | 6 cfbfastR-2.0.0/cfbfastR/man/cfbd_draft_teams.Rd | 6 cfbfastR-2.0.0/cfbfastR/man/cfbd_drives.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_box_advanced.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_info.Rd | 19 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_media.Rd | 19 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_player_stats.Rd | 110 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_records.Rd | 28 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_team_stats.Rd | 30 cfbfastR-2.0.0/cfbfastR/man/cfbd_game_weather.Rd | 14 cfbfastR-2.0.0/cfbfastR/man/cfbd_games.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/cfbd_live_plays.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_live_scoreboard.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics.Rd | 35 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_fg_ep.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_ppa_games.Rd | 19 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_ppa_players_games.Rd | 25 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_ppa_players_season.Rd | 23 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_ppa_predicted.Rd | 15 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_ppa_teams.Rd | 19 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wepa_players_kicking.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wepa_players_passing.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wepa_players_rushing.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wepa_team_season.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wp.Rd | 15 cfbfastR-2.0.0/cfbfastR/man/cfbd_metrics_wp_pregame.Rd | 19 cfbfastR-2.0.0/cfbfastR/man/cfbd_pbp_data.Rd | 734 +++--- cfbfastR-2.0.0/cfbfastR/man/cfbd_play.Rd | 134 - cfbfastR-2.0.0/cfbfastR/man/cfbd_play_stats_player.Rd | 26 cfbfastR-2.0.0/cfbfastR/man/cfbd_play_stats_types.Rd | 11 cfbfastR-2.0.0/cfbfastR/man/cfbd_play_types.Rd | 9 cfbfastR-2.0.0/cfbfastR/man/cfbd_player_info.Rd | 6 cfbfastR-2.0.0/cfbfastR/man/cfbd_player_returning.Rd | 14 cfbfastR-2.0.0/cfbfastR/man/cfbd_player_usage.Rd | 10 cfbfastR-2.0.0/cfbfastR/man/cfbd_players.Rd | 68 cfbfastR-2.0.0/cfbfastR/man/cfbd_plays.Rd | 22 cfbfastR-2.0.0/cfbfastR/man/cfbd_rankings.Rd | 35 cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings_elo.Rd | 35 cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings_fpi.Rd |only cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings_sp.Rd | 75 cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings_sp_conference.Rd | 10 cfbfastR-2.0.0/cfbfastR/man/cfbd_ratings_srs.Rd | 13 cfbfastR-2.0.0/cfbfastR/man/cfbd_recruiting.Rd | 128 - cfbfastR-2.0.0/cfbfastR/man/cfbd_recruiting_player.Rd | 11 cfbfastR-2.0.0/cfbfastR/man/cfbd_recruiting_position.Rd | 7 cfbfastR-2.0.0/cfbfastR/man/cfbd_recruiting_team.Rd | 11 cfbfastR-2.0.0/cfbfastR/man/cfbd_recruiting_transfer_portal.Rd | 7 cfbfastR-2.0.0/cfbfastR/man/cfbd_stats.Rd | 118 - cfbfastR-2.0.0/cfbfastR/man/cfbd_stats_categories.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/cfbd_stats_game_advanced.Rd | 11 cfbfastR-2.0.0/cfbfastR/man/cfbd_stats_season_advanced.Rd | 10 cfbfastR-2.0.0/cfbfastR/man/cfbd_stats_season_player.Rd | 16 cfbfastR-2.0.0/cfbfastR/man/cfbd_stats_season_team.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/cfbd_team_info.Rd | 20 cfbfastR-2.0.0/cfbfastR/man/cfbd_team_matchup.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/cfbd_team_matchup_records.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/cfbd_team_roster.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/cfbd_team_talent.Rd | 10 cfbfastR-2.0.0/cfbfastR/man/cfbd_teams.Rd | 140 - cfbfastR-2.0.0/cfbfastR/man/cfbd_venues.Rd | 4 cfbfastR-2.0.0/cfbfastR/man/cfbfastR-package.Rd | 2 cfbfastR-2.0.0/cfbfastR/man/create_epa.Rd | 11 cfbfastR-2.0.0/cfbfastR/man/csv_from_url.Rd | 30 cfbfastR-2.0.0/cfbfastR/man/data.Rd | 74 cfbfastR-2.0.0/cfbfastR/man/espn_cfb_calendar.Rd | 72 cfbfastR-2.0.0/cfbfastR/man/espn_cfb_pbp.Rd | 57 cfbfastR-2.0.0/cfbfastR/man/espn_cfb_player_stats.Rd |only cfbfastR-2.0.0/cfbfastR/man/espn_cfb_scoreboard.Rd | 40 cfbfastR-2.0.0/cfbfastR/man/espn_cfb_team_stats.Rd | 637 ++--- cfbfastR-2.0.0/cfbfastR/man/espn_metrics.Rd | 4 cfbfastR-2.0.0/cfbfastR/man/espn_ratings_fpi.Rd | 96 cfbfastR-2.0.0/cfbfastR/man/helpers_pbp.Rd | 10 cfbfastR-2.0.0/cfbfastR/man/load_cfb_pbp.Rd | 20 cfbfastR-2.0.0/cfbfastR/man/load_cfb_rosters.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/load_cfb_schedules.Rd | 12 cfbfastR-2.0.0/cfbfastR/man/load_cfb_teams.Rd | 8 cfbfastR-2.0.0/cfbfastR/man/rds_from_url.Rd | 5 cfbfastR-2.0.0/cfbfastR/man/register_cfbd.Rd | 18 cfbfastR-2.0.0/cfbfastR/man/update_cfb_db.Rd | 15 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_betting_lines.R | 13 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_calendar.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_coaches.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_conferences.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_draft_picks.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_draft_positions.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_draft_teams.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_drives.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_box_advanced.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_info.R | 41 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_media.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_player_stats.R | 70 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_records.R | 11 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_team_stats.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_game_weather.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_live_plays.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_live_scoreboard.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_fg_ep.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_ppa_games.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_ppa_players_games.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_ppa_players_season.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_ppa_predicted.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wepa_players_kicking.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wepa_players_passing.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wepa_players_rushing.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wepa_team_season.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wp.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_metrics_wp_pregame.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_pbp_data.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_play_stats_player.R | 90 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_play_stats_types.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_play_types.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_player_info.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_player_returning.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_player_usage.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_rankings.R | 14 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_ratings_elo.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_ratings_fpi.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_ratings_sp.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_ratings_sp_conf.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_ratings_srs.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_recruiting_player.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_recruiting_position.R | 8 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_recruiting_team.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_recruiting_transfer_portal.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_stats_categories.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_stats_game_advanced.R | 8 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_stats_season_advanced.R | 7 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_stats_season_player.R | 14 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_stats_season_team.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_team_info.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_team_matchup.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_team_matchup_records.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_team_roster.R | 6 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_team_talent.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-cfbd_venues.R | 7 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_cfb_calendar.R | 4 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_cfb_player_stats.R |only cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_cfb_schedule.R | 13 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_cfb_scoreboard.R | 16 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_cfb_team_stats.R | 72 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_metrics_wp.R | 2 cfbfastR-2.0.0/cfbfastR/tests/testthat/test-espn_ratings_fpi.R | 27 187 files changed, 7328 insertions(+), 5449 deletions(-)
Title: Robust and Sparse Correlation Matrix
Description: Performs robust and sparse correlation matrix estimation. Robustness is achieved based on a simple robust pairwise correlation estimator, while sparsity is obtained based on thresholding. The optimal thresholding is tuned via cross-validation. See Serra, Coretto, Fratello and Tagliaferri (2018) <doi:10.1093/bioinformatics/btx642>.
Author: Luca Coraggio [cre, aut],
Pietro Coretto [aut],
Angela Serra [aut],
Roberto Tagliaferri [ctb]
Maintainer: Luca Coraggio <luca.coraggio@unina.it>
Diff between RSC versions 2.0.4 dated 2023-04-17 and 2.0.5 dated 2025-09-09
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 7 +++++++ man/rmad.Rd | 4 ++-- man/rsc.Rd | 4 ++-- 5 files changed, 19 insertions(+), 12 deletions(-)
Title: Rcpp Bindings for Sequential Monte Carlo
Description: R access to the Sequential Monte Carlo Template Classes
by Johansen <doi:10.18637/jss.v030.i06> is provided. At present, four
additional examples have been added, and the first example from the JSS
paper has been extended. Further integration and extensions are planned.
Author: Dirk Eddelbuettel [aut, cre] ,
Adam M. Johansen [aut] ,
Leah F. South [aut] ,
Ilya Zarubin [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSMC versions 0.2.8 dated 2025-05-10 and 0.2.9 dated 2025-09-09
ChangeLog | 15 +++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- build/partial.rdb |binary data/radiata.rda |binary inst/NEWS.Rd | 8 ++++++++ inst/include/conditionalSampler.h | 4 ++-- src/Makevars | 4 +--- 8 files changed, 37 insertions(+), 16 deletions(-)
Title: Optimisation with Particle Swarm Optimisation
Description: A toolbox to create a particle swarm optimisation (PSO), the package contains two classes: the Particle and the Particle Swarm, this two class are used to run the PSO with methods to easily print, plot and save the result.
Author: Theo Brunet [aut, cre]
Maintainer: Theo Brunet <brunet.theo83140@gmail.com>
Diff between particle.swarm.optimisation versions 1.0 dated 2021-05-21 and 1.0.1 dated 2025-09-09
particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/DESCRIPTION | 11 particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/MD5 | 15 particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/NEWS.md |only particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/README.md |only particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/build/vignette.rds |binary particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/inst/doc/how-to-use-particule.swarm.optimisation.R | 2 particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/inst/doc/how-to-use-particule.swarm.optimisation.html | 431 ++-------- particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/man/Particle.Rd | 36 particle.swarm.optimisation-1.0.1/particle.swarm.optimisation/man/ParticleSwarm.Rd | 54 - particle.swarm.optimisation-1.0/particle.swarm.optimisation/README |only 10 files changed, 181 insertions(+), 368 deletions(-)
More information about particle.swarm.optimisation at CRAN
Permanent link
Title: Connect to the 'nettskjema.no' API of the University of Oslo
Description: Enables users to retrieve data, meta-data, and codebooks from
<https://nettskjema.no/>. The data from the API is richer than from
the online data portal. This package is not developed
by the University of Oslo IT. Mowinckel (2021) <doi:10.5281/zenodo.4745481>.
Author: Athanasia Mo Mowinckel [aut, cre] ,
Trym Nohr Fjoertoft [ctb]
Maintainer: Athanasia Mo Mowinckel <a.m.mowinckel@psykologi.uio.no>
Diff between nettskjemar versions 1.0.3 dated 2025-09-04 and 1.0.4 dated 2025-09-09
nettskjemar-1.0.3/nettskjemar/man/codebook.Rd |only nettskjemar-1.0.3/nettskjemar/man/get_raw_codebook.Rd |only nettskjemar-1.0.3/nettskjemar/tests/testthat/test-data_labels.R |only nettskjemar-1.0.3/nettskjemar/tests/testthat/test-ns_checkbox.R |only nettskjemar-1.0.3/nettskjemar/vignettes/_vcr/atch-atch.yml |only nettskjemar-1.0.4/nettskjemar/DESCRIPTION | 6 nettskjemar-1.0.4/nettskjemar/MD5 | 152 +- nettskjemar-1.0.4/nettskjemar/NAMESPACE | 5 nettskjemar-1.0.4/nettskjemar/NEWS.md | 6 nettskjemar-1.0.4/nettskjemar/R/nettskjemar-package.R | 3 nettskjemar-1.0.4/nettskjemar/R/ns-attachment.R | 8 nettskjemar-1.0.4/nettskjemar/R/ns-auth.R | 95 + nettskjemar-1.0.4/nettskjemar/R/ns-checkbox.R | 53 nettskjemar-1.0.4/nettskjemar/R/ns-codebook.R | 42 nettskjemar-1.0.4/nettskjemar/R/ns-data_labels.R | 27 nettskjemar-1.0.4/nettskjemar/R/ns-sitrep.R | 41 nettskjemar-1.0.4/nettskjemar/R/ns-submission.R | 17 nettskjemar-1.0.4/nettskjemar/R/utils.R | 15 nettskjemar-1.0.4/nettskjemar/README.md |only nettskjemar-1.0.4/nettskjemar/inst/WORDLIST | 9 nettskjemar-1.0.4/nettskjemar/inst/_vcr/find_checkbox_matrix.yml |only nettskjemar-1.0.4/nettskjemar/inst/_vcr/has_codebook.yml |only nettskjemar-1.0.4/nettskjemar/inst/_vcr/ns_add_labels.yml |only nettskjemar-1.0.4/nettskjemar/inst/_vcr/ns_alter_checkbox.yml |only nettskjemar-1.0.4/nettskjemar/inst/_vcr/ns_get_codebook.yml |only nettskjemar-1.0.4/nettskjemar/inst/_vcr/ns_get_raw_codebook.yml |only nettskjemar-1.0.4/nettskjemar/inst/doc/attachments.Rmd | 8 nettskjemar-1.0.4/nettskjemar/inst/doc/authentication.Rmd | 7 nettskjemar-1.0.4/nettskjemar/inst/doc/authentication.html | 13 nettskjemar-1.0.4/nettskjemar/inst/doc/custom_requests.R | 4 nettskjemar-1.0.4/nettskjemar/inst/doc/custom_requests.Rmd | 41 nettskjemar-1.0.4/nettskjemar/inst/doc/custom_requests.html | 662 +++++----- nettskjemar-1.0.4/nettskjemar/inst/doc/forms.html | 6 nettskjemar-1.0.4/nettskjemar/inst/doc/labelled_data.Rmd | 4 nettskjemar-1.0.4/nettskjemar/inst/doc/labelled_data.html | 2 nettskjemar-1.0.4/nettskjemar/inst/doc/metadata.html | 2 nettskjemar-1.0.4/nettskjemar/man/has_codebook.Rd | 9 nettskjemar-1.0.4/nettskjemar/man/ns_add_labels.Rd | 11 nettskjemar-1.0.4/nettskjemar/man/ns_alter_checkbox.Rd | 14 nettskjemar-1.0.4/nettskjemar/man/ns_client.Rd | 6 nettskjemar-1.0.4/nettskjemar/man/ns_get_codebook.Rd | 10 nettskjemar-1.0.4/nettskjemar/man/ns_get_token.Rd |only nettskjemar-1.0.4/nettskjemar/man/ns_validate_client_pattern.Rd |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_default.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_form_id_types.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_formid.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_invalid_form.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_large.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_long.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_no_body.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_data_type_comparison.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_form_reports_csv.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_form_reports_excel.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_form_reports_no_permission.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_form_reports_sav.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submission_invalid.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submission_pdf_default_path.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submission_pdf_invalid.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submission_pdf_valid.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submission_valid.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submissions_long.yml |only nettskjemar-1.0.4/nettskjemar/tests/_vcr/ns_get_submissions_original.yml |only nettskjemar-1.0.4/nettskjemar/tests/testthat/helpers.R | 5 nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-auth.R | 99 + nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-checkbox.R |only nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-codebook.R | 64 nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-data-labels.R |only nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-data.R |only nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-form.R | 66 nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-sitrep.R |only nettskjemar-1.0.4/nettskjemar/tests/testthat/test-ns-submission.R | 102 + nettskjemar-1.0.4/nettskjemar/tests/testthat/test-utils.R | 8 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/atch-all.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/atch-list.yml |only nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/auth-sitrep.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/cr-patch-err.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/cr-settings-change.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/cr-settings-check.yml | 15 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/cr-settings-reset.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/cr-settings.yml | 15 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/forms-head.yml | 11 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/forms-raw.yml | 11 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/forms-sitrep.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/lab-cb.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/lab-data.yml | 9 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/meta-meta.yml | 9 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/ns-data-raw.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/ns-data.yml | 9 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/ns-multi-delim.yml | 32 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/ns-multi-label.yml | 32 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/ns-multi-list.yml | 16 nettskjemar-1.0.4/nettskjemar/vignettes/_vcr/sub-single.yml | 7 nettskjemar-1.0.4/nettskjemar/vignettes/attachments.Rmd | 8 nettskjemar-1.0.4/nettskjemar/vignettes/authentication.Rmd | 7 nettskjemar-1.0.4/nettskjemar/vignettes/custom_requests.Rmd | 41 nettskjemar-1.0.4/nettskjemar/vignettes/labelled_data.Rmd | 4 96 files changed, 1287 insertions(+), 617 deletions(-)
Title: Apply Functions to Multiple Multidimensional Arrays or Vectors
Description: The base apply function and its variants, as well as the related
functions in the 'plyr' package, typically apply user-defined functions to a
single argument (or a list of vectorized arguments in the case of mapply). The
'multiApply' package extends this paradigm with its only function, Apply, which
efficiently applies functions taking one or a list of multiple unidimensional
or multidimensional arrays (or combinations thereof) as input. The input
arrays can have different numbers of dimensions as well as different dimension
lengths, and the applied function can return one or a list of unidimensional or
multidimensional arrays as output. This saves development time by preventing the
R user from writing often error-prone and memory-inefficient loops dealing with
multiple complex arrays. Also, a remarkable feature of Apply is the transparent
use of multi-core through its parameter 'ncores'. In contrast to the base apply
function, this package suggests the use of 'target dimensions' as op [...truncated...]
Author: BSC-CNS [aut, cph],
Nicolau Manubens [aut],
Alasdair Hunter [aut],
An-Chi Ho [ctb],
Nuria Perez [ctb],
Victoria Agudetse [ctb, cre]
Maintainer: Victoria Agudetse <victoria.agudetse@bsc.es>
Diff between multiApply versions 2.1.4 dated 2023-03-28 and 2.1.5 dated 2025-09-09
DESCRIPTION | 22 +++-- MD5 | 12 +-- NAMESPACE | 1 NEWS.md | 4 + R/Apply.R | 232 ++++++++++++++++++++++++++++++++++++++++++++++++++++------- README.md | 4 + man/Apply.Rd | 159 +++++++++++++++++++++++++++++++++------- 7 files changed, 367 insertions(+), 67 deletions(-)
Title: R6-Based ML Survival Learners for 'mlexperiments'
Description: Enhances 'mlexperiments'
<https://CRAN.R-project.org/package=mlexperiments> with additional
machine learning ('ML') learners for survival analysis. The package
provides R6-based survival learners for the following algorithms:
'glmnet' <https://CRAN.R-project.org/package=glmnet>, 'ranger'
<https://CRAN.R-project.org/package=ranger>, 'xgboost'
<https://CRAN.R-project.org/package=xgboost>, and 'rpart'
<https://CRAN.R-project.org/package=rpart>. These can be used directly
with the 'mlexperiments' R package.
Author: Lorenz A. Kapsner [cre, aut, cph]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between mlsurvlrnrs versions 0.0.5 dated 2025-03-03 and 0.0.6 dated 2025-09-09
DESCRIPTION | 14 MD5 | 78 - NAMESPACE | 24 R/learner_surv_coxph_cox.R | 316 +++---- R/learner_surv_glmnet_cox.R | 526 ++++++------ R/learner_surv_ranger_cox.R | 588 +++++++------- R/learner_surv_xgboost_aft.R | 504 ++++++------ R/learner_surv_xgboost_cox.R | 332 ++++---- R/surv_c_index.R | 54 - R/zzz.R | 50 - inst/doc/mlsurvlrnrs_glmnet_survival.html | 3 inst/doc/mlsurvlrnrs_glmnet_survival.qmd | 1022 ++++++++++++------------- inst/doc/mlsurvlrnrs_ranger_survival.html | 3 inst/doc/mlsurvlrnrs_ranger_survival.qmd | 906 +++++++++++----------- inst/doc/mlsurvlrnrs_rpart_survival.html | 3 inst/doc/mlsurvlrnrs_rpart_survival.qmd | 868 ++++++++++----------- inst/doc/mlsurvlrnrs_xgboost_survival_aft.html | 3 inst/doc/mlsurvlrnrs_xgboost_survival_aft.qmd | 920 +++++++++++----------- inst/doc/mlsurvlrnrs_xgboost_survival_cox.html | 3 inst/doc/mlsurvlrnrs_xgboost_survival_cox.qmd | 900 +++++++++++----------- man/LearnerSurvCoxPHCox.Rd | 284 +++--- man/LearnerSurvGlmnetCox.Rd | 308 +++---- man/LearnerSurvRangerCox.Rd | 314 +++---- man/LearnerSurvRpartCox.Rd | 342 ++++---- man/LearnerSurvXgboostAft.Rd | 356 ++++---- man/LearnerSurvXgboostCox.Rd | 348 ++++---- man/c_index.Rd | 66 - tests/testthat.R | 30 tests/testthat/test-lints.R | 26 tests/testthat/test-surv_coxph_cox.R | 4 tests/testthat/test-surv_glmnet_cox.R | 214 ++--- tests/testthat/test-surv_ranger_cox.R | 236 ++--- tests/testthat/test-surv_rpart_cox.R | 230 ++--- tests/testthat/test-surv_xgboost_aft.R | 248 +++--- tests/testthat/test-surv_xgboost_cox.R | 246 +++--- vignettes/mlsurvlrnrs_glmnet_survival.qmd | 1022 ++++++++++++------------- vignettes/mlsurvlrnrs_ranger_survival.qmd | 906 +++++++++++----------- vignettes/mlsurvlrnrs_rpart_survival.qmd | 868 ++++++++++----------- vignettes/mlsurvlrnrs_xgboost_survival_aft.qmd | 920 +++++++++++----------- vignettes/mlsurvlrnrs_xgboost_survival_cox.qmd | 900 +++++++++++----------- 40 files changed, 7496 insertions(+), 7489 deletions(-)
Title: 'jQuery QueryBuilder' Input for 'Shiny'
Description: A highly configurable 'jQuery' plugin offering a simple
interface to create complex queries/filters in 'Shiny'. The outputted
rules can easily be parsed into a set of 'R' and/or 'SQL' queries and
used to filter data. Custom parsing of the rules is also supported.
For more information about 'jQuery QueryBuilder' see
<https://querybuilder.js.org/>.
Author: Harry Fisher [aut, cre]
Maintainer: Harry Fisher <harryfisher21@gmail.com>
Diff between jqbr versions 1.0.3 dated 2023-08-15 and 1.0.4 dated 2025-09-09
jqbr-1.0.3/jqbr/inst/app/rsconnect |only jqbr-1.0.3/jqbr/inst/examples/test.R |only jqbr-1.0.4/jqbr/DESCRIPTION | 8 +-- jqbr-1.0.4/jqbr/MD5 | 20 +++---- jqbr-1.0.4/jqbr/NEWS.md | 5 + jqbr-1.0.4/jqbr/R/app.R | 7 +- jqbr-1.0.4/jqbr/R/dependencies.R | 32 +++++++++--- jqbr-1.0.4/jqbr/R/helpers.R | 13 ++--- jqbr-1.0.4/jqbr/R/queryBuilder.R | 63 ++++++++++++------------ jqbr-1.0.4/jqbr/R/utils.R | 15 ++++- jqbr-1.0.4/jqbr/R/zzz.R | 80 ++++++++++++++++++------------- jqbr-1.0.4/jqbr/man/queryBuilderInput.Rd | 2 12 files changed, 145 insertions(+), 100 deletions(-)
Title: Change-Point Analysis of High-Dimensional Time Series via Binary
Segmentation
Description: Binary segmentation methods for detecting and estimating multiple change-points in the mean or second-order structure of high-dimensional time series as described in Cho and Fryzlewicz (2014) <doi:10.1111/rssb.12079> and Cho (2016) <doi:10.1214/16-EJS1155>.
Author: Haeran Cho [aut, cre],
Piotr Fryzlewicz [aut]
Maintainer: Haeran Cho <haeran.cho@bristol.ac.uk>
Diff between hdbinseg versions 1.0.2 dated 2023-08-17 and 1.0.3 dated 2025-09-09
DESCRIPTION | 13 +++++++------ MD5 | 11 ++++++----- R/dcbs.R | 2 +- R/sbs.R | 2 +- man/dcbs.alg.Rd | 2 +- man/sbs.alg.Rd | 2 +- src/Makevars |only 7 files changed, 17 insertions(+), 15 deletions(-)
More information about EQUALCompareImages at CRAN
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Title: Bayesian Regression Models using 'Stan'
Description: Fit Bayesian generalized (non-)linear multivariate multilevel models
using 'Stan' for full Bayesian inference. A wide range of distributions
and link functions are supported, allowing users to fit -- among others --
linear, robust linear, count data, survival, response times, ordinal,
zero-inflated, hurdle, and even self-defined mixture models all in a
multilevel context. Further modeling options include both theory-driven and
data-driven non-linear terms, auto-correlation structures, censoring and
truncation, meta-analytic standard errors, and quite a few more.
In addition, all parameters of the response distribution can be predicted
in order to perform distributional regression. Prior specifications are
flexible and explicitly encourage users to apply prior distributions that
actually reflect their prior knowledge. Models can easily be evaluated and
compared using several methods assessing posterior or prior predictions.
References: Bürkner (2017) <doi:10.18637/jss.v080.i01>;
B [...truncated...]
Author: Paul-Christian Buerkner [aut, cre],
Jonah Gabry [ctb],
Sebastian Weber [ctb],
Andrew Johnson [ctb],
Martin Modrak [ctb],
Hamada S. Badr [ctb],
Frank Weber [ctb],
Aki Vehtari [ctb],
Mattan S. Ben-Shachar [ctb],
Hayden Rabel [ctb],
Simon C. Mills [ctb], [...truncated...]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between brms versions 2.22.0 dated 2024-09-23 and 2.23.0 dated 2025-09-09
DESCRIPTION | 31 +- MD5 | 252 ++++++++--------- NAMESPACE | 4 NEWS.md | 42 ++ R/backends.R | 15 - R/bayes_R2.R | 14 R/brm.R | 20 + R/brm_multiple.R | 2 R/brmsfit-helpers.R | 86 +++++ R/brmsfit-methods.R | 28 + R/brmsformula.R | 13 R/brmsframe.R | 17 - R/brmsterms.R | 4 R/conditional_effects.R | 7 R/conditional_smooths.R | 64 +++- R/data-helpers.R | 9 R/data-predictor.R | 45 ++- R/data-response.R | 4 R/distributions.R | 43 ++ R/exclude_pars.R | 2 R/families.R | 92 ++++-- R/family-lists.R | 58 +++ R/formula-ac.R | 4 R/formula-gp.R | 83 +++++ R/formula-re.R | 80 ++++- R/formula-sp.R | 29 + R/hypothesis.R | 69 +++- R/kfold.R | 14 R/log_lik.R | 65 ++-- R/loo_predict.R | 54 +++ R/misc.R | 55 +++ R/numeric-helpers.R | 10 R/posterior.R | 2 R/posterior_epred.R | 23 + R/posterior_predict.R | 25 + R/pp_check.R | 21 + R/prepare_predictions.R | 4 R/priors.R | 76 +++-- R/priorsense.R | 41 +- R/reloo.R | 3 R/rename_pars.R | 2 R/restructure.R | 5 R/stan-likelihood.R | 46 +-- R/stan-predictor.R | 50 ++- R/stan-prior.R | 41 ++ R/stan-response.R | 5 R/stancode.R | 24 + R/standata.R | 2 R/stanvars.R | 2 R/summary.R | 67 ++-- R/update.R | 22 + build/partial.rdb |only build/vignette.rds |binary inst/chunks/fun_com_poisson.stan | 101 ++++-- inst/chunks/fun_dirichlet_multinomial_logit.stan |only inst/chunks/fun_gp_exponential.stan | 1 inst/chunks/fun_spd_gp_exponential.stan |only inst/chunks/fun_xbeta.stan |only inst/doc/brms_customfamilies.R | 9 inst/doc/brms_customfamilies.Rmd | 9 inst/doc/brms_customfamilies.html | 58 +-- inst/doc/brms_distreg.R | 9 inst/doc/brms_distreg.Rmd | 9 inst/doc/brms_distreg.html | 94 +++--- inst/doc/brms_families.html | 4 inst/doc/brms_missings.R | 15 - inst/doc/brms_missings.Rmd | 9 inst/doc/brms_missings.html | 134 ++++----- inst/doc/brms_monotonic.R | 9 inst/doc/brms_monotonic.Rmd | 9 inst/doc/brms_monotonic.html | 142 ++++----- inst/doc/brms_multilevel.pdf |binary inst/doc/brms_multivariate.R | 9 inst/doc/brms_multivariate.Rmd | 9 inst/doc/brms_multivariate.html | 188 ++++++------ inst/doc/brms_nonlinear.R | 9 inst/doc/brms_nonlinear.Rmd | 9 inst/doc/brms_nonlinear.html | 118 ++++---- inst/doc/brms_overview.pdf |binary inst/doc/brms_phylogenetics.R | 9 inst/doc/brms_phylogenetics.Rmd | 9 inst/doc/brms_phylogenetics.html | 110 +++---- inst/doc/brms_threading.R | 337 +++++++++++------------ inst/doc/brms_threading.Rmd | 9 inst/doc/brms_threading.html | 126 ++++---- man/MultiNormal.Rd | 2 man/MultiStudentT.Rd | 2 man/bayes_R2.brmsfit.Rd | 10 man/brm.Rd | 53 +++ man/brm_multiple.Rd | 36 ++ man/brms-package.Rd | 6 man/brmsfamily.Rd | 64 +++- man/brmsformula.Rd | 13 man/brmshypothesis.Rd | 19 - man/conditional_smooths.brmsfit.Rd | 6 man/create_priorsense_data.brmsfit.Rd | 3 man/gp.Rd | 26 + man/gr.Rd | 23 + man/hypothesis.brmsfit.Rd | 33 +- man/inits.brmsfit.Rd |only man/kfold.brmsfit.Rd | 53 +++ man/loo_R2.brmsfit.Rd | 40 ++ man/mm.Rd | 12 man/prepare_predictions.Rd | 2 man/print.brmsfit.Rd | 6 man/reloo.brmsfit.Rd | 42 ++ man/set_prior.Rd | 12 man/update.brmsfit_multiple.Rd | 9 tests/testthat/tests.brmsfit-helpers.R | 57 +++ tests/testthat/tests.brmsfit-methods.R | 15 - tests/testthat/tests.distributions.R | 5 tests/testthat/tests.emmeans.R | 2 tests/testthat/tests.families.R | 32 ++ tests/testthat/tests.log_lik.R | 80 +++++ tests/testthat/tests.posterior_epred.R | 23 + tests/testthat/tests.posterior_predict.R | 26 + tests/testthat/tests.priors.R | 20 + tests/testthat/tests.priorsense.R | 11 tests/testthat/tests.read_csv_as_stanfit.R | 20 + tests/testthat/tests.stancode.R | 108 ++++++- tests/testthat/tests.standata.R | 95 ++++++ tests/testthat/tests.stop2.R |only vignettes/brms_customfamilies.Rmd | 9 vignettes/brms_distreg.Rmd | 9 vignettes/brms_missings.Rmd | 9 vignettes/brms_monotonic.Rmd | 9 vignettes/brms_multivariate.Rmd | 9 vignettes/brms_nonlinear.Rmd | 9 vignettes/brms_phylogenetics.Rmd | 9 vignettes/brms_threading.Rmd | 9 130 files changed, 3034 insertions(+), 1334 deletions(-)
Title: Data from all Seasons of Survivor (US) TV Series in Tidy Format
Description: Datasets detailing the results, castaways, and events of each
season of Survivor for the US, Australia, South Africa, New Zealand, and the
UK. This includes details on the cast, voting history, immunity and reward
challenges, jury votes, boot order, advantage details, and episode ratings.
Use this for analysis of trends and statistics of the game.
Author: Daniel Oehm [aut, cre],
Carly Levitz [ctb]
Maintainer: Daniel Oehm <danieloehm@gmail.com>
Diff between survivoR versions 2.3.6 dated 2025-06-13 and 2.3.7 dated 2025-09-09
DESCRIPTION | 8 ++-- MD5 | 56 +++++++++++++++--------------- NEWS.md | 5 ++ R/datasets.R | 4 -- R/ui-conf.R | 2 - README.md | 72 +++++++++++++++++++-------------------- data/advantage_details.rda |binary data/advantage_movement.rda |binary data/auction_details.rda |binary data/boot_mapping.rda |binary data/boot_order.rda |binary data/castaway_details.rda |binary data/castaway_scores.rda |binary data/castaways.rda |binary data/challenge_description.rda |binary data/challenge_results.rda |binary data/challenge_summary.rda |binary data/confessionals.rda |binary data/episodes.rda |binary data/jury_votes.rda |binary data/season_summary.rda |binary data/survivor_auction.rda |binary data/tribe_colours.rda |binary data/tribe_mapping.rda |binary data/viewers.rda |binary data/vote_history.rda |binary man/castaway_scores.Rd | 6 --- tests/testthat/tests-functions.R | 8 ++-- tests/testthat/tests.R | 8 +++- 29 files changed, 84 insertions(+), 85 deletions(-)
Title: Regression Models for Bounded Continuous and Discrete Responses
Description: Functions to fit regression models for bounded continuous and discrete responses. In case of bounded continuous responses (e.g., proportions and rates), available models are the flexible beta (Migliorati, S., Di Brisco, A. M., Ongaro, A. (2018) <doi:10.1214/17-BA1079>), the variance-inflated beta (Di Brisco, A. M., Migliorati, S., Ongaro, A. (2020) <doi:10.1177/1471082X18821213>), the beta (Ferrari, S.L.P., Cribari-Neto, F. (2004) <doi:10.1080/0266476042000214501>), and their augmented versions to handle the presence of zero/one values (Di Brisco, A. M., Migliorati, S. (2020) <doi:10.1002/sim.8406>) are implemented. In case of bounded discrete responses (e.g., bounded counts, such as the number of successes in n trials), available models are the flexible beta-binomial (Ascari, R., Migliorati, S. (2021) <doi:10.1002/sim.9005>), the beta-binomial, and the binomial are implemented. Inference is dealt with a Bayesian approach based on the Hamiltonian Monte C [...truncated...]
Author: Roberto Ascari [aut, cre],
Agnese M. Di Brisco [aut],
Sonia Migliorati [aut],
Andrea Ongaro [aut]
Maintainer: Roberto Ascari <roberto.ascari@unimib.it>
Diff between FlexReg versions 1.3.1 dated 2025-04-14 and 1.4 dated 2025-09-09
FlexReg-1.3.1/FlexReg/R/densities.R |only FlexReg-1.3.1/FlexReg/R/rgen.R |only FlexReg-1.3.1/FlexReg/inst/extdata |only FlexReg-1.3.1/FlexReg/inst/stan/Beta0.stan |only FlexReg-1.3.1/FlexReg/inst/stan/Beta01.stan |only FlexReg-1.3.1/FlexReg/inst/stan/Beta01_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/Beta0_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/Beta1.stan |only FlexReg-1.3.1/FlexReg/inst/stan/Beta1_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/BetaNo.stan |only FlexReg-1.3.1/FlexReg/inst/stan/BetaNo_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB0.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB01.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB01_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB0_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB1.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FB1_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FBNo.stan |only FlexReg-1.3.1/FlexReg/inst/stan/FBNo_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB0.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB01.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB01_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB0_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB1.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIB1_phi.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIBNo.stan |only FlexReg-1.3.1/FlexReg/inst/stan/VIBNo_phi.stan |only FlexReg-1.3.1/FlexReg/man/dBeta.Rd |only FlexReg-1.3.1/FlexReg/man/dBetaBin.Rd |only FlexReg-1.3.1/FlexReg/man/dFB.Rd |only FlexReg-1.3.1/FlexReg/man/dFBB.Rd |only FlexReg-1.3.1/FlexReg/man/dVIB.Rd |only FlexReg-1.3.1/FlexReg/man/rBeta.Rd |only FlexReg-1.3.1/FlexReg/man/rBetaBin.Rd |only FlexReg-1.3.1/FlexReg/man/rFB.Rd |only FlexReg-1.3.1/FlexReg/man/rFBB.Rd |only FlexReg-1.3.1/FlexReg/man/rVIB.Rd |only FlexReg-1.3.1/FlexReg/src/Makevars |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta0.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta0.h |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta01.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta01.h |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta01_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta01_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta0_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta0_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta1.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta1.h |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta1_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_Beta1_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_BetaNo.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_BetaNo.h |only FlexReg-1.3.1/FlexReg/src/stanExports_BetaNo_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_BetaNo_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB0.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB0.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB01.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB01.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB01_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB01_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB0_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB0_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB1.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB1.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FB1_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FB1_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FBNo.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FBNo.h |only FlexReg-1.3.1/FlexReg/src/stanExports_FBNo_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_FBNo_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB0.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB0.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB01.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB01.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB01_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB01_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB0_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB0_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB1.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB1.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB1_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIB1_phi.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIBNo.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIBNo.h |only FlexReg-1.3.1/FlexReg/src/stanExports_VIBNo_phi.cc |only FlexReg-1.3.1/FlexReg/src/stanExports_VIBNo_phi.h |only FlexReg-1.4/FlexReg/DESCRIPTION | 29 FlexReg-1.4/FlexReg/MD5 | 220 +--- FlexReg-1.4/FlexReg/NAMESPACE | 13 FlexReg-1.4/FlexReg/R/BetaBin_functions.R |only FlexReg-1.4/FlexReg/R/Beta_functions.R |only FlexReg-1.4/FlexReg/R/FBB_functions.R |only FlexReg-1.4/FlexReg/R/FB_functions.R |only FlexReg-1.4/FlexReg/R/FlexReg-package.R | 60 - FlexReg-1.4/FlexReg/R/Internal_functions.R | 899 +++++++++---------- FlexReg-1.4/FlexReg/R/ModelMatrix.R |only FlexReg-1.4/FlexReg/R/R2_Bayes.R | 168 +-- FlexReg-1.4/FlexReg/R/Summaries.R | 831 +++++++++-------- FlexReg-1.4/FlexReg/R/VIB_functions.R |only FlexReg-1.4/FlexReg/R/WAIC.R | 164 +-- FlexReg-1.4/FlexReg/R/convergence.plot.R | 732 +++++++++------ FlexReg-1.4/FlexReg/R/curve.density.R |only FlexReg-1.4/FlexReg/R/flexreg_Augmentation.R | 206 +++- FlexReg-1.4/FlexReg/R/flexreg_binom.R | 606 ++++++------ FlexReg-1.4/FlexReg/R/posterior_predictive.R | 536 +++++------ FlexReg-1.4/FlexReg/R/predicted_residuals.R | 460 ++++----- FlexReg-1.4/FlexReg/R/stanmodels.R | 33 FlexReg-1.4/FlexReg/configure | 3 FlexReg-1.4/FlexReg/configure.win | 3 FlexReg-1.4/FlexReg/inst/stan/Beta.stan |only FlexReg-1.4/FlexReg/inst/stan/BetaBin.stan | 126 +- FlexReg-1.4/FlexReg/inst/stan/BetaBin_theta.stan | 164 +-- FlexReg-1.4/FlexReg/inst/stan/Beta_phi.stan |only FlexReg-1.4/FlexReg/inst/stan/Bin.stan | 108 +- FlexReg-1.4/FlexReg/inst/stan/FB.stan |only FlexReg-1.4/FlexReg/inst/stan/FBB.stan | 178 +-- FlexReg-1.4/FlexReg/inst/stan/FBB_theta.stan | 220 ++-- FlexReg-1.4/FlexReg/inst/stan/FB_phi.stan |only FlexReg-1.4/FlexReg/inst/stan/Multinomial.stan |only FlexReg-1.4/FlexReg/inst/stan/VIB.stan |only FlexReg-1.4/FlexReg/inst/stan/VIB_phi.stan |only FlexReg-1.4/FlexReg/man/Beta.Rd |only FlexReg-1.4/FlexReg/man/BetaBin.Rd |only FlexReg-1.4/FlexReg/man/Consumption.Rd | 2 FlexReg-1.4/FlexReg/man/Election.Rd | 9 FlexReg-1.4/FlexReg/man/FB.Rd |only FlexReg-1.4/FlexReg/man/FBB.Rd |only FlexReg-1.4/FlexReg/man/FlexReg-package.Rd | 73 - FlexReg-1.4/FlexReg/man/R2Bayes_internal.Rd |only FlexReg-1.4/FlexReg/man/VIB.Rd |only FlexReg-1.4/FlexReg/man/WAIC.Rd | 86 - FlexReg-1.4/FlexReg/man/WAIC_internal.Rd |only FlexReg-1.4/FlexReg/man/convergence.diag.Rd | 9 FlexReg-1.4/FlexReg/man/convergence.diag.internal.Rd |only FlexReg-1.4/FlexReg/man/convergence.plot.internal.Rd |only FlexReg-1.4/FlexReg/man/curve.density.Rd | 2 FlexReg-1.4/FlexReg/man/fit.model_2.Rd |only FlexReg-1.4/FlexReg/man/fit.model_binom.Rd |only FlexReg-1.4/FlexReg/man/flexreg.Rd | 303 +++--- FlexReg-1.4/FlexReg/man/flexreg_binom.Rd | 13 FlexReg-1.4/FlexReg/man/model.matrix.flexreg.Rd |only FlexReg-1.4/FlexReg/man/model_frame.Rd |only FlexReg-1.4/FlexReg/man/plot.flexreg_postpred.Rd | 2 FlexReg-1.4/FlexReg/man/predict_link.Rd | 2 FlexReg-1.4/FlexReg/man/predict_mu.chain.Rd | 2 FlexReg-1.4/FlexReg/man/predict_over.Rd | 2 FlexReg-1.4/FlexReg/man/predict_precision.Rd | 2 FlexReg-1.4/FlexReg/man/predict_q.chain.Rd | 2 FlexReg-1.4/FlexReg/man/predict_response.Rd | 2 FlexReg-1.4/FlexReg/man/predict_variance.Rd | 1 FlexReg-1.4/FlexReg/man/q0.chain.nd.Rd | 2 FlexReg-1.4/FlexReg/man/q01.chain.nd.Rd | 2 FlexReg-1.4/FlexReg/man/q1.chain.nd.Rd | 2 FlexReg-1.4/FlexReg/man/residuals.flexreg.Rd | 4 FlexReg-1.4/FlexReg/man/summary.flexreg_postpred.Rd | 2 FlexReg-1.4/FlexReg/src/RcppExports.cpp | 62 - FlexReg-1.4/FlexReg/src/stanExports_Beta.cc |only FlexReg-1.4/FlexReg/src/stanExports_Beta.h |only FlexReg-1.4/FlexReg/src/stanExports_Beta_phi.cc |only FlexReg-1.4/FlexReg/src/stanExports_Beta_phi.h |only FlexReg-1.4/FlexReg/src/stanExports_FB.cc |only FlexReg-1.4/FlexReg/src/stanExports_FB.h |only FlexReg-1.4/FlexReg/src/stanExports_FBB.h | 166 ++- FlexReg-1.4/FlexReg/src/stanExports_FBB_theta.h | 218 +++- FlexReg-1.4/FlexReg/src/stanExports_FB_phi.cc |only FlexReg-1.4/FlexReg/src/stanExports_FB_phi.h |only FlexReg-1.4/FlexReg/src/stanExports_Multinomial.cc |only FlexReg-1.4/FlexReg/src/stanExports_Multinomial.h |only FlexReg-1.4/FlexReg/src/stanExports_VIB.cc |only FlexReg-1.4/FlexReg/src/stanExports_VIB.h |only FlexReg-1.4/FlexReg/src/stanExports_VIB_phi.cc |only FlexReg-1.4/FlexReg/src/stanExports_VIB_phi.h |only 172 files changed, 3580 insertions(+), 3149 deletions(-)
Title: Zigzag Expanded Navigation Plots
Description: Graphical tools for visualizing high-dimensional data along a
path of alternating one- and two-dimensional plots. Includes optional
interactive graphics via 'loon' (which uses 'tcltk' from base R).
Support is provided for constructing graph structures and, when
available, plotting them with Bioconductor packages (e.g., 'graph',
'Rgraphviz'); these are optional and examples/vignettes are skipped if
they are not installed. For algorithms and further details, see
<doi:10.18637/jss.v095.i04>.
Author: Marius Hofert [aut],
Wayne Oldford [aut, cre]
Maintainer: Wayne Oldford <rwoldford@uwaterloo.ca>
Diff between zenplots versions 1.0.6 dated 2023-11-07 and 1.0.7 dated 2025-09-09
zenplots-1.0.6/zenplots/man/zenplots.Rd |only zenplots-1.0.7/zenplots/DESCRIPTION | 55 + zenplots-1.0.7/zenplots/MD5 | 59 +- zenplots-1.0.7/zenplots/NAMESPACE | 3 zenplots-1.0.7/zenplots/NEWS.md | 14 zenplots-1.0.7/zenplots/R/zenpath.R | 195 ++---- zenplots-1.0.7/zenplots/R/zenplots.R | 21 zenplots-1.0.7/zenplots/README.md | 27 zenplots-1.0.7/zenplots/build/vignette.rds |binary zenplots-1.0.7/zenplots/demo/SP500.R | 66 +- zenplots-1.0.7/zenplots/inst/doc/intro.R | 173 ++++-- zenplots-1.0.7/zenplots/inst/doc/intro.Rmd | 178 ++++-- zenplots-1.0.7/zenplots/inst/doc/intro.html | 461 ++++++++-------- zenplots-1.0.7/zenplots/inst/doc/selected_features.R | 212 ++++--- zenplots-1.0.7/zenplots/inst/doc/selected_features.Rmd | 77 ++ zenplots-1.0.7/zenplots/inst/doc/selected_features.html | 77 +- zenplots-1.0.7/zenplots/man/check_zargs.Rd | 2 zenplots-1.0.7/zenplots/man/connect_pairs.Rd | 21 zenplots-1.0.7/zenplots/man/extract_1d.Rd | 2 zenplots-1.0.7/zenplots/man/extract_2d.Rd | 2 zenplots-1.0.7/zenplots/man/extract_pairs.Rd | 14 zenplots-1.0.7/zenplots/man/graph_pairs.Rd | 47 - zenplots-1.0.7/zenplots/man/groupData.Rd | 5 zenplots-1.0.7/zenplots/man/happiness.Rd | 26 zenplots-1.0.7/zenplots/man/indexData.Rd | 4 zenplots-1.0.7/zenplots/man/plot_indices.Rd | 2 zenplots-1.0.7/zenplots/man/zenpath.Rd | 30 - zenplots-1.0.7/zenplots/man/zenplots-package.Rd |only zenplots-1.0.7/zenplots/vignettes/_make_figures.R |only zenplots-1.0.7/zenplots/vignettes/figures |only zenplots-1.0.7/zenplots/vignettes/intro.Rmd | 178 ++++-- zenplots-1.0.7/zenplots/vignettes/selected_features.Rmd | 77 ++ 32 files changed, 1188 insertions(+), 840 deletions(-)
Title: 'SQL' Case Statement Generator
Description: Includes built-in methods for generating long 'SQL' CASE statements,
and other 'SQL' statements that may otherwise be arduous to construct
by hand.The generated statement can easily be concatenated to string
literals to form queries to 'SQL'-like databases, such as when using
the 'RODBC' package. The current methods include casewhen() for
building CASE statements, inlist() for building IN statements, and
updatetable() for building UPDATE statements.
Author: Leoson Hoay [aut, cre]
Maintainer: Leoson Hoay <leoson.public@gmail.com>
Diff between sqlcaser versions 0.2.0 dated 2023-11-24 and 0.2.1 dated 2025-09-09
DESCRIPTION | 20 +- LICENSE | 4 MD5 | 31 ++-- NAMESPACE | 10 - NEWS.md | 14 + R/casewhen.R | 122 +++++++++++++++- R/inlist.R | 129 ++++++++++++++++- R/updatetable.R | 190 ++++++++++++++++++++++---- README.md |only build/vignette.rds |binary inst/doc/introduction.R | 53 +++++++ inst/doc/introduction.Rmd | 185 +++++++++++++++++-------- inst/doc/introduction.html | 326 ++++++++++++++++++++++++++++++--------------- man/casewhen.Rd | 74 ++++++---- man/inlist.Rd | 68 +++++---- man/updatetable.Rd | 73 ++++++---- vignettes/introduction.Rmd | 185 +++++++++++++++++-------- 17 files changed, 1099 insertions(+), 385 deletions(-)
Title: A Super K-Nearest Neighbor (SKNN) Classification Algorithm
Description: It's a Super K-Nearest Neighbor(SKNN) classification method with using kernel density to describe weight of the distance between a training observation and the testing sample. Comparison of performance between SKNN and KNN shows that SKNN is significantly superior to KNN.
Author: Yarong Yang [aut, cre],
Nader Ebrahimi [ctb],
Yoram Rubin [ctb],
Jacob Zhang [ctb]
Maintainer: Yarong Yang <Yi.YA_yaya@hotmail.com>
Diff between SKNN versions 4.1 dated 2024-10-08 and 4.1.1 dated 2025-09-09
DESCRIPTION | 22 +++++++++++----------- MD5 | 10 +++++----- man/PCAy.Rd | 2 +- man/PCAyd-class.Rd | 4 ++-- man/SKNN-package.Rd | 10 +++++----- man/SKNN.Rd | 2 +- 6 files changed, 25 insertions(+), 25 deletions(-)
Title: ROBust INference for Covariate Adjustment in Randomized Clinical
Trials
Description: Performs robust estimation and inference when using covariate adjustment
and/or covariate-adaptive randomization in randomized controlled trials.
This package is trimmed to reduce the dependencies and validated to be used across industry.
See "FDA's final guidance on covariate adjustment"<https://www.regulations.gov/docket/FDA-2019-D-0934>, Tsiatis (2008) <doi:10.1002/sim.3113>,
Bugni et al. (2018) <doi:10.1080/01621459.2017.1375934>, Ye, Shao, Yi, and Zhao (2023)<doi:10.1080/01621459.2022.2049278>,
Ye, Shao, and Yi (2022)<doi:10.1093/biomet/asab015>, Rosenblum and van der Laan (2010)<doi:10.2202/1557-4679.1138>,
Wang et al. (2021)<doi:10.1080/01621459.2021.1981338>, Ye, Bannick, Yi, and Shao (2023)<doi:10.1080/24754269.2023.2205802>,
and Bannick, Shao, Liu, Du, Yi, and Ye (2024)<doi:10.48550/arXiv.2306.10213>.
Author: Liming Li [aut, cre] ,
Marlena Bannick [aut] ,
Daniel Sabanes Bove [aut] ,
Dong Xi [aut],
Ting Ye [aut],
Yanyao Yi [aut],
Gregory Chen [ctb],
Gilead Sciences, Inc. [cph, fnd],
F. Hoffmann-La Roche AG [cph, fnd],
Merck Sharp & Dohme, Inc. [cph, fnd],
[...truncated...]
Maintainer: Liming Li <liming.li1@astrazeneca.com>
Diff between RobinCar2 versions 0.1.1 dated 2025-04-03 and 0.2.0 dated 2025-09-09
RobinCar2-0.1.1/RobinCar2/data/dummy_data.rda |only RobinCar2-0.1.1/RobinCar2/man/dummy_data.Rd |only RobinCar2-0.2.0/RobinCar2/DESCRIPTION | 19 - RobinCar2-0.2.0/RobinCar2/MD5 | 107 +++-- RobinCar2-0.2.0/RobinCar2/NAMESPACE | 18 RobinCar2-0.2.0/RobinCar2/NEWS.md | 17 RobinCar2-0.2.0/RobinCar2/R/RobinCar2-package.R | 2 RobinCar2-0.2.0/RobinCar2/R/data.R | 20 - RobinCar2-0.2.0/RobinCar2/R/predict_couterfactual.R | 15 RobinCar2-0.2.0/RobinCar2/R/prediction_cf.R | 44 +- RobinCar2-0.2.0/RobinCar2/R/robin_glm.R | 68 ++- RobinCar2-0.2.0/RobinCar2/R/robin_lm.R | 25 + RobinCar2-0.2.0/RobinCar2/R/surv_effect.R |only RobinCar2-0.2.0/RobinCar2/R/survival.R |only RobinCar2-0.2.0/RobinCar2/R/survival_cov_adj.R |only RobinCar2-0.2.0/RobinCar2/R/survival_score.R |only RobinCar2-0.2.0/RobinCar2/R/treatment_effect.R | 171 ++++++--- RobinCar2-0.2.0/RobinCar2/R/utils.R | 183 ++++++++++ RobinCar2-0.2.0/RobinCar2/R/variance_anhecova.R | 2 RobinCar2-0.2.0/RobinCar2/build/vignette.rds |binary RobinCar2-0.2.0/RobinCar2/data/glm_data.rda |only RobinCar2-0.2.0/RobinCar2/data/surv_data.rda |only RobinCar2-0.2.0/RobinCar2/inst/WORDLIST | 18 RobinCar2-0.2.0/RobinCar2/inst/doc/intro.R | 31 + RobinCar2-0.2.0/RobinCar2/inst/doc/intro.Rmd | 49 ++ RobinCar2-0.2.0/RobinCar2/inst/doc/intro.html | 118 +++++- RobinCar2-0.2.0/RobinCar2/man/RobinCar2-package.Rd | 1 RobinCar2-0.2.0/RobinCar2/man/confint.Rd |only RobinCar2-0.2.0/RobinCar2/man/contrast.Rd | 22 - RobinCar2-0.2.0/RobinCar2/man/derived_outcome_vals.Rd |only RobinCar2-0.2.0/RobinCar2/man/get_beta_estimates.Rd |only RobinCar2-0.2.0/RobinCar2/man/get_lm_input.Rd |only RobinCar2-0.2.0/RobinCar2/man/glm_data.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_confint.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_events_table.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_interaction.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_log_hr_coef_mat.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_log_hr_est_via_score.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_lr_test_via_score.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_n_events_per_time.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_prep_survival_input.Rd |only RobinCar2-0.2.0/RobinCar2/man/h_test_mat.Rd |only RobinCar2-0.2.0/RobinCar2/man/robin_glm.Rd | 7 RobinCar2-0.2.0/RobinCar2/man/robin_lm.Rd | 4 RobinCar2-0.2.0/RobinCar2/man/robin_surv.Rd |only RobinCar2-0.2.0/RobinCar2/man/robin_surv_comparison.Rd |only RobinCar2-0.2.0/RobinCar2/man/sum_vectors_in_list.Rd |only RobinCar2-0.2.0/RobinCar2/man/surv_data.Rd |only RobinCar2-0.2.0/RobinCar2/man/surv_effect_methods.Rd |only RobinCar2-0.2.0/RobinCar2/man/survival_comparison_functions.Rd |only RobinCar2-0.2.0/RobinCar2/man/survival_score_functions.Rd |only RobinCar2-0.2.0/RobinCar2/man/treatment_effect.Rd | 13 RobinCar2-0.2.0/RobinCar2/man/vcovG.Rd | 4 RobinCar2-0.2.0/RobinCar2/tests/others.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/confint.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/predict_counterfactual.md | 41 ++ RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/robin_glm.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/surv_effect.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/survival.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/survival_cov_adj.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/survival_score.md |only RobinCar2-0.2.0/RobinCar2/tests/testthat/_snaps/treatment_effect.md | 52 -- RobinCar2-0.2.0/RobinCar2/tests/testthat/helper-fit.R | 11 RobinCar2-0.2.0/RobinCar2/tests/testthat/test-bias.R | 5 RobinCar2-0.2.0/RobinCar2/tests/testthat/test-confint.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/test-predict_counterfactual.R | 40 +- RobinCar2-0.2.0/RobinCar2/tests/testthat/test-robin_glm.R | 49 ++ RobinCar2-0.2.0/RobinCar2/tests/testthat/test-robin_lm.R | 6 RobinCar2-0.2.0/RobinCar2/tests/testthat/test-surv_effect.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/test-survival.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/test-survival_cov_adj.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/test-survival_score.R |only RobinCar2-0.2.0/RobinCar2/tests/testthat/test-treatment_effect.R | 124 ++++++ RobinCar2-0.2.0/RobinCar2/tests/testthat/test-utils.R | 121 ++++++ RobinCar2-0.2.0/RobinCar2/vignettes/intro.Rmd | 49 ++ 75 files changed, 1176 insertions(+), 280 deletions(-)
Title: Modeling of Ordinal Random Variables via Softmax Regression
Description: Supports the modeling of ordinal random variables,
like the outcomes of races, via Softmax regression,
under the Harville <doi:10.1080/01621459.1973.10482425> and
Henery <doi:10.1111/j.2517-6161.1981.tb01153.x> models.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between ohenery versions 0.1.3 dated 2025-04-20 and 0.1.4 dated 2025-09-09
ChangeLog | 6 DESCRIPTION | 17 MD5 | 68 NAMESPACE | 9 R/broom.r |only R/data.r | 74 - R/harsm.r | 427 +++--- R/hensm.r | 457 ++++-- R/linodds.r | 72 - R/ohenery.r | 31 R/regularization.r |only R/rsm.r | 119 - R/utils.r | 149 +- README.md | 156 +- man/NEWS.Rd | 9 man/best_picture.Rd | 26 man/diving.Rd | 2 man/glance.Rd |only man/harsm.Rd | 114 + man/harsm_invlink.Rd | 6 man/harsmfit.Rd | 63 man/hensm.Rd | 101 + man/hensmfit.Rd |only man/inv_smax.Rd | 4 man/linodds.Rd | 10 man/normalize.Rd | 2 man/ohenery.Rd | 18 man/race_data.Rd | 20 man/reexports.Rd |only man/rsm.Rd | 8 man/smax.Rd | 2 man/smlik.Rd | 6 man/tidy.Rd |only tests/testthat.R | 4 tests/testthat/setup-rlang.r | 4 tests/testthat/test-basic.r | 2189 +++++++++++++++++++++----------- tools/figure/race_data_efficiency-1.png |binary tools/figure/wted_zsims-1.png |binary 38 files changed, 2790 insertions(+), 1383 deletions(-)
Title: Assessing Proximal, Distal, and Mediated Causal Excursion
Effects for Micro-Randomized Trials
Description: Provides methods to analyze micro-randomized trials (MRTs) with binary treatment options. Supports three types of analyses: (1) proximal causal excursion effects, including weighted and centered least squares (WCLS) for continuous proximal outcomes by Boruvka et al. (2018) <doi:10.1080/01621459.2017.1305274> and the estimator for marginal excursion effect (EMEE) for binary proximal outcomes by Qian et al. (2021) <doi:10.1093/biomet/asaa070>; (2) distal causal excursion effects (DCEE) for continuous distal outcomes using a two-stage estimator by Qian (2025) <doi:10.48550/arXiv.2502.13500>; and (3) mediated causal excursion effects (MCEE) for continuous distal outcomes, estimating natural direct and indirect excursion effects in the presence of time-varying mediators by Qian (2025) <doi:10.48550/arXiv.2506.20027>.
Author: Tianchen Qian [aut, cre] ,
Shaolin Xiang [aut],
Zhaoxi Cheng [aut],
Audrey Boruvka [ctb]
Maintainer: Tianchen Qian <t.qian@uci.edu>
Diff between MRTAnalysis versions 0.2.0 dated 2025-08-29 and 0.3.0 dated 2025-09-09
DESCRIPTION | 16 +- MD5 | 78 +++++++++++-- NAMESPACE | 15 ++ NEWS.md | 30 +++-- R/data_time_varying_mediator_distal_outcome.R |only R/mcee.R |only R/mcee_general.R |only R/mcee_helper_estimation.R |only R/mcee_helper_nuisance_config.R |only R/mcee_helper_utils.R |only R/mcee_userfit_nuisance.R |only R/summary.mcee.R |only README.md | 20 +++ build/vignette.rds |binary data/data_time_varying_mediator_distal_outcome.rda |only inst/doc/mrt-distal-causal-effect.html | 8 - inst/doc/mrt-mediated-causal-effect-on-distal-outcome.R |only inst/doc/mrt-mediated-causal-effect-on-distal-outcome.Rmd |only inst/doc/mrt-mediated-causal-effect-on-distal-outcome.html |only inst/doc/mrt-proximal-causal-effect.html | 4 man/data_time_varying_mediator_distal_outcome.Rd |only man/dot-mcee_assert_df.Rd |only man/dot-mcee_build_f_matrix.Rd |only man/dot-mcee_build_weights.Rd |only man/dot-mcee_check_binary_col.Rd |only man/dot-mcee_check_control_formula.Rd |only man/dot-mcee_check_dp_strictly_increasing.Rd |only man/dot-mcee_check_formula_mediator.Rd |only man/dot-mcee_check_id_rows_grouped.Rd |only man/dot-mcee_check_no_missing_vars.Rd |only man/dot-mcee_check_no_missing_vec.Rd |only man/dot-mcee_check_outcome_constant_within_id.Rd |only man/dot-mcee_check_time_varying_effect_form.Rd |only man/dot-mcee_compact_model_info.Rd |only man/dot-mcee_core_rows.Rd |only man/dot-mcee_default_family.Rd |only man/dot-mcee_drop_var_from_rhs.Rd |only man/dot-mcee_fit_nuisance.Rd |only man/dot-mcee_message_if_no_availability_provided.Rd |only man/dot-mcee_print_coef_table.Rd |only man/dot-mcee_require_cols.Rd |only man/dot-mcee_resolve_rand_prob.Rd |only man/dot-mcee_validate_clipping.Rd |only man/dot-mcee_validate_method.Rd |only man/dot-mcee_vars_in_config.Rd |only man/dot-mcee_vars_in_rhs.Rd |only man/mcee.Rd |only man/mcee_config_gam.Rd |only man/mcee_config_glm.Rd |only man/mcee_config_known.Rd |only man/mcee_config_lm.Rd |only man/mcee_config_maker.Rd |only man/mcee_config_ranger.Rd |only man/mcee_config_rf.Rd |only man/mcee_config_sl.Rd |only man/mcee_config_sl_user.Rd |only man/mcee_general.Rd |only man/mcee_helper_2stage_estimation.Rd |only man/mcee_helper_stage1_fit_nuisance.Rd |only man/mcee_helper_stage2_estimate_mcee.Rd |only man/mcee_userfit_nuisance.Rd |only man/print.summary.mcee_fit.Rd |only man/summary.mcee_fit.Rd |only tests/testthat/test-dcee-numeric-golden-other-learners.R | 4 tests/testthat/test-mcee-message-warning-error.R |only tests/testthat/test-mcee-missing-data-error.R |only tests/testthat/test-mcee-return-structure.R |only tests/testthat/test-mcee-values.R |only vignettes/mhealth-ref.bib | 7 + vignettes/mrt-mediated-causal-effect-on-distal-outcome.Rmd |only 70 files changed, 147 insertions(+), 35 deletions(-)
Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply
formats to data frames or vectors. The package aims to provide
functionality similar to that of SAS® formats. Formats are assigned to
the format attribute on data frame columns. Then when the fdata()
function is called, a new data frame is created with the column data
formatted as specified. The package also contains a value() function
to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak [aut, cre]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between fmtr versions 1.6.8 dated 2025-01-27 and 1.6.9 dated 2025-09-09
DESCRIPTION | 6 +- MD5 | 33 +++++++------ NEWS.md | 5 ++ R/best.R |only R/best_backup.R |only R/fapply.R | 95 +++++++++++++++++++++++++++++++++----- R/fmtr.R | 23 +++++++++ R/helpers.R | 2 inst/doc/fmtr-convenience.html | 4 - inst/doc/fmtr-fapply.html | 4 - inst/doc/fmtr-fapply2.html | 4 - inst/doc/fmtr-fcat.html | 4 - inst/doc/fmtr-fdata.html | 4 - inst/doc/fmtr-helpers.html | 4 - man/FormattingStrings.Rd | 30 +++++++++++- man/fapply.Rd | 51 ++++++++++++++++++++ tests/testthat/data/TEST.Rdata |only tests/testthat/test-best.R |only tests/testthat/test-best_backup.R |only tests/testthat/test-fapply.R | 27 ++++++++++ 20 files changed, 255 insertions(+), 41 deletions(-)
Title: Extract Centerline from Closed Polygons
Description: Generates skeletons of closed 2D polygons using Voronoi diagrams.
It provides methods for 'sf', 'terra', and 'geos' objects to
compute polygon centerlines based on the generated skeletons.
Voronoi, G. (1908) <doi:10.1515/crll.1908.134.198>.
Author: Anatoly Tsyplenkov [aut, cre, cph]
Maintainer: Anatoly Tsyplenkov <atsyplenkov@fastmail.com>
Diff between centerline versions 0.2.2 dated 2025-03-16 and 0.2.4 dated 2025-09-09
centerline-0.2.2/centerline/tests/testthat/Rplots.pdf |only centerline-0.2.4/centerline/DESCRIPTION | 12 centerline-0.2.4/centerline/MD5 | 23 centerline-0.2.4/centerline/NEWS.md | 264 ++-- centerline-0.2.4/centerline/R/geom_cnt.R | 29 centerline-0.2.4/centerline/README.md | 658 +++++----- centerline-0.2.4/centerline/build/partial.rdb |binary centerline-0.2.4/centerline/man/figures/README-centerline_plot.png |binary centerline-0.2.4/centerline/man/figures/README-path_plot.png |binary centerline-0.2.4/centerline/man/figures/README-skeletons_plot.png |binary centerline-0.2.4/centerline/man/geom_cnt.Rd | 91 - centerline-0.2.4/centerline/man/geom_cnt_text.Rd | 420 +++--- centerline-0.2.4/centerline/tests/testthat/test-geom_cnt.R | 240 +-- 13 files changed, 862 insertions(+), 875 deletions(-)
Title: Statistical Experiments on Batch Computing Clusters
Description: Extends the BatchJobs package to run statistical experiments on
batch computing clusters. For further details see the project web page.
Author: Bernd Bischl [aut],
Michel Lang [aut, cre],
Olaf Mersmann [aut]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between BatchExperiments versions 1.4.3 dated 2022-03-21 and 1.4.4 dated 2025-09-09
DESCRIPTION | 29 ++++++++++++++++------- MD5 | 40 ++++++++++++++++---------------- NEWS | 3 ++ R/Experiment.R | 2 - R/ExperimentRegistry.R | 2 - R/getAlgorithmIds.R | 2 - R/getExperimentParts.R | 3 +- R/getProblemIds.R | 2 - R/reduceResultsExperimentsParallel.R | 2 - R/zzz.R | 3 -- inst/CITATION | 4 +-- man/BatchExperiments.Rd | 19 +++++++++++++++ man/ExperimentJob.Rd | 2 - man/getAlgorithm.Rd | 4 +-- man/getAlgorithmIds.Rd | 6 ++-- man/getExperimentParts.Rd | 9 ++++--- man/getJobs.ExperimentRegistry.Rd | 6 ++-- man/getProblem.Rd | 2 - man/getProblemIds.Rd | 4 +-- man/makeExperimentRegistry.Rd | 2 - man/reduceResultsExperimentsParallel.Rd | 2 - 21 files changed, 92 insertions(+), 56 deletions(-)
More information about BatchExperiments at CRAN
Permanent link
Title: Extra Functionality for the 'xpose' Package
Description: Adding some at-present missing functionality, or functions
unlikely to be added to the base 'xpose' package. This includes some
diagnostic plots that have been missing in translation from 'xpose4',
but also some useful features that truly extend the capabilities of what
can be done with 'xpose'. These extensions include the concept of a set of
'xpose' objects, and diagnostics for likelihood-based models.
Author: John Prybylski [aut, cre, cph]
Maintainer: John Prybylski <jprybylski@gmail.com>
Diff between xpose.xtras versions 0.0.3 dated 2025-08-23 and 0.1.0 dated 2025-09-09
DESCRIPTION | 15 MD5 | 198 +-- NAMESPACE | 18 NEWS.md | 8 R/asserts.R |only R/categorical.R | 138 +- R/confusion.R |only R/covariates.R | 16 R/data.R | 485 ++++--- R/diag_constants.R |only R/fixes.R | 47 R/modavg_xpdb.R | 582 ++++----- R/nlmixr2.R |only R/utils.R | 167 ++ R/xp_xtras.R | 297 ++-- R/xplot_boxplot.R | 9 R/xplot_rocplot.R |only R/xpose.xtras-package.R | 7 R/xpose_set.R | 14 R/xset_features.R | 3 R/xset_plots.R | 26 R/xset_shark.R | 29 R/xset_waterfall.R | 2 R/xtra_pars.R | 2206 ++++++++++++++++++----------------- R/xtra_plots.R | 8 R/zzz.R | 52 README.md | 23 build/partial.rdb |only data/nlmixr2_m3.rda |only data/nlmixr2_warfarin.rda |only data/pheno_base.rda |binary data/pheno_final.rda |binary data/pheno_saem.rda |binary data/pheno_set.rda |binary data/pkpd_m3.rda |binary data/pkpd_m3_df.rda |binary data/vismo_dtmm.rda |binary data/vismo_pomod.rda |binary data/vismodegib.rda |binary data/xpdb_nlmixr2.rda |only data/xpdb_nlmixr2_saem.rda |only data/xpdb_set.rda |binary data/xpdb_x.rda |binary inst/WORDLIST |only inst/doc/a01-the-xp_xtra-object.html | 50 inst/doc/a02-xpose-sets.html | 18 inst/doc/a03-useful_plots.R | 16 inst/doc/a03-useful_plots.Rmd | 26 inst/doc/a03-useful_plots.html | 64 - man/add_prm_association.Rd | 18 man/attach_nlmixr2.Rd |only man/backfill_iofv.Rd | 6 man/backfill_nlmixr2_props.Rd |only man/catdv_vs_dvprobs.Rd | 14 man/confmatr_by_threshold.Rd |only man/convenience.Rd | 1 man/derive_prm.Rd |only man/diagnose_constants.Rd |only man/diff.xpose_set.Rd | 1 man/duplicated.xpose_set.Rd | 1 man/figures/README-m3-1.png |binary man/figures/README-m3_roc-1.png |only man/figures/README-shark-1.png |binary man/fill_prob_subprob_method.Rd | 7 man/filter.xpose_set.Rd | 1 man/get_prm.Rd | 2 man/get_prm_nlmixr2.Rd |only man/get_prop.Rd | 11 man/ind_roc.Rd |only man/iofv_vs_mod.Rd | 4 man/irep.Rd | 5 man/modavg_xpdb.Rd | 2 man/mutate.xpose_set.Rd | 1 man/mutate_files.Rd |only man/mutate_prm.Rd | 9 man/nlmixr2_as_xtra.Rd |only man/nlmixr2_m3.Rd |only man/nlmixr2_prm_associations.Rd |only man/nlmixr2_warfarin.Rd |only man/pheno_base.Rd | 2 man/pheno_final.Rd | 2 man/pheno_saem.Rd | 2 man/pheno_set.Rd | 2 man/pkpd_m3.Rd | 18 man/pkpd_m3_df.Rd | 4 man/pred_vs_pred.Rd | 4 man/print.xpose_plot.Rd | 1 man/proc_levels.Rd | 1 man/pull.xpose_set.Rd | 1 man/rename.xpose_set.Rd | 2 man/roc_by_mod.Rd |only man/roc_plot.Rd |only man/select.xpose_set.Rd | 1 man/set_var_types.Rd | 2 man/set_var_types.default.Rd | 2 man/set_var_types.xp_xtra.Rd | 2 man/set_var_types_x.Rd | 2 man/shark_plot.Rd | 12 man/test_nlmixr2_has_fit.Rd |only man/test_xpdb.Rd |only man/vismo_dtmm.Rd | 9 man/vismo_pomod.Rd | 10 man/vismodegib.Rd | 2 man/waterfalls.Rd | 2 man/xpdb_nlmixr2.Rd |only man/xplot_rocplot.Rd |only man/xpose.xtras-package.Rd | 2 tests/spelling.R |only tests/testthat/test-asserts.R |only tests/testthat/test-categorical.R | 2 tests/testthat/test-confusion.R |only tests/testthat/test-covariates.R | 60 tests/testthat/test-diag_constants.R |only tests/testthat/test-nlmixr2.R |only tests/testthat/test-utils.R | 100 + tests/testthat/test-xplot_boxplot.R | 2 tests/testthat/test-xplot_rocplot.R |only vignettes/a03-useful_plots.Rmd | 26 118 files changed, 2901 insertions(+), 1981 deletions(-)
Title: Self-Validated Ensemble Models with Lasso and Relaxed-Elastic
Net Regression
Description: Implements Self-Validated Ensemble Models (SVEM, Lemkus et al. (2021) <doi:10.1016/j.chemolab.2021.104439>) using Elastic Net regression via 'glmnet' (Friedman et al. <doi:10.18637/jss.v033.i01>). SVEM averages predictions from multiple models fitted to fractionally weighted bootstraps of the data, tuned with anti-correlated validation weights. Also implements the randomized permutation whole model test for SVEM (Karl (2024) <doi:10.1016/j.chemolab.2024.105122>). \\Code for the whole model test was taken from the supplementary material of Karl (2024). Development of this package was assisted by 'GPT o1-preview' for code structure and documentation.
Author: Andrew T. Karl [cre, aut]
Maintainer: Andrew T. Karl <akarl@asu.edu>
Diff between SVEMnet versions 1.5.3 dated 2025-08-22 and 2.1.3 dated 2025-09-09
SVEMnet-1.5.3/SVEMnet/man/plot.svem_significance_test.Rd |only SVEMnet-1.5.3/SVEMnet/man/svem_random_table.Rd |only SVEMnet-2.1.3/SVEMnet/DESCRIPTION | 11 SVEMnet-2.1.3/SVEMnet/MD5 | 67 SVEMnet-2.1.3/SVEMnet/NAMESPACE | 13 SVEMnet-2.1.3/SVEMnet/NEWS | 4 SVEMnet-2.1.3/SVEMnet/R/SVEMnet-package.R | 15 SVEMnet-2.1.3/SVEMnet/R/SVEMnet.R | 643 +++++--- SVEMnet-2.1.3/SVEMnet/R/coef.R | 72 SVEMnet-2.1.3/SVEMnet/R/glmnet_with_cv.R | 749 +++++++--- SVEMnet-2.1.3/SVEMnet/R/plot.svemnet.R | 54 SVEMnet-2.1.3/SVEMnet/R/plot.svemtest.R | 100 - SVEMnet-2.1.3/SVEMnet/R/predict.cv.R | 123 + SVEMnet-2.1.3/SVEMnet/R/predict.svem_lasso.R | 237 +-- SVEMnet-2.1.3/SVEMnet/R/print.R | 6 SVEMnet-2.1.3/SVEMnet/R/svem_random_table.R | 384 ++--- SVEMnet-2.1.3/SVEMnet/R/svem_significance_test.R | 271 +-- SVEMnet-2.1.3/SVEMnet/R/svem_significance_test_parallel.R | 177 +- SVEMnet-2.1.3/SVEMnet/inst/doc/SVEMnet_vignette.R | 8 SVEMnet-2.1.3/SVEMnet/inst/doc/SVEMnet_vignette.Rmd | 29 SVEMnet-2.1.3/SVEMnet/inst/doc/SVEMnet_vignette.html | 410 ----- SVEMnet-2.1.3/SVEMnet/man/SVEMnet-package.Rd | 19 SVEMnet-2.1.3/SVEMnet/man/SVEMnet.Rd | 225 +-- SVEMnet-2.1.3/SVEMnet/man/coef.svem_model.Rd | 22 SVEMnet-2.1.3/SVEMnet/man/glmnet_with_cv.Rd | 125 + SVEMnet-2.1.3/SVEMnet/man/plot.svem_model.Rd | 23 SVEMnet-2.1.3/SVEMnet/man/plot_svem_significance_tests.Rd |only SVEMnet-2.1.3/SVEMnet/man/predict.svem_model.Rd | 69 SVEMnet-2.1.3/SVEMnet/man/predict_cv.Rd | 39 SVEMnet-2.1.3/SVEMnet/man/print.svem_significance_test.Rd | 4 SVEMnet-2.1.3/SVEMnet/man/svem_random_table_from_model.Rd |only SVEMnet-2.1.3/SVEMnet/man/svem_significance_test.Rd | 179 -- SVEMnet-2.1.3/SVEMnet/man/svem_significance_test_parallel.Rd | 125 + SVEMnet-2.1.3/SVEMnet/vignettes/SVEMnet_vignette.Rmd | 29 SVEMnet-2.1.3/SVEMnet/vignettes/bic_sim_v2.R |only SVEMnet-2.1.3/SVEMnet/vignettes/sim_26AUG25.R |only SVEMnet-2.1.3/SVEMnet/vignettes/sim_27AUG25_pp.R |only SVEMnet-2.1.3/SVEMnet/vignettes/sim_27AUG25_second_script_pp.R |only SVEMnet-2.1.3/SVEMnet/vignettes/sim_28AUG25_script.R |only 39 files changed, 2255 insertions(+), 1977 deletions(-)
Title: Optimization-Based Stable Balancing Weights
Description: Use optimization to estimate weights that balance covariates for binary, multi-category, continuous, and multivariate treatments in the spirit of Zubizarreta (2015) <doi:10.1080/01621459.2015.1023805>. The degree of balance can be specified for each covariate. In addition, sampling weights can be estimated that allow a sample to generalize to a population specified with given target moments of covariates.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between optweight versions 0.2.5 dated 2019-09-16 and 1.0.0 dated 2025-09-09
optweight-0.2.5/optweight/R/SHARED.R |only optweight-0.2.5/optweight/R/check_functions.R |only optweight-0.2.5/optweight/build/partial.rdb |only optweight-0.2.5/optweight/man/check.targets.Rd |only optweight-0.2.5/optweight/man/check.tols.Rd |only optweight-1.0.0/optweight/DESCRIPTION | 37 optweight-1.0.0/optweight/MD5 | 61 optweight-1.0.0/optweight/NAMESPACE | 50 optweight-1.0.0/optweight/NEWS.md | 72 - optweight-1.0.0/optweight/R/chk-utilities.R |only optweight-1.0.0/optweight/R/functions_for_processing.R | 375 ++++- optweight-1.0.0/optweight/R/opt_prep.R |only optweight-1.0.0/optweight/R/optweight-package.R |only optweight-1.0.0/optweight/R/optweight.R | 605 ++++++--- optweight-1.0.0/optweight/R/optweight.fit.R | 1132 ++++++++--------- optweight-1.0.0/optweight/R/optweight.svy.R | 190 ++ optweight-1.0.0/optweight/R/optweight.svy.fit.R | 364 ++--- optweight-1.0.0/optweight/R/plot.optweight.R | 132 + optweight-1.0.0/optweight/R/process_targets.R |only optweight-1.0.0/optweight/R/process_tols.R |only optweight-1.0.0/optweight/R/summary.R | 535 ++++---- optweight-1.0.0/optweight/R/utils.R |only optweight-1.0.0/optweight/README.md | 343 +---- optweight-1.0.0/optweight/build/stage23.rdb |only optweight-1.0.0/optweight/build/vignette.rds |only optweight-1.0.0/optweight/inst |only optweight-1.0.0/optweight/man/figures |only optweight-1.0.0/optweight/man/macros |only optweight-1.0.0/optweight/man/optweight-package.Rd |only optweight-1.0.0/optweight/man/optweight.Rd | 322 ++-- optweight-1.0.0/optweight/man/optweight.fit.Rd | 222 ++- optweight-1.0.0/optweight/man/optweight.svy.Rd | 163 +- optweight-1.0.0/optweight/man/optweight.svy.fit.Rd | 134 -- optweight-1.0.0/optweight/man/plot.optweight.Rd | 100 - optweight-1.0.0/optweight/man/process_targets.Rd |only optweight-1.0.0/optweight/man/process_tols.Rd |only optweight-1.0.0/optweight/man/summary.optweight.Rd | 119 - optweight-1.0.0/optweight/tests |only optweight-1.0.0/optweight/vignettes |only 39 files changed, 2892 insertions(+), 2064 deletions(-)
Title: Machine Learning Experiments
Description: Provides 'R6' objects to perform parallelized hyperparameter
optimization and cross-validation. Hyperparameter optimization can be
performed with Bayesian optimization (via 'ParBayesianOptimization'
<https://cran.r-project.org/package=ParBayesianOptimization>) and grid
search. The optimized hyperparameters can be validated using k-fold
cross-validation. Alternatively, hyperparameter optimization and
validation can be performed with nested cross-validation. While
'mlexperiments' focuses on core wrappers for machine learning
experiments, additional learner algorithms can be supplemented by
inheriting from the provided learner base class.
Author: Lorenz A. Kapsner [cre, aut, cph]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between mlexperiments versions 0.0.6 dated 2025-09-06 and 0.0.7 dated 2025-09-09
DESCRIPTION | 6 MD5 | 56 - R/MLCrossValidation.R | 598 +++++++------- R/MLNestedCV.R | 638 +++++++-------- R/cv_performance.R | 396 ++++----- R/learner_knn.R | 480 +++++------ R/learner_rpart.R | 752 ++++++++--------- R/utils_metrics.R | 99 +- R/utils_validate_fold_equality.R | 272 +++--- inst/doc/mlexperiments_knn_binary.qmd | 684 ++++++++-------- inst/doc/mlexperiments_knn_multiclass.qmd | 766 +++++++++--------- inst/doc/mlexperiments_rpart_binary.qmd | 1092 +++++++++++++------------- inst/doc/mlexperiments_rpart_multiclass.qmd | 1126 +++++++++++++------------- inst/doc/mlexperiments_rpart_regression.qmd | 1108 +++++++++++++------------- inst/doc/mlexperiments_starter.qmd | 1130 +++++++++++++-------------- man/metric.Rd | 80 - tests/testthat/test-fold_equality.R | 206 ++-- tests/testthat/test-glm.R | 322 +++---- tests/testthat/test-glm_predictions.R | 440 +++++----- tests/testthat/test-knn.R | 604 +++++++------- tests/testthat/test-lm.R | 444 +++++----- tests/testthat/test-rpart_classification.R | 504 ++++++------ tests/testthat/test-rpart_regression.R | 502 +++++------ vignettes/mlexperiments_knn_binary.qmd | 684 ++++++++-------- vignettes/mlexperiments_knn_multiclass.qmd | 766 +++++++++--------- vignettes/mlexperiments_rpart_binary.qmd | 1092 +++++++++++++------------- vignettes/mlexperiments_rpart_multiclass.qmd | 1126 +++++++++++++------------- vignettes/mlexperiments_rpart_regression.qmd | 1108 +++++++++++++------------- vignettes/mlexperiments_starter.qmd | 1130 +++++++++++++-------------- 29 files changed, 9108 insertions(+), 9103 deletions(-)
Title: Calibrates and Reweights Units in Samples
Description: Provides user-friendly tools for calibration in survey sampling.
The package is production-oriented, and its interface is inspired by the famous
popular macro 'Calmar' for SAS, so that 'Calmar' users can quickly get used to
'icarus'. In addition to calibration (with linear, raking and logit methods),
'icarus' features functions for calibration on tight bounds and penalized
calibration.
Author: Antoine Rebecq [aut] ,
Khaled Larbi [cre],
Institut national de la statistique et des etudes economiques [cph]
Maintainer: Khaled Larbi <khaled.larbi@insee.fr>
Diff between icarus versions 0.3.2 dated 2023-05-27 and 0.3.3 dated 2025-09-09
DESCRIPTION | 17 ++++++++++------- MD5 | 4 ++-- tests/testthat/test_calibration_small_dataset.R | 2 +- 3 files changed, 13 insertions(+), 10 deletions(-)
Title: Turnkey Visualisations for Exploratory Data Analysis
Description: Provides interactive visualisations for exploratory data analysis of high-dimensional datasets.
Includes parallel coordinate plots for exploring large datasets with mostly quantitative features,
but also stacked one-dimensional visualisations that more effectively show missingness and complex categorical relationships in smaller datasets.
Author: Sam El-Kamand [aut, cre] ,
Children's Cancer Institute Australia [cph]
Maintainer: Sam El-Kamand <sam.elkamand@gmail.com>
Diff between ggEDA versions 0.1.0 dated 2025-05-07 and 0.2.0 dated 2025-09-09
DESCRIPTION | 9 +- MD5 | 33 +++++----- NEWS.md | 17 +++++ R/ggparallel.R | 18 +++-- R/ggparallel_options.R | 12 +++ R/ggstack.R | 88 ++++++++++++++++++++++----- R/ggstack_options.R | 15 +++- README.md | 35 ++++++++++ man/figures/README-customise_colours-1.png |binary man/figures/README-example-1.png |binary man/figures/README-minibeans_class-1.png |binary man/figures/README-minibeans_highlight-1.png |binary man/figures/README-minibeans_noclass-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |only man/ggparallel_options.Rd | 10 ++- man/ggstack_options.Rd | 12 ++- tests/testthat/test-ggstack.R | 39 +++++++++++ 18 files changed, 235 insertions(+), 53 deletions(-)
Title: Maximum Likelihood Estimation for Probability Functions from
Data Sets
Description: Total Time on Test plot and routines for parameter estimation of
any lifetime distribution implemented in R via maximum likelihood (ML) given
a data set. It is implemented thinking on parametric survival analysis, but
it feasible to use in parameter estimation of probability density or mass
functions in any field. The main routines 'maxlogL' and 'maxlogLreg' are
wrapper functions specifically developed for ML estimation. There are
included optimization procedures such as 'nlminb' and 'optim' from base
package, and 'DEoptim' Mullen (2011) <doi:10.18637/jss.v040.i06>. Standard
errors are estimated with 'numDeriv' Gilbert (2011)
<https://CRAN.R-project.org/package=numDeriv> or the option 'Hessian = TRUE'
of 'optim' function.
Author: Jaime Mosquera [aut, cre, cph] ,
Freddy Hernandez [ctb]
Maintainer: Jaime Mosquera <jmosquerag@unal.edu.co>
Diff between EstimationTools versions 4.0.0 dated 2022-12-10 and 4.3.1 dated 2025-09-09
DESCRIPTION | 40 MD5 | 225 +- NAMESPACE | 171 + NEWS.md | 164 + R/ALL-data.R |only R/Cells-data.R | 29 R/Fibers-data.R | 26 R/Hazard_Shape.R | 86 R/LinkFunc.R | 372 ++-- R/TTTE_Analytical.R | 868 ++++----- R/TTT_hazard_shape.R | 596 +++--- R/bootstrap_maxlogL.R | 282 +-- R/coef.maxlogL.R | 184 +- R/custom_optimizer.R |only R/expected_value.R |only R/gauss_quad.R | 220 +- R/generic_funcs_EstimationTools.R | 30 R/globals.R | 2 R/hazard_fun.R | 377 +++- R/head-neck-cancer-data.R |only R/inherit_methods.R | 80 R/integration.R | 178 - R/internal.R | 244 +- R/interp.options.R | 102 - R/key_functions.R | 252 +- R/legend.HazardShape.R | 228 +- R/loess.options.R | 86 R/maxlogL.R | 978 +++++----- R/maxlogLreg.R | 1636 +++++++++--------- R/plot.HazardShape.R | 523 ++--- R/plot.empiricalTTT.R | 184 +- R/plot.maxlogL.R |only R/predict.maxlogL.R | 398 ++-- R/print.HazardShape.R | 88 R/residuals.R | 462 +++-- R/summary.maxlogL.R | 459 ++--- R/summate.R | 140 - R/utils.R |only R/zzz.R | 18 README.md | 130 - build/partial.rdb |binary build/vignette.rds |binary data/ALL_colosimo_table_4_1.rda |only data/ALL_colosimo_table_4_3.rda |only data/head_neck_cancer.rda |only inst/REFERENCES.bib | 293 +-- inst/WORDLIST |only inst/doc/Bootstrap_implementation.R | 94 - inst/doc/Bootstrap_implementation.Rmd | 216 +- inst/doc/Bootstrap_implementation.html | 1023 +++++------ inst/doc/Examples.R | 74 inst/doc/Examples.Rmd | 182 +- inst/doc/Examples.html | 947 +++++----- inst/refs.bib | 825 ++++----- man/ALL_colosimo_table_4_1.Rd |only man/ALL_colosimo_table_4_3.Rd |only man/Fibers.Rd | 50 man/NegInv_link.Rd | 114 - man/cum_hazard.maxlogL.Rd |only man/cum_hazard_fun.Rd |only man/expected_value.Rd |only man/expected_value.maxlogL.Rd |only man/figures/hexastick.R | 60 man/hazard_fun.Rd | 46 man/head_neck_cancer.Rd |only man/integration.Rd | 12 man/internalfunc.Rd | 3 man/is.maxlogL.Rd | 5 man/loess.options.Rd | 2 man/log_link.Rd | 114 - man/logit_link.Rd | 134 - man/maxlogL.Rd | 342 +-- man/maxlogLreg.Rd | 489 ++--- man/plot.maxlogL.Rd |only man/reduction_cells.Rd | 3 man/residuals.maxlogL.Rd | 80 man/set_optimizer.Rd |only man/summary.maxlogL.Rd | 180 - tests/figs/deps.txt | 6 tests/figs/tttplot/ttt-plot.svg | 158 - tests/spelling.R | 9 tests/testthat.R | 8 tests/testthat/_snaps/HazardShape_print.md | 14 tests/testthat/_snaps/TTT_HazardShape |only tests/testthat/_snaps/TTT_HazardShape_EmpiricalTTT.md | 14 tests/testthat/_snaps/TTTplot |only tests/testthat/_snaps/maxlogL_DEoptim.md | 36 tests/testthat/_snaps/maxlogL_ga.md | 36 tests/testthat/_snaps/maxlogL_nlminb.md | 36 tests/testthat/_snaps/maxlogL_optim.md | 36 tests/testthat/test-HazardShape_print.R | 78 tests/testthat/test-Hazard_Shape.R | 76 tests/testthat/test-TTTE_Analytical_SurvError.R | 8 tests/testthat/test-TTTE_Analytical_character.R | 18 tests/testthat/test-TTTE_Analytical_factor.R | 10 tests/testthat/test-TTTE_Analytical_numeric.R | 78 tests/testthat/test-TTTE_Analytical_numeric2.R | 74 tests/testthat/test-TTTE_Analytical_response.R | 12 tests/testthat/test-TTT_HazardShape.R | 18 tests/testthat/test-TTT_HazardShape_EmpiricalTTT.R | 16 tests/testthat/test-TTTplot.R | 20 tests/testthat/test-bathtub_hazard.R | 76 tests/testthat/test-coef.R | 28 tests/testthat/test-coefMany.R | 30 tests/testthat/test-coefMany_maxlogL.R | 20 tests/testthat/test-coefMany_oneparam.R | 20 tests/testthat/test-coef_maxlogL.R | 18 tests/testthat/test-decreasing_hazard.R | 76 tests/testthat/test-decreasing_hazard2.R | 76 tests/testthat/test-increasing_hazard.R | 76 tests/testthat/test-inherits_HazardShape.R | 14 tests/testthat/test-inherits_empiricalTTT.R | 14 tests/testthat/test-inherits_maxlogLreg.R | 50 tests/testthat/test-interp_options.R | 20 tests/testthat/test-interp_options_error.R | 10 tests/testthat/test-loess_options.R | 16 tests/testthat/test-loess_options_error.R | 8 tests/testthat/test-maxlogL_DEoptim.R | 22 tests/testthat/test-maxlogL_ga.R | 24 tests/testthat/test-maxlogL_nlminb.R | 24 tests/testthat/test-maxlogL_optim.R | 24 tests/testthat/test-unimodal_hazard.R | 76 vignettes/Bootstrap_implementation.Rmd | 216 +- vignettes/Examples.Rmd | 182 +- 124 files changed, 8860 insertions(+), 8167 deletions(-)
More information about EstimationTools at CRAN
Permanent link
Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for top-down exploratory data analysis
of spectral data including nuclear magnetic resonance (NMR), infrared (IR),
Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy.
Includes functions for plotting and inspecting spectra, peak alignment,
hierarchical cluster analysis (HCA), principal components analysis (PCA) and
model-based clustering. Robust methods appropriate for this type of
high-dimensional data are available. ChemoSpec is designed for structured
experiments, such as metabolomics investigations, where the samples fall into
treatment and control groups. Graphical output is formatted consistently for
publication quality plots. ChemoSpec is intended to be very user friendly and
to help you get usable results quickly. A vignette covering typical operations
is available.
Author: Bryan A. Hanson [aut, cre] ,
Mike Bostock [cph, ctb] ,
Matt Keinsley [ctb] ,
Tejasvi Gupta [ctb]
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpec versions 6.3.0 dated 2025-07-31 and 6.3.1 dated 2025-09-09
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/binData.R | 2 +- R/surveySpectra.R | 6 ++++++ inst/doc/ChemoSpec.pdf |binary vignettes/ChemoSpecStatic.pdf |binary vignettes/manuals.bib | 6 +++--- 8 files changed, 26 insertions(+), 16 deletions(-)