Title: NASA POWER API Client
Description: An API client for NASA POWER global meteorology, surface
solar energy and climatology data API. POWER (Prediction Of Worldwide
Energy Resources) data are freely available for download with varying
spatial resolutions dependent on the original data and with several
temporal resolutions depending on the POWER parameter and community.
This work is funded through the NASA Earth Science Directorate Applied
Science Program. For more on the data themselves, the methodologies
used in creating, a web- based data viewer and web access, please see
<https://power.larc.nasa.gov/>.
Author: Adam H. Sparks [aut, cre] ,
Scott Chamberlain [rev] ,
Hazel Kavili [rev] ,
Alison Boyer [rev] ,
Fernando Miguez [ctb] ,
Maelle Salmon [ctb] ,
Phillip D. Alderman [ctb] ` must use `I` for literal data as of
vroom 1.5.0.', see
<https://github.com/ropen [...truncated...]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between nasapower versions 4.2.0 dated 2024-02-02 and 4.2.1 dated 2024-05-17
nasapower-4.2.0/nasapower/vignettes/precompile.R |only nasapower-4.2.1/nasapower/DESCRIPTION | 129 +++------- nasapower-4.2.1/nasapower/MD5 | 28 +- nasapower-4.2.1/nasapower/NEWS.md | 6 nasapower-4.2.1/nasapower/R/get_power.R | 7 nasapower-4.2.1/nasapower/R/query_parameters.R | 31 +- nasapower-4.2.1/nasapower/README.md | 34 +- nasapower-4.2.1/nasapower/build/vignette.rds |binary nasapower-4.2.1/nasapower/inst/WORDLIST | 2 nasapower-4.2.1/nasapower/inst/doc/nasapower.Rmd | 37 +- nasapower-4.2.1/nasapower/inst/doc/nasapower.html | 29 +- nasapower-4.2.1/nasapower/man/nasapower-package.Rd | 31 +- nasapower-4.2.1/nasapower/man/query_parameters.Rd | 11 nasapower-4.2.1/nasapower/tests/testthat/test-internal_functions.R | 4 nasapower-4.2.1/nasapower/vignettes/!precompile.R |only nasapower-4.2.1/nasapower/vignettes/nasapower.Rmd | 37 +- 16 files changed, 184 insertions(+), 202 deletions(-)
Title: 'Shiny' Modules for General Tasks
Description: 'Shiny' apps can often make use of the same key elements, this package provides modules for common tasks (data upload, wrangling data, figure generation and saving the app state). These modules can react and interact as well as generate code to create reproducible analyses.
Author: John Harrold [aut, cre]
Maintainer: John Harrold <john.m.harrold@gmail.com>
Diff between formods versions 0.1.4 dated 2024-04-03 and 0.1.5 dated 2024-05-17
DESCRIPTION | 6 - MD5 | 30 +++---- NEWS.md | 14 ++- R/ASM_Server.R | 106 ++++++++++++++++++++++++- R/DW_Server.R | 4 R/FG_Server.R | 173 ++++++++++++++++++++++------------------- R/formods.R | 73 ++++++++++++++--- inst/doc/included_modules.html | 2 inst/doc/making_modules.Rmd | 9 +- inst/doc/making_modules.html | 81 +++++++++++++------ inst/templates/ASM.yaml | 7 + inst/templates/ZZ_Server.R | 32 ++++++- inst/templates/formods.yaml | 67 +++++++++++---- inst/test_apps/FM_report.R | 3 man/FM_generate_report.Rd | 7 + vignettes/making_modules.Rmd | 9 +- 16 files changed, 455 insertions(+), 168 deletions(-)
Title: Simple and Configurable Tables in 'HTML', 'LaTeX', 'Markdown',
'Word', 'PNG', 'PDF', and 'Typst' Formats
Description: Create highly customized tables with this simple and dependency-free package. Data frames can be converted to 'HTML', 'LaTeX', 'Markdown', 'Word', 'PNG', 'PDF', or 'Typst' tables. The user interface is minimalist and easy to learn. The syntax is concise. 'HTML' tables can be customized using the flexible 'Bootstrap' framework, and 'LaTeX' code with the 'tabularray' package.
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between tinytable versions 0.2.1 dated 2024-03-28 and 0.3.0 dated 2024-05-17
tinytable-0.2.1/tinytable/man/rbind2-tinytable-ANY-method.Rd |only tinytable-0.3.0/tinytable/DESCRIPTION | 15 tinytable-0.3.0/tinytable/MD5 | 110 +++--- tinytable-0.3.0/tinytable/NEWS.md | 50 +++ tinytable-0.3.0/tinytable/R/build_tt.R | 6 tinytable-0.3.0/tinytable/R/escape.R | 12 tinytable-0.3.0/tinytable/R/finalize_bootstrap.R | 6 tinytable-0.3.0/tinytable/R/finalize_typst.R | 19 + tinytable-0.3.0/tinytable/R/format_tt.R | 123 +++++-- tinytable-0.3.0/tinytable/R/group_tabularray.R | 2 tinytable-0.3.0/tinytable/R/group_typst.R | 28 + tinytable-0.3.0/tinytable/R/rbind2.R | 4 tinytable-0.3.0/tinytable/R/sanity.R | 22 + tinytable-0.3.0/tinytable/R/save_tt.R | 8 tinytable-0.3.0/tinytable/R/style_bootstrap.R | 6 tinytable-0.3.0/tinytable/R/style_tabularray.R | 2 tinytable-0.3.0/tinytable/R/style_tt.R | 41 +- tinytable-0.3.0/tinytable/R/style_typst.R | 165 +++++----- tinytable-0.3.0/tinytable/R/theme_tt.R | 23 - tinytable-0.3.0/tinytable/R/tt.R | 29 + tinytable-0.3.0/tinytable/R/tt_bootstrap.R | 24 + tinytable-0.3.0/tinytable/R/tt_tabularray.R | 50 ++- tinytable-0.3.0/tinytable/R/tt_typst.R | 42 ++ tinytable-0.3.0/tinytable/R/utils.R | 30 + tinytable-0.3.0/tinytable/README.md | 69 ++-- tinytable-0.3.0/tinytable/build/partial.rdb |binary tinytable-0.3.0/tinytable/inst/templates/tabularray.tex | 1 tinytable-0.3.0/tinytable/inst/templates/typst.typ | 68 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/escape-issue150_caption_escape.txt | 6 tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/escape-issue150_caption_escape_03.txt | 2 tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/group_rows.txt | 78 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level_typ.txt | 88 +++-- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/latex-issue242.txt |only tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/tibble-markdown_pillar_num.txt | 6 tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/tibble-typst_pillar_num.txt | 75 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-complicated.txt | 112 ++++-- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-font_size.txt | 89 ++++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-formatting.txt | 75 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-grid.txt | 72 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-issue-139_misaligned_rule_with_group_tt.txt | 141 ++++++-- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-italic_markdown.txt | 76 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-missing_value_replacement.txt | 75 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-more_formatting.txt | 75 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-no_headers.txt | 73 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-significant_cell.txt | 75 +++- tinytable-0.3.0/tinytable/inst/tinytest/_tinysnapshot/typst-striped.txt | 97 ++++- tinytable-0.3.0/tinytable/inst/tinytest/test-format_tt.R | 39 ++ tinytable-0.3.0/tinytable/inst/tinytest/test-html.R | 2 tinytable-0.3.0/tinytable/inst/tinytest/test-latex.R | 8 tinytable-0.3.0/tinytable/inst/tinytest/test-markdown.R | 2 tinytable-0.3.0/tinytable/inst/tinytest/test-tibble.R | 9 tinytable-0.3.0/tinytable/inst/tinytest/test-typst.R | 55 +-- tinytable-0.3.0/tinytable/inst/tinytest/test-width.R |only tinytable-0.3.0/tinytable/man/format_tt.Rd | 53 ++- tinytable-0.3.0/tinytable/man/initialize-tinytable-method.Rd | 8 tinytable-0.3.0/tinytable/man/rbind2-tinytable-tinytable-method.Rd |only tinytable-0.3.0/tinytable/man/style_tt.Rd | 3 tinytable-0.3.0/tinytable/man/tt.Rd | 27 + 58 files changed, 1687 insertions(+), 689 deletions(-)
Title: Fast Approximation of Time-Varying Infectious Disease
Transmission Rates
Description: A fast method for approximating time-varying infectious disease
transmission rates from disease incidence time series and other
data, based on a discrete time approximation of an SEIR model,
as analyzed in Jagan et al. (2020) <doi:10.1371/journal.pcbi.1008124>.
Author: Mikael Jagan [aut, cre]
Maintainer: Mikael Jagan <jaganmn@mcmaster.ca>
Diff between fastbeta versions 0.2.0 dated 2023-12-11 and 0.3.0 dated 2024-05-17
fastbeta-0.2.0/fastbeta/R/sir.R |only fastbeta-0.2.0/fastbeta/data/sir.e01.R |only fastbeta-0.2.0/fastbeta/data/sir.e02.R |only fastbeta-0.2.0/fastbeta/man/sir.Rd |only fastbeta-0.2.0/fastbeta/man/sir.library.Rd |only fastbeta-0.2.0/fastbeta/src/sir.c |only fastbeta-0.2.0/fastbeta/tests/sir.R |only fastbeta-0.3.0/fastbeta/DESCRIPTION | 25 - fastbeta-0.3.0/fastbeta/MD5 | 53 +-- fastbeta-0.3.0/fastbeta/NAMESPACE | 7 fastbeta-0.3.0/fastbeta/R/deconvolve.R | 36 -- fastbeta-0.3.0/fastbeta/R/fastbeta.R | 37 +- fastbeta-0.3.0/fastbeta/R/fastbeta.affine.R |only fastbeta-0.3.0/fastbeta/R/fastbeta.bootstrap.R | 91 +++-- fastbeta-0.3.0/fastbeta/R/ptpi.R | 92 ++--- fastbeta-0.3.0/fastbeta/R/seir.R |only fastbeta-0.3.0/fastbeta/build/partial.rdb |binary fastbeta-0.3.0/fastbeta/data/datalist | 4 fastbeta-0.3.0/fastbeta/data/seir.ts01.R |only fastbeta-0.3.0/fastbeta/data/seir.ts02.R |only fastbeta-0.3.0/fastbeta/inst/NEWS.Rd | 124 +++++-- fastbeta-0.3.0/fastbeta/man/deconvolve.Rd | 76 ++-- fastbeta-0.3.0/fastbeta/man/fastbeta.Rd | 216 ++++++++---- fastbeta-0.3.0/fastbeta/man/fastbeta.bootstrap.Rd | 76 ++-- fastbeta-0.3.0/fastbeta/man/ptpi.Rd | 180 ++++++---- fastbeta-0.3.0/fastbeta/man/seir.Rd |only fastbeta-0.3.0/fastbeta/man/seir.library.Rd |only fastbeta-0.3.0/fastbeta/man/smallpox.Rd | 36 +- fastbeta-0.3.0/fastbeta/src/fastbeta.c | 112 ++++-- fastbeta-0.3.0/fastbeta/src/init.c | 47 +- fastbeta-0.3.0/fastbeta/src/ptpi.c | 368 +++++++++++----------- fastbeta-0.3.0/fastbeta/src/seir.c |only fastbeta-0.3.0/fastbeta/tests/fastbeta.R | 42 +- fastbeta-0.3.0/fastbeta/tests/ptpi.R | 85 ++--- fastbeta-0.3.0/fastbeta/tests/seir.R |only 35 files changed, 989 insertions(+), 718 deletions(-)
Title: Species Trait Data from Around the Web
Description: Species trait data from many different sources, including
sequence data from 'NCBI' (<https://www.ncbi.nlm.nih.gov/>),
plant trait data from 'BETYdb', data from 'EOL' 'Traitbank',
'Birdlife' International, and more.
Author: David LeBauer [aut, cre] ,
Scott Chamberlain [aut] ,
Zachary Foster [aut],
Ignasi Bartomeus [aut],
Chris Black [aut],
David Harris [aut],
Rupert Collins [ctb]
Maintainer: David LeBauer <dlebauer@gmail.com>
Diff between traits versions 0.5.0 dated 2020-08-27 and 0.5.1 dated 2024-05-17
DESCRIPTION | 20 - MD5 | 26 - NEWS.md | 7 R/betydb.R | 2 R/traitbank.R | 24 + R/traits-package.r | 4 README.md | 6 build/vignette.rds |binary inst/doc/betydb.html | 182 +++++++------ inst/doc/traits.html | 590 ++++++++++++++++++++++--------------------- man/betydb.Rd | 2 man/traitbank.Rd | 20 - man/traits-package.Rd | 10 tests/testthat/test-betydb.R | 2 14 files changed, 488 insertions(+), 407 deletions(-)
Title: Spacekime Analytics, Time Complexity and Inferential Uncertainty
Description: Provide the core functionality to transform longitudinal data to
complex-time (kime) data using analytic and numerical techniques, visualize the original
time-series and reconstructed kime-surfaces, perform model based (e.g., tensor-linear regression)
and model-free classification and clustering methods in the book Dinov, ID and Velev, MV. (2021)
"Data Science: Time Complexity, Inferential Uncertainty, and Spacekime Analytics", De Gruyter STEM Series,
ISBN 978-3-11-069780-3. <https://www.degruyter.com/view/title/576646>.
The package includes 18 core functions which can be separated into three groups.
1) draw longitudinal data, such as Functional magnetic resonance imaging(fMRI) time-series, and forecast or transform the time-series data.
2) simulate real-valued time-series data, e.g., fMRI time-courses, detect the activated areas,
report the corresponding p-values, and visualize the p-values in the 3D brain space.
3) Laplace transform and kimesurface reconstructions of the fMRI d [...truncated...]
Author: Yongkai Qiu [aut],
Zhe Yin [aut],
Jinwen Cao [aut],
Yupeng Zhang [aut],
Yuyao Liu [aut],
Rongqian Zhang [aut],
Yueyang Shen [aut, cre],
Rouben Rostamian [ctb],
Ranjan Maitra [ctb],
Daniel Rowe [ctb],
Daniel Adrian [ctb] ,
Yunjie Guo [aut],
Ivo Dinov [...truncated...]
Maintainer: Yueyang Shen <petersyy@umich.edu>
Diff between TCIU versions 1.2.5 dated 2024-03-08 and 1.2.6 dated 2024-05-17
DESCRIPTION | 18 - MD5 | 20 - NAMESPACE | 1 R/fmri_kimesurface.R | 143 +++++++------ build/vignette.rds |binary inst/doc/tciu-LT-kimesurface.html | 412 ++++++++++++++++++-------------------- inst/doc/tciu-fMRI-analytics.R | 2 inst/doc/tciu-fMRI-analytics.Rmd | 2 inst/doc/tciu-fMRI-analytics.html | 230 ++++++++++----------- man/fmri_kimesurface.Rd | 3 vignettes/tciu-fMRI-analytics.Rmd | 2 11 files changed, 430 insertions(+), 403 deletions(-)
Title: Sieve Analysis Methods for Proportional Hazards Models
Description: Implements a suite of semiparametric and nonparametric kernel-smoothed estimation and testing procedures for continuous mark-specific stratified hazard ratio (treatment/placebo) models in a randomized treatment efficacy trial with a time-to-event endpoint. Semiparametric methods, allowing multivariate marks, are described in Juraska M and Gilbert PB (2013), Mark-specific hazard ratio model with multivariate continuous marks: an application to vaccine efficacy. Biometrics 69(2):328-337 <doi:10.1111/biom.12016>, and in Juraska M and Gilbert PB (2016), Mark-specific hazard ratio model with missing multivariate marks. Lifetime Data Analysis 22(4):606-25 <doi:10.1007/s10985-015-9353-9>. Nonparametric kernel-smoothed methods, allowing univariate marks only, are described in Sun Y and Gilbert PB (2012), Estimation of stratified mark‐specific proportional hazards models with missing marks. Scandinavian Journal of Statistics}, 39(1):34-52 <doi:10.1111/j.1467-9469.2011.00746.x> [...truncated...]
Author: Michal Juraska [aut, cre],
Li Li [ctb],
Stephanie Wu [ctb]
Maintainer: Michal Juraska <mjuraska@fredhutch.org>
Diff between sievePH versions 1.0.4 dated 2023-02-03 and 1.1 dated 2024-05-17
DESCRIPTION | 23 +-- MD5 | 35 +++-- NAMESPACE | 7 + NEWS |binary R/RcppExports.R |only R/ggplot_sieve.R | 24 ++- R/kernel_sievePH.R |only R/kernel_sievePHaipw.R |only R/plot.summary.sievePH.R | 6 R/summary.kernel_sievePH.R |only R/summary.sievePH.R | 2 R/testDensRatioGOF.R | 4 README.md | 12 + man/ggplot_sieve.Rd | 270 +++++++++++++++++++++--------------------- man/kernel_sievePH.Rd |only man/kernel_sievePHaipw.Rd |only man/plot.summary.sievePH.Rd | 176 +++++++++++++-------------- man/summary.kernel_sievePH.Rd |only man/summary.sievePH.Rd | 192 ++++++++++++++--------------- man/testDensRatioGOF.Rd | 4 src |only 21 files changed, 398 insertions(+), 357 deletions(-)
Title: Collection of Datasets for the USGS-INL Monitoring Networks
Description: A collection of analysis-ready datasets for the
U.S. Geological Survey - Idaho National Laboratory (USGS-INL)
groundwater and surface-water monitoring networks, administered by the
USGS-INL Project Office in cooperation with the U.S. Department of Energy.
The data collected from wells and surface-water stations at the
Idaho National Laboratory and surrounding areas have been used to describe
the effects of waste disposal on water contained in the
eastern Snake River Plain aquifer, located in the southeastern part of
Idaho, and the availability of water for long-term consumptive and
industrial use. The package includes long-term monitoring records dating
back to measurements from 1922. Geospatial data describing the areas from
which samples were collected or observations were made are also included in
the package. Bundling this data into a single package significantly reduces
the magnitude of data processing for researchers and provides a way to
distribute the data along with its docume [...truncated...]
Author: Jason C. Fisher [aut, cre] ,
Allison R. Trcka [aut] ,
Kerri C. Treinen [aut]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between inldata versions 1.1.5 dated 2024-04-15 and 1.2.1 dated 2024-05-17
inldata-1.1.5/inldata/build/inldata.pdf |only inldata-1.1.5/inldata/build/stage23.rdb |only inldata-1.1.5/inldata/man/round_usgs.Rd |only inldata-1.2.1/inldata/DESCRIPTION | 16 inldata-1.2.1/inldata/MD5 | 133 - inldata-1.2.1/inldata/NAMESPACE | 10 inldata-1.2.1/inldata/NEWS.md | 18 inldata-1.2.1/inldata/R/assert_url.R | 10 inldata-1.2.1/inldata/R/background.R | 6 inldata-1.2.1/inldata/R/benchmarks.R | 6 inldata-1.2.1/inldata/R/clean_sf.R |only inldata-1.2.1/inldata/R/dem.R | 4 inldata-1.2.1/inldata/R/dl.R | 8 inldata-1.2.1/inldata/R/download_file.R |only inldata-1.2.1/inldata/R/get_cache_dir.R | 27 inldata-1.2.1/inldata/R/make_data_release.R | 48 inldata-1.2.1/inldata/R/make_datasets.R | 1254 +++++++-------- inldata-1.2.1/inldata/R/make_dm.R | 48 inldata-1.2.1/inldata/R/parameters.R | 2 inldata-1.2.1/inldata/R/parse_rd_db.R | 19 inldata-1.2.1/inldata/R/percponds.R | 12 inldata-1.2.1/inldata/R/read_rdb.R |only inldata-1.2.1/inldata/R/samples.R | 4 inldata-1.2.1/inldata/R/units.R | 10 inldata-1.2.1/inldata/R/utils.R | 213 ++ inldata-1.2.1/inldata/R/write_datasets.R | 111 - inldata-1.2.1/inldata/README.md | 12 inldata-1.2.1/inldata/build/partial.rdb |only inldata-1.2.1/inldata/data/background.rda |binary inldata-1.2.1/inldata/data/benchmarks.rda |binary inldata-1.2.1/inldata/data/cities.rda |binary inldata-1.2.1/inldata/data/counties.rda |binary inldata-1.2.1/inldata/data/crs.rda |binary inldata-1.2.1/inldata/data/dem.rda |binary inldata-1.2.1/inldata/data/dl.rda |binary inldata-1.2.1/inldata/data/esrp.rda |binary inldata-1.2.1/inldata/data/facilities.rda |binary inldata-1.2.1/inldata/data/gwl.rda |binary inldata-1.2.1/inldata/data/idaho.rda |binary inldata-1.2.1/inldata/data/inl.rda |binary inldata-1.2.1/inldata/data/iwd.rda |binary inldata-1.2.1/inldata/data/lakes.rda |binary inldata-1.2.1/inldata/data/parameters.rda |binary inldata-1.2.1/inldata/data/percponds.rda |binary inldata-1.2.1/inldata/data/roads.rda |binary inldata-1.2.1/inldata/data/samples.rda |binary inldata-1.2.1/inldata/data/sites.rda |binary inldata-1.2.1/inldata/data/streams.rda |binary inldata-1.2.1/inldata/data/swm.rda |binary inldata-1.2.1/inldata/data/units.rda |binary inldata-1.2.1/inldata/inst/extdata/test.rdb |only inldata-1.2.1/inldata/inst/extdata/test.zip |only inldata-1.2.1/inldata/inst/tinytest/test_functions.R | 16 inldata-1.2.1/inldata/inst/tinytest/test_make_datasets.R |only inldata-1.2.1/inldata/man/as_posix_ct.Rd |only inldata-1.2.1/inldata/man/background.Rd | 6 inldata-1.2.1/inldata/man/benchmarks.Rd | 6 inldata-1.2.1/inldata/man/clean_sf.Rd |only inldata-1.2.1/inldata/man/dem.Rd | 4 inldata-1.2.1/inldata/man/dl.Rd | 8 inldata-1.2.1/inldata/man/download_file.Rd |only inldata-1.2.1/inldata/man/extract_archive.Rd |only inldata-1.2.1/inldata/man/figures/erd.svg | 752 ++++---- inldata-1.2.1/inldata/man/get_cache_dir.Rd | 2 inldata-1.2.1/inldata/man/get_file_ext.Rd |only inldata-1.2.1/inldata/man/inldata-package.Rd | 2 inldata-1.2.1/inldata/man/make_data_release.Rd | 8 inldata-1.2.1/inldata/man/make_datasets.Rd | 14 inldata-1.2.1/inldata/man/parameters.Rd | 2 inldata-1.2.1/inldata/man/percponds.Rd | 12 inldata-1.2.1/inldata/man/read_rdb.Rd |only inldata-1.2.1/inldata/man/round_numbers.Rd |only inldata-1.2.1/inldata/man/samples.Rd | 4 inldata-1.2.1/inldata/man/test_pkg_dir.Rd |only inldata-1.2.1/inldata/man/units.Rd | 10 inldata-1.2.1/inldata/man/write_datasets.Rd | 14 inldata-1.2.1/inldata/man/write_lines.Rd |only 77 files changed, 1595 insertions(+), 1236 deletions(-)
Title: Inference with Extreme Value Inflated Count Data
Description: Allows users to model and draw inferences from extreme value inflated count data, and to evaluate these models and compare to non extreme-value inflated counterparts. The package is built to be compatible with standard presentation tools such as 'broom', 'tidy', and 'modelsummary'.
Author: David Randahl [cre, aut],
Johan Vegelius [aut]
Maintainer: David Randahl <david.randahl@pcr.uu.se>
Diff between evinf versions 0.8.9 dated 2024-05-16 and 0.8.10 dated 2024-05-17
DESCRIPTION | 6 +++--- MD5 | 4 ++-- build/partial.rdb |binary 3 files changed, 5 insertions(+), 5 deletions(-)
Title: Render Sequence Plots using 'ggplot2'
Description: A set of wrapper functions that mainly re-produces most of the
sequence plots rendered with TraMineR::seqplot(). Whereas 'TraMineR' uses base
R to produce the plots this library draws on 'ggplot2'.
The plots are produced on the basis of a sequence object defined
with TraMineR::seqdef(). The package automates the reshaping and plotting
of sequence data. Resulting plots are of class 'ggplot', i.e. components
can be added and tweaked using '+' and regular 'ggplot2' functions.
Author: Marcel Raab [aut, cre]
Maintainer: Marcel Raab <marcel.raab@gmail.com>
Diff between ggseqplot versions 0.8.3 dated 2023-09-22 and 0.8.4 dated 2024-05-17
DESCRIPTION | 14 MD5 | 26 - NEWS.md | 6 R/ggseqdplot.R | 13 R/ggseqeplot.R | 7 R/ggseqfplot.R | 6 R/ggseqiplot.R | 11 R/ggseqmsplot.R | 13 R/ggseqmtplot.R | 9 R/ggseqrplot.R | 756 ++++++++++++++++++++++++------------------------ R/ggseqtrplot.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/ggseqplot.html | 37 +- 14 files changed, 484 insertions(+), 420 deletions(-)
Title: Tools for Graph Matching
Description: Versatile tools and data for graph matching analysis with various forms of prior information
that supports working with 'igraph' objects, matrix objects, or lists of either.
Author: Daniel Sussman [aut, cre],
Zihuan Qiao [aut],
Joshua Agterberg [ctb],
Lujia Wang [ctb],
Vince Lyzinski [ctb]
Maintainer: Daniel Sussman <sussman@bu.edu>
Diff between iGraphMatch versions 2.0.4 dated 2024-02-13 and 2.0.5 dated 2024-05-17
iGraphMatch-2.0.4/iGraphMatch/tests/testthat/_snaps/splr_matrix_class.md |only iGraphMatch-2.0.5/iGraphMatch/DESCRIPTION | 12 iGraphMatch-2.0.5/iGraphMatch/MD5 | 45 +- iGraphMatch-2.0.5/iGraphMatch/NAMESPACE | 3 iGraphMatch-2.0.5/iGraphMatch/NEWS.md | 6 iGraphMatch-2.0.5/iGraphMatch/R/check_graphs.R | 10 iGraphMatch-2.0.5/iGraphMatch/R/gm.R | 26 + iGraphMatch-2.0.5/iGraphMatch/R/graph_match_class.R | 6 iGraphMatch-2.0.5/iGraphMatch/R/init_start.R | 2 iGraphMatch-2.0.5/iGraphMatch/R/match_report.R | 6 iGraphMatch-2.0.5/iGraphMatch/R/sample_gnp.R | 2 iGraphMatch-2.0.5/iGraphMatch/R/sample_ieg.R | 2 iGraphMatch-2.0.5/iGraphMatch/R/split_igraph.R | 4 iGraphMatch-2.0.5/iGraphMatch/R/splr_matrix_class.R | 8 iGraphMatch-2.0.5/iGraphMatch/R/start.R | 4 iGraphMatch-2.0.5/iGraphMatch/build/vignette.rds |binary iGraphMatch-2.0.5/iGraphMatch/inst/doc/iGraphMatch.html | 26 - iGraphMatch-2.0.5/iGraphMatch/man/as.character.splrMatrix.Rd |only iGraphMatch-2.0.5/iGraphMatch/man/gm.Rd | 23 + iGraphMatch-2.0.5/iGraphMatch/man/iGraphMatch-package.Rd | 2 iGraphMatch-2.0.5/iGraphMatch/tests/testthat/Rplots.pdf |binary iGraphMatch-2.0.5/iGraphMatch/tests/testthat/_snaps/start.md |only iGraphMatch-2.0.5/iGraphMatch/tests/testthat/test-ieg.R | 1 iGraphMatch-2.0.5/iGraphMatch/tests/testthat/test-splr_matrix_class.R | 153 +++++----- iGraphMatch-2.0.5/iGraphMatch/tests/testthat/test-start.R | 60 +-- 25 files changed, 222 insertions(+), 179 deletions(-)
Title: Functions for Optimal Non-Bipartite Matching
Description: Perform non-bipartite matching and matched randomization. A
"bipartite" matching utilizes two separate groups, e.g. smokers being
matched to nonsmokers or cases being matched to controls. A "non-bipartite"
matching creates mates from one big group, e.g. 100 hospitals being
randomized for a two-arm cluster randomized trial or 5000 children who
have been exposed to various levels of secondhand smoke and are being
paired to form a greater exposure vs. lesser exposure comparison. At the
core of a non-bipartite matching is a N x N distance matrix for N potential
mates. The distance between two units expresses a measure of similarity or
quality as mates (the lower the better). The 'gendistance()' and
'distancematrix()' functions assist in creating this. The 'nonbimatch()'
function creates the matching that minimizes the total sum of distances
between mates; hence, it is referred to as an "optimal" matching. The
'assign.grp()' function aids in performing a matched randomization. Note
bipartit [...truncated...]
Author: Cole Beck [aut, cre],
Bo Lu [aut],
Robert Greevy [aut]
Maintainer: Cole Beck <cole.beck@vumc.org>
Diff between nbpMatching versions 1.5.4 dated 2023-08-18 and 1.5.5 dated 2024-05-17
COPYING | 32 - DESCRIPTION | 10 MD5 | 72 +-- NAMESPACE | 48 +- NEWS.md | 73 +-- R/assign.grp.R | 116 ++--- R/distancematrix.R | 274 ++++++------- R/fill.missing.R | 162 +++---- R/gendistance.R | 694 +++++++++++++++++----------------- R/make.phantoms.R | 158 +++---- R/nbpmatching-package.R | 168 ++++---- R/nonbimatch.R | 376 +++++++++--------- R/qom.R | 334 ++++++++-------- R/quantile.R | 52 +- R/subsetMatches.R | 114 ++--- R/utils.R | 138 +++--- inst/tinytest/sample_dist_mat.csv | 58 +- inst/tinytest/sample_dist_mat_wrn.csv | 58 +- inst/tinytest/test_assign.grp.R | 20 inst/tinytest/test_distancematrix.R | 70 +-- inst/tinytest/test_gendistance.R | 78 +-- inst/tinytest/test_nonbimatch.R | 60 +- inst/tinytest/test_utils.R | 24 - man/assign.grp.Rd | 88 ++-- man/distancematrix.Rd | 158 +++---- man/fill.missing.Rd | 104 ++--- man/gendistance.Rd | 270 ++++++------- man/get.sets.Rd | 88 ++-- man/make.phantoms.Rd | 114 ++--- man/nbpMatching-internal.Rd | 46 +- man/nbpMatching-package.Rd | 133 +++--- man/nonbimatch.Rd | 112 ++--- man/qom.Rd | 154 +++---- man/quantile.Rd | 72 +-- man/scalar.dist.Rd | 64 +-- man/subsetMatches.Rd | 112 ++--- src/fcorematch.f | 8 37 files changed, 2355 insertions(+), 2357 deletions(-)
Title: Translate English Sentence into Chinese, or Translate Chinese
Sentence into English
Description: If translate English or Chinese sentence, there is a faster
way for R user. You can pass in an English or Chinese sentence, ecce
package support both English and Chinese translation. It also support
browse translation results in website. In addition, also support obtain
the pinyin of the Chinese character, you can more easily understand
the pronunciation of the Chinese character.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>
Diff between ecce versions 2.0.6 dated 2023-10-09 and 3.0.1 dated 2024-05-17
DESCRIPTION | 33 ++---- LICENSE | 4 MD5 | 24 ++-- R/translate.R | 257 ++++++++++++++++++++++++------------------------- R/translate_view.R | 258 ++++++++++++++++++++++++-------------------------- README.md | 150 ++++++++++++++--------------- build/vignette.rds |binary inst/doc/ecce.R | 10 - inst/doc/ecce.Rmd | 196 ++++++++++++++++++------------------- inst/doc/ecce.html | 28 ++--- man/translate.Rd | 10 - man/translate_view.Rd | 8 - vignettes/ecce.Rmd | 196 ++++++++++++++++++------------------- 13 files changed, 580 insertions(+), 594 deletions(-)
Title: R Interface for Apache Sedona
Description: R interface for 'Apache Sedona' based on 'sparklyr'
(<https://sedona.apache.org>).
Author: Apache Sedona [aut, cre],
Jia Yu [ctb, cph],
Yitao Li [aut, cph] ,
The Apache Software Foundation [cph],
RStudio [cph]
Maintainer: Apache Sedona <private@sedona.apache.org>
Diff between apache.sedona versions 1.5.3 dated 2024-05-10 and 1.6.0 dated 2024-05-17
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/dependencies.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Mapping Data for 'usmap' Package
Description: Provides a container for data used by the 'usmap' package.
The data used by 'usmap' has been extracted into this package so that the
file size of the 'usmap' package can be reduced greatly. The data in this
package will be updated roughly once per year as new map data files are
provided by the US Census Bureau.
Author: Paolo Di Lorenzo [aut, cre]
Maintainer: Paolo Di Lorenzo <dilorenzo@hey.com>
Diff between usmapdata versions 0.2.2 dated 2024-03-08 and 0.3.0 dated 2024-05-17
DESCRIPTION | 8 MD5 | 42 +- NAMESPACE | 12 NEWS.md | 119 +++---- R/create-us-map.R | 518 ++++++++++++++++---------------- R/fips-data.R | 54 +-- R/us-map.R | 172 +++++----- R/usmapdata-package.R | 2 README.md | 196 ++++++------ inst/WORDLIST |only inst/extdata/us_counties.gpkg |binary inst/extdata/us_counties_centroids.gpkg |binary inst/extdata/us_states.gpkg |binary inst/extdata/us_states_centroids.gpkg |binary man/centroid_labels.Rd | 46 +- man/create_us_map.Rd | 148 ++++----- man/fips_data.Rd | 58 +-- man/us_map.Rd | 98 +++--- man/usmapdata.Rd | 104 +++--- tests/spelling.R |only tests/testthat.R | 24 - tests/testthat/test-fips-data.R | 82 ++--- tests/testthat/test-usmap.R | 152 ++++----- 23 files changed, 921 insertions(+), 914 deletions(-)
Title: Estimating Marginalized Risk
Description: Estimates risk as a function of a marker by integrating over other covariates in a conditional risk model.
Author: Youyi Fong [cre],
Peter Gilbert [aut],
Marco Carone [aut]
Maintainer: Youyi Fong <youyifong@gmail.com>
Diff between marginalizedRisk versions 2024.1-27 dated 2024-01-27 and 2024.5-17 dated 2024-05-17
DESCRIPTION | 6 +++--- MD5 | 6 ++++-- R/marginalized.risk.R | 1 + inst/doc/marginalizedRisk-vignette.pdf.asis |only vignettes |only 5 files changed, 8 insertions(+), 5 deletions(-)
More information about marginalizedRisk at CRAN
Permanent link
Title: Calculate the Mahalanobis Distance for a Given List of Data
Frames with Factors
Description: It provides a function that calculates the Mahalanobis distance between each pair of species in a list of data frames. Each data frame contains the observations of a species with some factors. Mahalanobis distance is a measure of dissimilarity between two vectors of multivariate random variables, based on the covariance matrix. This distance is useful for statistical matching or fusion of data, that is the integration of two data sources that refer to the same target population and that share some variables.
Author: Flavio Gioia
Maintainer: Flavio Gioia <flaviogioia.fg@gmail.com>
Diff between cmahalanobis versions 0.1.0 dated 2024-02-20 and 0.2.0 dated 2024-05-17
DESCRIPTION | 19 ++--- MD5 | 20 +++-- NAMESPACE | 5 + R/cmahalanobis.R | 134 +++++++++++++++++++++++++----------- build |only inst |only man/cmahalanobis.Rd | 15 +++- tests/testthat.R | 22 +++-- tests/testthat/cmahalanobis.R | 137 +++++++++++++++++++++++++------------ tests/testthat/test-cmahalanobis.R | 102 --------------------------- vignettes |only 11 files changed, 242 insertions(+), 212 deletions(-)
Title: Clinical Data Review Tool
Description: Creation of interactive tables, listings and figures ('TLFs')
and associated report for exploratory analysis of data in a clinical trial,
e.g. for clinical oversight activities.
Interactive figures include sunburst, treemap, scatterplot, line plot and
barplot of counts data.
Interactive tables include table of summary statistics
(as counts of adverse events, enrollment table) and listings.
Possibility to compare data (summary table or listing) across two data batches/sets.
A clinical data review report is created via study-specific configuration
files and template 'R Markdown' reports contained in the package.
Author: Laure Cougnaud [aut, cre],
Michela Pasetto [aut],
Lennart Tuijnder [aut],
Adriaan Blommaert [aut],
Arne De Roeck [ctb, rev] ,
Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between clinDataReview versions 1.5.1 dated 2024-04-24 and 1.5.2 dated 2024-05-17
DESCRIPTION | 10 ++-- MD5 | 14 ++--- R/init.R | 2 inst/NEWS | 5 ++ inst/doc/clinDataReview-dataPreprocessing.html | 6 +- inst/doc/clinDataReview-dataVisualization.html | 62 ++++++++++++------------- inst/doc/clinDataReview-reporting.html | 6 +- tests/testthat/test_scatterplotClinData.R | 56 ++++++++++++++++++++-- 8 files changed, 106 insertions(+), 55 deletions(-)
More information about clinDataReview at CRAN
Permanent link
Title: Good Regression
Description: Fit Good regression models to count data (Tur et al., 2021) <doi:10.48550/arXiv.2105.01557>. The package provides functions for model estimation and model prediction. Density, distribution function, quantile function and random generation for the Good distribution are also provided.
Author: Jordi Tur [aut, cre],
David Morina [ctb],
Pere Puig [ctb],
Argimiro Arratia [ctb],
Alejandra Cabana [ctb],
David Agis [ctb],
Amanda Fernandez-Fontelo [aut]
Maintainer: Jordi Tur <jjtur@crm.cat>
Diff between good versions 1.0.1 dated 2021-05-10 and 1.0.2 dated 2024-05-17
DESCRIPTION | 15 +++++++++++---- MD5 | 13 ++++++++++--- R/rgood.R | 4 ++-- man/rgood.Rd | 2 +- tests |only 5 files changed, 24 insertions(+), 10 deletions(-)
Title: Bayesian Additive Regression Trees with Stan-Sampled Parametric
Extensions
Description: Fits semiparametric linear and multilevel models with non-parametric additive Bayesian additive regression tree (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) components and Stan (Stan Development Team (2021) <https://mc-stan.org/>) sampled parametric ones. Multilevel models can be expressed using 'lme4' syntax (Bates, Maechler, Bolker, and Walker (2015) <doi:10.18637/jss.v067.i01>).
Author: Vincent Dorie [aut, cre] ,
Ben Goodrich [ctb] ,
Jonah Gabry [ctb] ,
Imad Ali [ctb] ,
Sam Brilleman [ctb] ,
Paul-Christian Burkner [ctb] ,
Joshua Pritikin [ctb] ,
Andrew Gelman [ctb] ,
Bob Carpenter [ctb] ,
Matt Hoffman [ctb] ,
Daniel Lee [ctb] ,
Mich [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between stan4bart versions 0.0-7 dated 2023-12-08 and 0.0-8 dated 2024-05-17
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/misc.R | 1 - inst/NEWS.Rd | 8 ++++++++ src/Makevars.win | 2 +- 5 files changed, 17 insertions(+), 10 deletions(-)
Title: Modified Poisson and Least-Squares Regressions for Binary
Outcome
Description: Modified Poisson and least-squares regression analyses for binary outcomes of Zou (2004) <doi:10.1093/aje/kwh090> and Cheung (2007) <doi:10.1093/aje/kwm223> have been standard multivariate analysis methods to estimate risk ratio and risk difference in clinical and epidemiological studies. This R package involves an easy-to-handle function to implement these analyses by simple commands. Also, recent studies have shown the ordinary robust variance estimator possibly has serious bias under small or moderate sample size situations for these methods. This package also provides computational tools to calculate alternative accurate confidence intervals (Noma and Gosho (2024) <Forthcoming>).
Author: Hisashi Noma [aut, cre]
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Diff between rqlm versions 1.2-1 dated 2024-01-19 and 1.3-1 dated 2024-05-17
DESCRIPTION | 8 ++++---- MD5 | 8 +++++--- NAMESPACE | 1 + NEWS.md | 4 ++++ R/coeff.r |only man/coeff.Rd |only 6 files changed, 14 insertions(+), 7 deletions(-)
Title: Extremely Fast Nearest Neighbor Search
Description: Finds the k nearest neighbours for every point in a given dataset using Jose Luis' 'nanoflann' library. There is support for exact searches, fixed radius searches with 'kd' trees and two distances, the 'Euclidean' and 'Manhattan'. For more information see <https://github.com/jlblancoc/nanoflann>. Also, the 'nanoflann' library is exported and ready to be used via the linking to mechanism.
Author: Manos Papadakis [aut, cre, cph],
Jose Luis Blanco [aut, cph],
Michail Tsagris [ctb]
Maintainer: Manos Papadakis <papadakm95@gmail.com>
Diff between Rnanoflann versions 0.0.2 dated 2023-12-05 and 0.0.3 dated 2024-05-17
DESCRIPTION | 8 +- MD5 | 16 ++--- NEWS.md | 11 +++ README.md | 7 +- build/partial.rdb |binary inst/include/internal/Coeff.h | 5 + inst/include/internal/Dist.h | 111 +++++++++++++++++++++++++++++++++++++--- inst/include/internal/dists.hpp | 12 +--- man/macros/system.Rd | 52 +++++++++--------- 9 files changed, 166 insertions(+), 56 deletions(-)
Title: Cluster Analysis with Missing Values by Multiple Imputation
Description: Allows clustering of incomplete observations by addressing missing values using multiple imputation. For achieving this goal, the methodology consists in three steps, following Audigier and Niang 2022 <doi:10.1007/s11634-022-00519-1>. I) Missing data imputation using dedicated models. Four multiple imputation methods are proposed, two are based on joint modelling and two are fully sequential methods, as discussed in Audigier et al. (2021) <doi:10.48550/arXiv.2106.04424>. II) cluster analysis of imputed data sets. Six clustering methods are available (distances-based or model-based), but custom methods can also be easily used. III) Partition pooling. The set of partitions is aggregated using Non-negative Matrix Factorization based method. An associated instability measure is computed by bootstrap (see Fang, Y. and Wang, J., 2012 <doi:10.1016/j.csda.2011.09.003>). Among applications, this instability measure can be used to choose a number of clusters with missing value [...truncated...]
Author: Vincent Audigier [aut, cre] ,
Hang Joon Kim [ctb]
Maintainer: Vincent Audigier <vincent.audigier@cnam.fr>
Diff between clusterMI versions 1.0.0 dated 2024-03-12 and 1.1.0 dated 2024-05-17
DESCRIPTION | 13 - MD5 | 44 +++--- R/choosem.R | 50 ++++++- R/choosenbclust.R | 125 +++++++++++------- R/chooser.R | 2 R/clusterMI-package.R | 2 R/clusterMI.R | 37 ++++- R/drawW.R | 19 ++ R/imputedata.R | 74 +++++++--- R/mclustboot.intern.R | 10 + R/myem.mix.R | 76 ++++++++--- R/myimp.mix.R | 59 ++++++++ R/onefold.chooser.R | 2 R/overimpute.R | 44 +++--- R/varselbest.R | 2 inst/doc/clusterMI.R | 321 +++++++++++++++++++++++++++++++++++++++++++---- inst/doc/clusterMI.Rmd | 321 +++++++++++++++++++++++++++++++++++++++++++---- inst/doc/clusterMI.html | 26 +-- man/choosem.Rd | 7 - man/clusterMI-package.Rd | 2 man/imputedata.Rd | 4 man/overimpute.Rd | 18 +- vignettes/clusterMI.Rmd | 321 +++++++++++++++++++++++++++++++++++++++++++---- 23 files changed, 1331 insertions(+), 248 deletions(-)
Title: General Utility Functions for Analysis of Clinical Data
Description: Utility functions to facilitate the import,
the reporting and analysis of clinical data.
Example datasets in 'SDTM' and 'ADaM' format, containing a subset of patients/domains
from the 'CDISC Pilot 01 study' are also available as R datasets to demonstrate
the package functionalities.
Author: Laure Cougnaud [aut, cre],
Michela Pasetto [aut],
Arne De Roeck [rev] ,
Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between clinUtils versions 0.1.5 dated 2024-04-23 and 0.2.0 dated 2024-05-17
DESCRIPTION | 8 +- MD5 | 18 ++--- R/loadDataADaMSDTM.R | 108 ++++++++++++++++++++++++--------- build/vignette.rds |binary data/dataADaMCDISCP01.RData |binary data/dataSDTMCDISCP01.RData |binary inst/NEWS | 4 + inst/doc/clinUtils-vignette.html | 52 +++++++-------- man/loadDataADaMSDTM.Rd | 21 ++++-- tests/testthat/test_loadDataADaMSDTM.R | 65 +++++++++++++++++++ 10 files changed, 205 insertions(+), 71 deletions(-)
Title: Make 'ggplot2' Graphics Interactive
Description: Create interactive 'ggplot2' graphics using 'htmlwidgets'.
Author: David Gohel [aut, cre],
Panagiotis Skintzos [aut],
Mike Bostock [cph] ,
Speros Kokenes [cph] ,
Eric Shull [cph] ,
Lee Thomason [cph] ,
Vladimir Agafonkin [cph] ,
Eric Book [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between ggiraph versions 0.8.9 dated 2024-02-24 and 0.8.10 dated 2024-05-17
ggiraph-0.8.10/ggiraph/DESCRIPTION | 64 +++---- ggiraph-0.8.10/ggiraph/MD5 | 43 ++--- ggiraph-0.8.10/ggiraph/NAMESPACE | 1 ggiraph-0.8.10/ggiraph/NEWS.md | 17 ++ ggiraph-0.8.10/ggiraph/R/element_interactive.R | 5 ggiraph-0.8.10/ggiraph/R/geom_boxplot_interactive.R | 3 ggiraph-0.8.10/ggiraph/R/girafe.R | 84 ++++++---- ggiraph-0.8.10/ggiraph/R/girafe_options.R | 8 ggiraph-0.8.10/ggiraph/R/guide_interactive.R | 3 ggiraph-0.8.10/ggiraph/R/labeller_interactive.R | 4 ggiraph-0.8.10/ggiraph/R/layer_interactive.R | 3 ggiraph-0.8.10/ggiraph/R/scale_interactive.R | 4 ggiraph-0.8.10/ggiraph/build/vignette.rds |binary ggiraph-0.8.10/ggiraph/inst/htmlwidgets/girafe.yaml | 8 ggiraph-0.8.10/ggiraph/inst/htmlwidgets/lib/d3-lasso-0.0.5/d3-lasso.min.js | 2 ggiraph-0.8.10/ggiraph/inst/htmlwidgets/lib/flatbush-4.4.0 |only ggiraph-0.8.10/ggiraph/inst/htmlwidgets/lib/ggiraphjs-0.8.10 |only ggiraph-0.8.10/ggiraph/inst/htmlwidgets/lib/save-svg-as-png-1.4.17/save-svg-as-png.min.js | 2 ggiraph-0.8.10/ggiraph/inst/tinytest/test-trailing-comma.R |only ggiraph-0.8.10/ggiraph/man/girafe.Rd | 22 +- ggiraph-0.8.10/ggiraph/man/girafeOutput.Rd | 23 ++ ggiraph-0.8.10/ggiraph/man/opts_toolbar.Rd | 4 ggiraph-0.8.9/ggiraph/inst/htmlwidgets/lib/flatbush-4.0.0 |only ggiraph-0.8.9/ggiraph/inst/htmlwidgets/lib/ggiraphjs-0.4.6 |only 24 files changed, 184 insertions(+), 116 deletions(-)
Title: Visualising Bipartite Networks and Calculating Some (Ecological)
Indices
Description: Functions to visualise webs and calculate a series of indices commonly used to describe pattern in (ecological) webs. It focuses on webs consisting of only two levels (bipartite), e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the web's topology.
Author: Carsten F. Dormann [aut, cre] ,
Jochen Fruend [aut] ,
Bernd Gruber [aut] ,
Stephen Beckett [ctb] ,
Mariano Devoto [ctb] ,
Gabriel M.F. Felix [ctb] ,
Jose M. Iriondo [ctb] ,
Tore Opsahl [ctb] ,
Rafael B.P. Pinheiro [ctb] ,
Rouven Strauss [ctb],
Diego [...truncated...]
Maintainer: Carsten F. Dormann <carsten.dormann@biom.uni-freiburg.de>
Diff between bipartite versions 2.19 dated 2023-11-30 and 2.20 dated 2024-05-17
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- R/compart.R | 4 ++-- R/networklevel.R | 13 ++++++++----- R/plotweb.R | 23 ++++++++++++----------- R/plotweb2.R | 2 +- R/visweb.R | 4 ++-- inst/doc/Intro2bipartite.pdf |binary man/betalinkr.Rd | 2 +- man/bipartite-package.Rd | 14 ++++++++++++-- man/networklevel.Rd | 17 ++++++++++------- 12 files changed, 64 insertions(+), 47 deletions(-)
Title: Dynamic Documents for R
Description: Convert R Markdown documents into a variety of formats.
Author: JJ Allaire [aut],
Yihui Xie [aut, cre] ,
Christophe Dervieux [aut] ,
Jonathan McPherson [aut],
Javier Luraschi [aut],
Kevin Ushey [aut],
Aron Atkins [aut],
Hadley Wickham [aut],
Joe Cheng [aut],
Winston Chang [aut],
Richard Iannone [aut] ,
Andrew Dun [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between rmarkdown versions 2.26 dated 2024-03-05 and 2.27 dated 2024-05-17
DESCRIPTION | 8 ++++---- MD5 | 23 ++++++++++++----------- NAMESPACE | 1 + NEWS.md | 8 ++++++++ R/base64.R | 3 ++- R/html_paged.R | 1 + R/publish_site.R | 3 --- R/util.R | 3 ++- README.md | 2 +- build/vignette.rds |binary inst/doc/lua-filters.html | 6 +++--- man/publish_site.Rd | 9 ++++----- tests/testthat/test-html_document_base.R |only 13 files changed, 38 insertions(+), 29 deletions(-)
Title: Network Meta-Analysis Based on Multivariate Meta-Analysis Models
Description: Network meta-analysis tools based on contrast-based approach using the multivariate meta-analysis and meta-regression models (Noma et al. (2023) <Forthcoming>). Standard analysis tools for network meta-analysis and meta-regression (e.g., synthesis analysis, ranking analysis, and creating league table) are available by simple commands. For inconsistency analyses, the local and global inconsistency tests based on the Higgins' design-by-treatment interaction model can be applied. Also, the side-splitting and the Jackson's random inconsistency model are available. Standard graphical tools for network meta-analysis (e.g., network plot, ranked forest plot, and transitivity analysis) can also be utilized. For the synthesis analyses, the Noma-Hamura's improved REML (restricted maximum likelihood)-based methods (Noma et al. (2023) <doi:10.1002/jrsm.1652> <doi:10.1002/jrsm.1651>) are adopted as the default methods.
Author: Hisashi Noma [aut, cre] ,
Kazushi Maruo [aut],
Shiro Tanaka [aut],
Toshi A. Furukawa [aut]
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Diff between NMA versions 1.4-2 dated 2024-02-18 and 1.4-3 dated 2024-05-17
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/pairwise.r | 46 +++++++++++++++++++++++++++------------------- R/setup.r | 2 ++ 5 files changed, 41 insertions(+), 27 deletions(-)
Title: Higher-Order Spectral Analysis
Description: Higher-order spectra or polyspectra of time series, such as bispectrum and bicoherence, have been investigated in abundant literature and applied to problems of signal detection in a wide range of fields. This package aims to provide a simple API to estimate and analyze them. The current implementation is based on Brillinger and Irizarry (1998) <doi:10.1016/S0165-1684(97)00217-X> for estimating bispectrum or bicoherence, Lii and Helland (1981) <doi:10.1145/355958.355961> for cross-bispectrum, and Kim and Powers (1979) <doi:10.1109/TPS.1979.4317207> for cross-bicoherence.
Author: Takeshi Abe [aut, cre]
Maintainer: Takeshi Abe <tabe@fixedpoint.jp>
Diff between rhosa versions 0.2.0 dated 2022-01-21 and 0.3.0 dated 2024-05-17
DESCRIPTION | 10 MD5 | 36 +- NAMESPACE | 2 NEWS.md | 6 R/biperiodogram.R |only R/cross_bispectra.R | 4 R/model.R | 52 +++ README.md | 23 + build/vignette.rds |binary inst/doc/example.R | 2 inst/doc/example.html | 270 ++++++++--------- inst/doc/quadratic_phase_coupling.R | 2 inst/doc/quadratic_phase_coupling.html | 514 ++++++++++++++++----------------- man/biperiodogram.Rd |only man/cross_bicoherence.Rd | 4 man/cross_bispectrum.Rd | 4 man/kim_and_powers_model.Rd |only man/three_channel_model.Rd | 2 tests/testthat/test-biperiodogram.R |only tests/testthat/test-model.R |only vignettes/data/auto |only vignettes/data/references.bib | 15 22 files changed, 529 insertions(+), 417 deletions(-)
More information about CleaningValidation at CRAN
Permanent link
Title: Convert Statistical Objects into Tidy Tibbles
Description: Summarizes key information about statistical
objects in tidy tibbles. This makes it easy to report results, create
plots and consistently work with large numbers of models at once.
Broom provides three verbs that each provide different types of
information about a model. tidy() summarizes information about model
components such as coefficients of a regression. glance() reports
information about an entire model, such as goodness of fit measures
like AIC and BIC. augment() adds information about individual
observations to a dataset, such as fitted values or influence
measures.
Author: David Robinson [aut],
Alex Hayes [aut] ,
Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd],
Indrajeet Patil [ctb] ,
Derek Chiu [ctb],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
Be [...truncated...]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between broom versions 1.0.5 dated 2023-06-09 and 1.0.6 dated 2024-05-17
broom-1.0.5/broom/tests/testthat/test-sp.R |only broom-1.0.6/broom/DESCRIPTION | 25 +-- broom-1.0.6/broom/MD5 | 127 ++++++++-------- broom-1.0.6/broom/NEWS.md | 100 ++++++++---- broom-1.0.6/broom/R/betareg-tidiers.R | 2 broom-1.0.6/broom/R/broom-package.R | 30 ++- broom-1.0.6/broom/R/broom.R | 14 - broom-1.0.6/broom/R/btergm-tidiers.R | 2 broom-1.0.6/broom/R/cluster-tidiers.R | 2 broom-1.0.6/broom/R/geepack-tidiers.R | 2 broom-1.0.6/broom/R/list-svd-tidiers.R | 5 broom-1.0.6/broom/R/margins-tidiers.R | 128 +++++++++------- broom-1.0.6/broom/R/mgcv-tidiers.R | 14 + broom-1.0.6/broom/R/muhaz-tidiers.R | 2 broom-1.0.6/broom/R/nnet-tidiers.R | 2 broom-1.0.6/broom/R/sp-tidiers.R | 98 ++---------- broom-1.0.6/broom/R/spdep-tidiers.R | 2 broom-1.0.6/broom/R/stats-anova-tidiers.R | 6 broom-1.0.6/broom/R/stats-kmeans-tidiers.R | 2 broom-1.0.6/broom/R/stats-lm-tidiers.R | 11 + broom-1.0.6/broom/R/survey-tidiers.R | 2 broom-1.0.6/broom/R/utilities.R | 4 broom-1.0.6/broom/R/vars-tidiers.R | 2 broom-1.0.6/broom/README.md | 2 broom-1.0.6/broom/build/vignette.rds |binary broom-1.0.6/broom/inst/doc/adding-tidiers.html | 4 broom-1.0.6/broom/inst/doc/available-methods.html | 4 broom-1.0.6/broom/inst/doc/bootstrapping.html | 4 broom-1.0.6/broom/inst/doc/broom.html | 66 ++++---- broom-1.0.6/broom/inst/doc/broom_and_dplyr.R | 2 broom-1.0.6/broom/inst/doc/broom_and_dplyr.html | 154 ++++++++++---------- broom-1.0.6/broom/man/augment.kmeans.Rd | 2 broom-1.0.6/broom/man/augment.lm.Rd | 6 broom-1.0.6/broom/man/augment.pam.Rd | 2 broom-1.0.6/broom/man/augment.sarlm.Rd | 2 broom-1.0.6/broom/man/broom.Rd | 13 - broom-1.0.6/broom/man/glance.anova.Rd | 2 broom-1.0.6/broom/man/glance.gam.Rd | 2 broom-1.0.6/broom/man/glance.geeglm.Rd | 2 broom-1.0.6/broom/man/glance.kmeans.Rd | 2 broom-1.0.6/broom/man/glance.margins.Rd | 56 ------- broom-1.0.6/broom/man/glance.muhaz.Rd | 2 broom-1.0.6/broom/man/glance.multinom.Rd | 2 broom-1.0.6/broom/man/glance.pam.Rd | 2 broom-1.0.6/broom/man/glance.sarlm.Rd | 2 broom-1.0.6/broom/man/glance.svyolr.Rd | 2 broom-1.0.6/broom/man/sp_tidiers.Rd | 6 broom-1.0.6/broom/man/tidy.anova.Rd | 2 broom-1.0.6/broom/man/tidy.btergm.Rd | 2 broom-1.0.6/broom/man/tidy.geeglm.Rd | 2 broom-1.0.6/broom/man/tidy.kmeans.Rd | 2 broom-1.0.6/broom/man/tidy.margins.Rd | 58 ------- broom-1.0.6/broom/man/tidy.muhaz.Rd | 2 broom-1.0.6/broom/man/tidy.multinom.Rd | 2 broom-1.0.6/broom/man/tidy.pam.Rd | 2 broom-1.0.6/broom/man/tidy.sarlm.Rd | 2 broom-1.0.6/broom/man/tidy.svyolr.Rd | 2 broom-1.0.6/broom/tests/testthat/test-betareg.R | 5 broom-1.0.6/broom/tests/testthat/test-car.R | 13 + broom-1.0.6/broom/tests/testthat/test-emmeans.R | 3 broom-1.0.6/broom/tests/testthat/test-joineRML.R | 3 broom-1.0.6/broom/tests/testthat/test-margins.R | 14 + broom-1.0.6/broom/tests/testthat/test-metafor.R | 3 broom-1.0.6/broom/tests/testthat/test-stats-anova.R | 3 broom-1.0.6/broom/tests/testthat/test-stats-lm.R | 31 +++- 65 files changed, 508 insertions(+), 566 deletions(-)
Title: Functions for Community Data and Ordinations
Description: A collection of functions useful in (vegetation) community analyses and ordinations. Includes automatic species selection for ordination diagrams, NMDS stress/scree plots, species response curves, merging of taxa as well as calculation and sorting of synoptic tables.
Author: Friedemann von Lampe [aut, cre],
Jenny Schellenberg [aut]
Maintainer: Friedemann von Lampe <fvonlampe@uni-goettingen.de>
Diff between goeveg versions 0.7.4 dated 2024-02-26 and 0.7.5 dated 2024-05-17
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 6 ++++++ R/clean_matrix.R | 12 +++++++++--- R/syntable.R | 11 ++++++----- R/trans_matrix.R | 8 ++++++-- build/partial.rdb |binary data/scale_tabs.rda |binary man/clean_matrix.Rd | 2 +- man/syntable.Rd | 4 +++- 10 files changed, 45 insertions(+), 26 deletions(-)
Title: Functions for Kernel Smoothing Supporting Wand & Jones (1995)
Description: Functions for kernel smoothing (and density estimation)
corresponding to the book:
Wand, M.P. and Jones, M.C. (1995) "Kernel Smoothing".
Author: Matt Wand [aut],
Cleve Moler [ctb] ,
Brian Ripley [trl, cre, ctb]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between KernSmooth versions 2.23-22 dated 2023-07-10 and 2.23-24 dated 2024-05-17
DESCRIPTION | 8 ++-- MD5 | 34 +++++++++---------- PORTING | 15 ++++++++ inst/po/de/LC_MESSAGES/R-KernSmooth.mo |binary inst/po/en@quot/LC_MESSAGES/R-KernSmooth.mo |binary po/R-KernSmooth.pot | 6 +-- po/R-de.po | 11 +++--- src/blkest.f | 24 +++++++------- src/cp.f | 43 ++++++++++++------------- src/dgedi.f | 32 ++++++++++-------- src/dgefa.f | 10 +++-- src/dgesl.f | 44 ++++++++++++------------- src/linbin.f | 9 ++--- src/linbin2D.f | 8 ++-- src/locpoly.f | 42 ++++++++++++------------ src/rlbin.f | 8 ++-- src/sdiag.f | 42 ++++++++++++------------ src/sstdiag.f | 48 ++++++++++++++-------------- 18 files changed, 203 insertions(+), 181 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-03 2.3.0
2024-03-28 2.2.4
2024-03-11 2.2.3
2024-02-03 2.2.2
2024-01-12 2.2.1
2023-09-14 2.2.0
2022-09-12 2.1.0
2022-04-06 2.0.3
2022-01-17 2.0.2
2021-11-17 2.0.1
2021-11-08 2.0.0
2021-10-05 1.9.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-30 4.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-02 0.0.1
Title: QTL Mapping and Hotspots Detection
Description: For QTL mapping, this package comprises several functions designed to execute diverse
tasks, such as simulating or analyzing data, calculating significance thresholds, and
visualizing QTL mapping results. The single-QTL or multiple-QTL method, which enables
the fitting and comparison of various statistical models, is employed to analyze the
data for estimating QTL parameters. The models encompass linear regression, permutation
tests, normal mixture models, and truncated normal mixture models. The Gaussian stochastic
process is utilized to compute significance thresholds for QTL detection on a genetic
linkage map within experimental populations. Two types of data, complete genotyping, and
selective genotyping data from various experimental populations, including backcross, F2,
recombinant inbred (RI) populations, and advanced intercrossed (AI) populations, are
considered in the QTL mapping analysis. For QTL hotspot detection, statistical methods can
be developed based on either utilizin [...truncated...]
Author: Ping-Yuan Chung [cre],
Chen-Hung Kao [aut],
Y.-T. Guo [aut],
H.-N. Ho [aut],
H.-I. Lee [aut],
P.-Y. Wu [aut],
M.-H. Yang [aut],
M.-H. Zeng [aut]
Maintainer: Ping-Yuan Chung <pychung@webmail.stat.sinica.edu.tw>
Diff between QTLEMM versions 1.5.3 dated 2024-04-26 and 1.5.4 dated 2024-05-17
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/EQF.plot.R | 10 +++++----- 3 files changed, 10 insertions(+), 10 deletions(-)
Title: Multiple Empirical Likelihood Tests
Description: Performs multiple empirical likelihood tests. It offers an
easy-to-use interface and flexibility in specifying hypotheses and
calibration methods, extending the framework to simultaneous
inferences. The core computational routines are implemented using the
'Eigen' 'C++' library and 'RcppEigen' interface, with 'OpenMP' for
parallel computation. Details of the testing procedures are provided
in Kim, MacEachern, and Peruggia (2023)
<doi:10.1080/10485252.2023.2206919>. A companion paper by Kim,
MacEachern, and Peruggia (2024) <doi:10.18637/jss.v108.i05> is
available for further information. This work was supported by the U.S.
National Science Foundation under Grants No. SES-1921523 and
DMS-2015552.
Author: Eunseop Kim [aut, cph, cre],
Steven MacEachern [ctb, ths],
Mario Peruggia [ctb, ths],
Pierre Chausse [rev],
Alex Stringer [rev]
Maintainer: Eunseop Kim <markean@pm.me>
Diff between melt versions 1.11.3 dated 2024-04-12 and 1.11.4 dated 2024-05-17
DESCRIPTION | 6 - MD5 | 22 +++--- NEWS.md | 5 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/article.Rnw | 22 ++---- inst/doc/article.pdf |binary inst/doc/model.html | 118 +++++++++++++++++----------------- inst/doc/performance.html | 82 +++++++++++------------ src/compute_bootstrap_calibration.cpp | 4 - vignettes/article.Rnw | 22 ++---- vignettes/references.bib | 18 +---- 12 files changed, 146 insertions(+), 153 deletions(-)
Title: Geographic and Taxonomic Occurrence R-Based Scrubbing
Description: Streamlines downloading and cleaning biodiversity data from Integrated Digitized Biocollections (iDigBio) and the Global Biodiversity Information Facility (GBIF).
Author: Natalie N. Patten [aut, cre] ,
Michelle L. Gaynor [aut] ,
Douglas E. Soltis [ctb] ,
Pamela S. Soltis [ctb]
Maintainer: Natalie N. Patten <natalienpatten@gmail.com>
Diff between gatoRs versions 1.0.1 dated 2023-11-30 and 1.0.2 dated 2024-05-17
gatoRs-1.0.1/gatoRs/vignettes/file3df86ed11ab7.html |only gatoRs-1.0.1/gatoRs/vignettes/file59dcd057fbf.html |only gatoRs-1.0.1/gatoRs/vignettes/file643446b41751.html |only gatoRs-1.0.2/gatoRs/DESCRIPTION | 8 +- gatoRs-1.0.2/gatoRs/MD5 | 24 +++--- gatoRs-1.0.2/gatoRs/README.md | 5 + gatoRs-1.0.2/gatoRs/inst/CITATION |only gatoRs-1.0.2/gatoRs/inst/doc/Introduction.Rmd | 2 gatoRs-1.0.2/gatoRs/inst/doc/Introduction.html | 2 gatoRs-1.0.2/gatoRs/man/data.Rd | 36 +++++----- gatoRs-1.0.2/gatoRs/man/gators_merge.Rd | 64 +++++++++--------- gatoRs-1.0.2/gatoRs/man/get_gbif.Rd | 70 ++++++++++---------- gatoRs-1.0.2/gatoRs/man/get_idigbio.Rd | 56 ++++++++-------- gatoRs-1.0.2/gatoRs/man/suppress_output.Rd | 44 ++++++------ gatoRs-1.0.2/gatoRs/vignettes/Introduction.Rmd | 2 15 files changed, 158 insertions(+), 155 deletions(-)