Title: Show Pride on 'ggplot2' Plots
Description: Provides multiple palettes based on pride flags with tailored themes.
Author: Laura Bakala [cre, aut, cph]
Maintainer: Laura Bakala <erdaradun.gaztea@gmail.com>
Diff between gglgbtq versions 0.1.1 dated 2022-11-01 and 0.2.0 dated 2024-06-25
gglgbtq-0.1.1/gglgbtq/R/summary.R |only gglgbtq-0.1.1/gglgbtq/R/utils.R |only gglgbtq-0.1.1/gglgbtq/R/zzz_data.R |only gglgbtq-0.1.1/gglgbtq/inst/doc/palette_history.R |only gglgbtq-0.1.1/gglgbtq/inst/doc/palette_history.Rmd |only gglgbtq-0.1.1/gglgbtq/inst/doc/palette_history.html |only gglgbtq-0.1.1/gglgbtq/man/roxygen |only gglgbtq-0.1.1/gglgbtq/tests/testthat/test-summary.R |only gglgbtq-0.1.1/gglgbtq/vignettes/palette_history.Rmd |only gglgbtq-0.2.0/gglgbtq/DESCRIPTION | 14 gglgbtq-0.2.0/gglgbtq/MD5 | 51 +-- gglgbtq-0.2.0/gglgbtq/NAMESPACE | 24 - gglgbtq-0.2.0/gglgbtq/NEWS.md | 5 gglgbtq-0.2.0/gglgbtq/R/data.R |only gglgbtq-0.2.0/gglgbtq/R/palettes.R | 50 +-- gglgbtq-0.2.0/gglgbtq/R/scales.R |only gglgbtq-0.2.0/gglgbtq/R/show_pride.R |only gglgbtq-0.2.0/gglgbtq/R/themes-extract.R |only gglgbtq-0.2.0/gglgbtq/R/themes.R | 56 +-- gglgbtq-0.2.0/gglgbtq/R/utils-docs.R | 4 gglgbtq-0.2.0/gglgbtq/R/zzz.R | 30 - gglgbtq-0.2.0/gglgbtq/build/vignette.rds |binary gglgbtq-0.2.0/gglgbtq/inst/doc/gallery.R | 57 +++ gglgbtq-0.2.0/gglgbtq/inst/doc/gallery.Rmd | 124 +++++++ gglgbtq-0.2.0/gglgbtq/inst/doc/gallery.html | 268 +++++++++++------ gglgbtq-0.2.0/gglgbtq/man/figures |only gglgbtq-0.2.0/gglgbtq/man/lgbtq-scales.Rd |only gglgbtq-0.2.0/gglgbtq/man/palette_lgbtq.Rd | 62 ++- gglgbtq-0.2.0/gglgbtq/man/show_pride.Rd | 36 +- gglgbtq-0.2.0/gglgbtq/man/theme_lgbtq.Rd | 63 ++- gglgbtq-0.2.0/gglgbtq/tests/testthat/_snaps |only gglgbtq-0.2.0/gglgbtq/tests/testthat/test-palettes.R | 46 +- gglgbtq-0.2.0/gglgbtq/tests/testthat/test-scales.R |only gglgbtq-0.2.0/gglgbtq/tests/testthat/test-show_pride.R |only gglgbtq-0.2.0/gglgbtq/vignettes/gallery.Rmd | 124 +++++++ 35 files changed, 738 insertions(+), 276 deletions(-)
Title: Fit Regularization Path for Generalized Additive Models
Description: Using overlap grouped-lasso penalties, 'gamsel' selects whether a term in a 'gam' is nonzero, linear, or a non-linear spline (up to a specified max df per variable). It fits the entire regularization path on a grid of values for the overall penalty lambda, both for gaussian and binomial families. See <doi:10.48550/arXiv.1506.03850> for more details.
Author: Alexandra Chouldechova [aut],
Trevor Hastie [aut, cre],
Balasubramanian Narasimhan [ctb],
Vitalie Spinu [ctb],
Matt Wand [ctb]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between gamsel versions 1.8-2 dated 2022-02-04 and 1.8-3 dated 2024-06-25
DESCRIPTION | 16 +++++++++------- MD5 | 4 +++- README.md |only inst/doc |only 4 files changed, 12 insertions(+), 8 deletions(-)
Title: Time Series Modeling for Air Pollution and Health
Description: Tools for specifying time series regression models.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>, with contributions from Aidan McDermott
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>
Diff between tsModel versions 0.6-1 dated 2022-05-10 and 0.6-2 dated 2024-06-25
tsModel-0.6-1/tsModel/R/balt_data.R |only tsModel-0.6-1/tsModel/man/Lag.Rd |only tsModel-0.6-1/tsModel/man/harmonic.Rd |only tsModel-0.6-1/tsModel/man/runMean.Rd |only tsModel-0.6-1/tsModel/man/tsdecomp.Rd |only tsModel-0.6-2/tsModel/DESCRIPTION | 14 ++--- tsModel-0.6-2/tsModel/MD5 | 24 ++++----- tsModel-0.6-2/tsModel/NAMESPACE | 29 ++++------- tsModel-0.6-2/tsModel/R/NMMAPS-model.R |only tsModel-0.6-2/tsModel/R/decompose.R | 26 ---------- tsModel-0.6-2/tsModel/R/lspline.R | 2 tsModel-0.6-2/tsModel/R/spatialpool.R | 27 ----------- tsModel-0.6-2/tsModel/R/tsModelSpec.R | 49 -------------------- tsModel-0.6-2/tsModel/man/balt.Rd | 64 ++++++++++++-------------- tsModel-0.6-2/tsModel/man/decompose.Rd |only tsModel-0.6-2/tsModel/man/modelTerms.Rd |only tsModel-0.6-2/tsModel/man/spatialgibbs.Rd | 73 +++++++++++------------------- 17 files changed, 89 insertions(+), 219 deletions(-)
Title: Some Useful Functions for Statistics and Visualization
Description: Offers a range of utilities and functions for everyday programming tasks. 1.Data Manipulation. Such as
grouping and merging, column splitting, and character expansion. 2.File Handling. Read and convert files
in popular formats. 3.Plotting Assistance. Helpful utilities for generating color palettes, validating
color formats, and adding transparency. 4.Statistical Analysis. Includes functions for pairwise
comparisons and multiple testing corrections, enabling perform statistical analyses with ease. 5.Graph
Plotting, Provides efficient tools for creating doughnut plot and multi-layered doughnut plot; Venn
diagrams, including traditional Venn diagrams, upset plots, and flower plots; Simplified functions for
creating stacked bar plots, or a box plot with alphabets group for multiple comparison group.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <pengchen2001@zju.edu.cn>
Diff between pcutils versions 0.2.5 dated 2024-03-19 and 0.2.6 dated 2024-06-25
pcutils-0.2.5/pcutils/man/reinstall_my_packages.Rd |only pcutils-0.2.6/pcutils/DESCRIPTION | 29 - pcutils-0.2.6/pcutils/MD5 | 72 +-- pcutils-0.2.6/pcutils/NAMESPACE | 5 pcutils-0.2.6/pcutils/NEWS.md | 21 pcutils-0.2.6/pcutils/R/l_tools.R | 164 ++++++- pcutils-0.2.6/pcutils/R/otutab.R | 8 pcutils-0.2.6/pcutils/R/pcutils-package.R | 6 pcutils-0.2.6/pcutils/R/plots.R | 361 ++++++++++++++--- pcutils-0.2.6/pcutils/R/project.R | 203 ++++++++- pcutils-0.2.6/pcutils/R/statistics.R | 67 ++- pcutils-0.2.6/pcutils/README.md | 30 - pcutils-0.2.6/pcutils/data/little_guodong.rda |binary pcutils-0.2.6/pcutils/man/china_map.Rd | 4 pcutils-0.2.6/pcutils/man/df2distance.Rd |only pcutils-0.2.6/pcutils/man/download_ncbi_genome_file.Rd |only pcutils-0.2.6/pcutils/man/figures/pcutils.png |only pcutils-0.2.6/pcutils/man/figures/pcutils1.png |binary pcutils-0.2.6/pcutils/man/figures/pcutils2.png |binary pcutils-0.2.6/pcutils/man/get_cols.Rd | 6 pcutils-0.2.6/pcutils/man/gghist.Rd | 8 pcutils-0.2.6/pcutils/man/ggmosaic.Rd |only pcutils-0.2.6/pcutils/man/grepl.data.frame.Rd | 2 pcutils-0.2.6/pcutils/man/group_box.Rd | 12 pcutils-0.2.6/pcutils/man/gsub.data.frame.Rd | 2 pcutils-0.2.6/pcutils/man/hebing.Rd | 7 pcutils-0.2.6/pcutils/man/little_guodong.Rd | 2 pcutils-0.2.6/pcutils/man/match_df.Rd |only pcutils-0.2.6/pcutils/man/metadata.Rd | 2 pcutils-0.2.6/pcutils/man/my_cat.Rd | 4 pcutils-0.2.6/pcutils/man/my_circo.Rd | 3 pcutils-0.2.6/pcutils/man/my_lm.Rd | 6 pcutils-0.2.6/pcutils/man/otutab.Rd | 2 pcutils-0.2.6/pcutils/man/plot.coefficients.Rd | 3 pcutils-0.2.6/pcutils/man/prepare_package.Rd | 10 pcutils-0.2.6/pcutils/man/sample_map.Rd | 3 pcutils-0.2.6/pcutils/man/stackplot.Rd | 2 pcutils-0.2.6/pcutils/man/strsplit2.Rd | 2 pcutils-0.2.6/pcutils/man/taxonomy.Rd | 2 pcutils-0.2.6/pcutils/man/trans.Rd | 4 40 files changed, 863 insertions(+), 189 deletions(-)
Title: Selected Utilities Extending 'ggplot2'
Description: Selected utilities, in particular 'geoms' and 'stats'
functions, extending the 'ggplot2' package. This package imports
functions from 'EnvStats' <doi:10.1007/978-1-4614-8456-1> by Millard
(2013), 'ggpp' <https://CRAN.R-project.org/package=ggpp> by Aphalo et
al. (2023) and 'ggstats' <doi:10.5281/zenodo.10183964> by Larmarange
(2023), and then exports them. This package also contains modified
code from 'ggquickeda' <https://CRAN.R-project.org/package=ggquickeda>
by Mouksassi et al. (2023) for Kaplan-Meier lines and ticks additions
to plots. All functions are tested to make sure that they work
reliably.
Author: Daniel Sabanes Bove [aut, cre],
Samer Mouksassi [aut] ,
Michael Sachs [aut] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Daniel Sabanes Bove <daniel.sabanes_bove@rconis.com>
Diff between ggplot2.utils versions 0.3.1 dated 2024-01-08 and 0.3.2 dated 2024-06-25
DESCRIPTION | 29 +++++++++---------- MD5 | 16 +++++----- NEWS.md | 2 - inst/WORDLIST | 3 + man/geom_km.Rd | 65 ++++++++++++++++++++++++++++++++++--------- man/geom_km_ticks.Rd | 65 ++++++++++++++++++++++++++++++++++--------- man/ggplot2.utils-package.Rd | 2 - man/stat_km.Rd | 62 +++++++++++++++++++++++++++++++++-------- man/stat_km_ticks.Rd | 62 +++++++++++++++++++++++++++++++++-------- 9 files changed, 234 insertions(+), 72 deletions(-)
Title: Feature Selection Algorithms for Computer Aided Diagnosis
Description: Contains a set of utilities for building and testing statistical models (linear, logistic,ordinal or COX) for Computer Aided Diagnosis/Prognosis applications. Utilities include data adjustment, univariate analysis, model building, model-validation, longitudinal analysis, reporting and visualization.
Author: Jose Gerardo Tamez-Pena, Antonio Martinez-Torteya, Israel Alanis and Jorge Orozco
Maintainer: Jose Gerardo Tamez-Pena <jose.tamezpena@tec.mx>
Diff between FRESA.CAD versions 3.4.7 dated 2023-11-24 and 3.4.8 dated 2024-06-25
DESCRIPTION | 8 MD5 | 48 +++-- NAMESPACE | 7 NEWS | 7 R/BSWiMS.r | 21 +- R/FRESAModelingFunctions.R | 325 +++++++++++++++++++++++++------------ R/FRESAScale.r | 33 +++ R/IterativeDecorrelation.r | 278 ++++++++++++++++++++++--------- R/PoissonEventRiskCalibration.R | 38 ++-- R/RRPlot.R | 259 +++++++++++++++++++++-------- R/baggedModel.R | 1 R/baggedModelS.R |only R/predictForFresa.R | 84 +++++---- R/predictionStats.R | 5 R/randomCV.R | 3 R/randomCVFunctions.R | 75 +++++++- R/rpredict.R | 26 +- R/summary.fitFRESA.R | 2 README.md |only man/FRESA.CAD-package.Rd | 4 man/FRESAScale.Rd | 13 + man/FilterMultivariate.Rd |only man/baggedModel.Rd | 7 man/calBinProb.Rd |only man/filteredFit.Rd | 46 ++--- man/getKNNpredictionFromFormula.Rd | 3 man/predict.BAGGS.Rd |only man/predict.LogitCalPred.Rd |only 28 files changed, 913 insertions(+), 380 deletions(-)
Title: Simple Key-Value Database
Description: Implements a simple key-value style database where character string keys
are associated with data values that are stored on the disk. A simple interface is provided for inserting,
retrieving, and deleting data from the database. Utilities are provided that allow 'filehash' databases to be
treated much like environments and lists are already used in R. These utilities are provided to encourage
interactive and exploratory analysis on large datasets. Three different file formats for representing the
database are currently available and new formats can easily be incorporated by third parties for use in the
'filehash' framework.
Author: Roger D. Peng <roger.peng@austin.utexas.edu>
Maintainer: Roger D. Peng <roger.peng@austin.utexas.edu>
Diff between filehash versions 2.4-5 dated 2023-02-09 and 2.4-6 dated 2024-06-25
DESCRIPTION | 12 ++++++------ MD5 | 8 +++++--- build/vignette.rds |binary inst/doc/filehash.pdf |binary tests/digest.R |only tests/digest.Rout.save |only 6 files changed, 11 insertions(+), 9 deletions(-)
Title: MCMC Estimation of Bayesian Vectorautoregressions
Description: Efficient Markov Chain Monte Carlo (MCMC) algorithms for the
fully Bayesian estimation of vectorautoregressions (VARs) featuring
stochastic volatility (SV). Implements state-of-the-art shrinkage
priors following Gruber & Kastner (2023) <doi:10.48550/arXiv.2206.04902>.
Efficient equation-per-equation estimation following Kastner & Huber
(2020) <doi:10.1002/for.2680> and Carrerio et al. (2021)
<doi:10.1016/j.jeconom.2021.11.010>.
Author: Luis Gruber [cph, aut, cre] ,
Gregor Kastner [ctb]
Maintainer: Luis Gruber <Luis.Gruber@aau.at>
Diff between bayesianVARs versions 0.1.2 dated 2024-01-20 and 0.1.3 dated 2024-06-25
DESCRIPTION | 10 - MD5 | 16 +- NEWS.md | 4 R/bvar_wrapper.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/bayesianVARs-vignette.pdf |binary man/bvar.Rd | 2 tests/testthat/test-bvar.R | 282 +++++++++++++++++++------------------ 9 files changed, 169 insertions(+), 149 deletions(-)
Title: Bayesian MMRMs using 'brms'
Description: The mixed model for repeated measures (MMRM) is a popular
model for longitudinal clinical trial data with continuous endpoints,
and 'brms' is a powerful and versatile package for fitting Bayesian
regression models. The 'brms.mmrm' R package leverages 'brms' to run
MMRMs, and it supports a simplified interfaced to reduce difficulty
and align with the best practices of the life sciences. References:
Bürkner (2017) <doi:10.18637/jss.v080.i01>, Mallinckrodt (2008)
<doi:10.1177/009286150804200402>.
Author: William Michael Landau [aut, cre]
,
Kevin Kunzmann [aut] ,
Yoni Sidi [aut],
Christian Stock [aut] ,
Eli Lilly and Company [cph, fnd],
Boehringer Ingelheim Pharma GmbH & Co. KG [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between brms.mmrm versions 1.0.0 dated 2024-06-04 and 1.0.1 dated 2024-06-25
DESCRIPTION | 6 MD5 | 35 NAMESPACE | 1 NEWS.md | 7 R/brm_archetype.R | 14 R/brm_marginal_draws.R | 1 R/brm_prior_label.R | 4 R/brm_prior_template.R |only inst/WORDLIST | 48 - inst/doc/archetypes.Rmd | 562 +++++++---- inst/doc/archetypes.html | 662 ++++++++------ inst/doc/sbc.html | 142 +-- man/brm_prior_archetype.Rd | 3 man/brm_prior_label.Rd | 7 man/brm_prior_simple.Rd | 3 man/brm_prior_template.Rd |only tests/testthat/test-brm_prior_template.R |only vignettes/archetypes.Rmd | 562 +++++++---- vignettes/archetypes.Rmd.source | 115 +- vignettes/archetypes_figures/archetype_compare_data-1.png |binary 20 files changed, 1283 insertions(+), 889 deletions(-)
Title: Approximate POMDP Planning Software
Description: A toolkit for Partially Observed Markov Decision Processes (POMDP). Provides
bindings to C++ libraries implementing the algorithm SARSOP (Successive Approximations
of the Reachable Space under Optimal Policies) and described in Kurniawati et al (2008),
<doi:10.15607/RSS.2008.IV.009>. This package also provides a high-level interface
for generating, solving and simulating POMDP problems and their solutions.
Author: Carl Boettiger [cre, aut, cph]
,
Jeroen Ooms [aut],
Milad Memarzadeh [aut],
Hanna Kurniawati [ctb, cph],
David Hsu [ctb, cph],
Hanna Kurniawati [ctb, cph],
Wee Sun Lee [ctb, cph],
Yanzhu Du [ctb],
Xan Huang [ctb],
Trey Smith [ctb, cph],
Tony Cassandr [...truncated...]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between sarsop versions 0.6.14 dated 2023-01-10 and 0.6.15 dated 2024-06-25
DESCRIPTION | 6 - MD5 | 8 +- NEWS.md | 5 + src/Makevars | 1 src/appl-0.96/Core/SymbolSetIterator.h | 122 ++++++++++++++------------------- 5 files changed, 67 insertions(+), 75 deletions(-)
Title: Graceful 'ggplot'-Based Graphics and Other Functions for GAMs
Fitted Using 'mgcv'
Description: Graceful 'ggplot'-based graphics and utility functions for working with generalized additive models (GAMs) fitted using the 'mgcv' package. Provides a reimplementation of the plot() method for GAMs that 'mgcv' provides, as well as 'tidyverse' compatible representations of estimated smooths.
Author: Gavin L. Simpson [aut, cre, cph]
,
Henrik Singmann [ctb]
Maintainer: Gavin L. Simpson <ucfagls@gmail.com>
Diff between gratia versions 0.9.0 dated 2024-03-27 and 0.9.2 dated 2024-06-25
gratia-0.9.0/gratia/inst/doc/custom-plotting.R |only gratia-0.9.0/gratia/inst/doc/custom-plotting.Rmd |only gratia-0.9.0/gratia/inst/doc/custom-plotting.html |only gratia-0.9.0/gratia/inst/doc/posterior-simulation.R |only gratia-0.9.0/gratia/inst/doc/posterior-simulation.Rmd |only gratia-0.9.0/gratia/inst/doc/posterior-simulation.html |only gratia-0.9.0/gratia/vignettes/custom-plotting.Rmd |only gratia-0.9.0/gratia/vignettes/methods-in-ecology-and-evolution.csl |only gratia-0.9.0/gratia/vignettes/posterior-simulation.Rmd |only gratia-0.9.0/gratia/vignettes/references.bib |only gratia-0.9.2/gratia/DESCRIPTION | 23 gratia-0.9.2/gratia/MD5 | 324 +-- gratia-0.9.2/gratia/NAMESPACE | 2 gratia-0.9.2/gratia/NEWS.md | 60 gratia-0.9.2/gratia/R/confint-methods.R | 19 gratia-0.9.2/gratia/R/derivatives.R | 11 gratia-0.9.2/gratia/R/diagnose.R | 34 gratia-0.9.2/gratia/R/draw-gam.R | 66 gratia-0.9.2/gratia/R/family-utils.R | 9 gratia-0.9.2/gratia/R/fitted_values.R | 1 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gratia-0.9.2/gratia/tests/testthat/_snaps/derivatives/draw-issue-57-derivatives-for-factor-by.svg | 70 gratia-0.9.2/gratia/tests/testthat/_snaps/diagnostic-plots/appraise-diagnostic-plots.svg | 971 +++++----- gratia-0.9.2/gratia/tests/testthat/_snaps/difference-smooths/draw-difference-smooths-bivariate-gam-contours.svg | 8 gratia-0.9.2/gratia/tests/testthat/_snaps/difference-smooths/draw-difference-smooths-gamm.svg | 16 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-gam/draw-gam-dlnm-m.svg | 45 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-gam/draw-gam-m-gamm4.svg | 20 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-gam/draw-gam-quadvar-te.svg | 4 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-gam/draw-gam-rm1.svg | 2 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-gam/draw-gam-rm2.svg | 6 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-methods/draw-2d-smooth-with-spectral-palette.svg | 4 gratia-0.9.2/gratia/tests/testthat/_snaps/draw-methods/draw-am-with-2d-smooth.svg | 8 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More information about metadeconfoundR at CRAN
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Title: Bitmap Tools
Description: Provides functions for creating, modifying, and displaying bitmaps including printing them in the terminal. There is a special emphasis on monochrome bitmap fonts and their glyphs as well as colored pixel art/sprites. Provides native read/write support for the 'hex' and 'yaff' bitmap font formats and if 'monobit' <https://github.com/robhagemans/monobit> is installed can also read/write several additional bitmap font formats.
Author: Trevor L. Davis [aut, cre] ,
Frederic Cambus [tyg] ,
Markus Kuhn [tyg] ,
josehzz [art]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between bittermelon versions 1.1.2 dated 2023-12-14 and 2.0.2 dated 2024-06-25
bittermelon-1.1.2/bittermelon/R/Extract.bm_bitmap.R |only bittermelon-1.1.2/bittermelon/R/as.matrix.bm_bitmap.R |only bittermelon-1.1.2/bittermelon/R/plot.bm_bitmap.R |only bittermelon-1.1.2/bittermelon/R/utils.R |only bittermelon-1.1.2/bittermelon/inst/monobit |only bittermelon-1.1.2/bittermelon/man/Extract.bm_bitmap.Rd |only bittermelon-1.1.2/bittermelon/man/as.matrix.bm_bitmap.Rd |only bittermelon-1.1.2/bittermelon/man/figures/README-print-1.png |only bittermelon-1.1.2/bittermelon/man/plot.bm_bitmap.Rd |only bittermelon-1.1.2/bittermelon/tests/testthat/_snaps/plot.bm_bitmap |only bittermelon-1.1.2/bittermelon/tests/testthat/test-plot.bm_bitmap.R |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/capital_r_trimmed_bottom.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/capital_r_trimmed_left.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/capital_r_trimmed_right.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/capital_r_trimmed_top.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/circle_minus_lower_left.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/circle_minus_one.txt |only bittermelon-1.1.2/bittermelon/tests/testthat/txt/circle_outline.txt |only bittermelon-2.0.2/bittermelon/DESCRIPTION | 41 - bittermelon-2.0.2/bittermelon/MD5 | 374 ++++------ bittermelon-2.0.2/bittermelon/NAMESPACE | 208 +++++ bittermelon-2.0.2/bittermelon/NEWS.md | 190 ++++- bittermelon-2.0.2/bittermelon/R/Extract.bm_matrix.R |only bittermelon-2.0.2/bittermelon/R/Ops.bm_object.R | 92 -- bittermelon-2.0.2/bittermelon/R/as.matrix.bm_matrix.R |only bittermelon-2.0.2/bittermelon/R/as_bm_bitmap.R | 286 ++++++- bittermelon-2.0.2/bittermelon/R/as_bm_list.R | 22 bittermelon-2.0.2/bittermelon/R/as_bm_pixmap.R |only bittermelon-2.0.2/bittermelon/R/bind.R | 78 +- bittermelon-2.0.2/bittermelon/R/bittermelon-package.R | 29 bittermelon-2.0.2/bittermelon/R/bm_bitmap.R | 47 - bittermelon-2.0.2/bittermelon/R/bm_call.R | 10 bittermelon-2.0.2/bittermelon/R/bm_clamp.R | 104 ++ bittermelon-2.0.2/bittermelon/R/bm_compose.R | 13 bittermelon-2.0.2/bittermelon/R/bm_compress.R | 123 ++- bittermelon-2.0.2/bittermelon/R/bm_distort.R | 153 +++- bittermelon-2.0.2/bittermelon/R/bm_edit.R | 2 bittermelon-2.0.2/bittermelon/R/bm_expand.R | 109 ++ bittermelon-2.0.2/bittermelon/R/bm_extend.R | 253 +++++- bittermelon-2.0.2/bittermelon/R/bm_flip.R | 118 ++- bittermelon-2.0.2/bittermelon/R/bm_font.R | 4 bittermelon-2.0.2/bittermelon/R/bm_gray.R |only bittermelon-2.0.2/bittermelon/R/bm_invert.R |only bittermelon-2.0.2/bittermelon/R/bm_list.R | 6 bittermelon-2.0.2/bittermelon/R/bm_mask.R | 193 +++-- bittermelon-2.0.2/bittermelon/R/bm_options.R |only bittermelon-2.0.2/bittermelon/R/bm_outline.R | 105 ++ bittermelon-2.0.2/bittermelon/R/bm_overlay.R | 162 +++- bittermelon-2.0.2/bittermelon/R/bm_pad.R | 108 ++ bittermelon-2.0.2/bittermelon/R/bm_padding_lengths.R | 119 +-- bittermelon-2.0.2/bittermelon/R/bm_pixmap.R |only bittermelon-2.0.2/bittermelon/R/bm_print.R |only bittermelon-2.0.2/bittermelon/R/bm_replace.R |only bittermelon-2.0.2/bittermelon/R/bm_resize.R | 101 ++ bittermelon-2.0.2/bittermelon/R/bm_rotate.R | 71 + bittermelon-2.0.2/bittermelon/R/bm_shadow.R | 290 ++++++- bittermelon-2.0.2/bittermelon/R/bm_shift.R | 81 +- bittermelon-2.0.2/bittermelon/R/bm_trim.R | 140 ++- bittermelon-2.0.2/bittermelon/R/combine.R | 64 + bittermelon-2.0.2/bittermelon/R/farming_crops_16x16.R |only bittermelon-2.0.2/bittermelon/R/hex.R | 8 bittermelon-2.0.2/bittermelon/R/is_bm_matrix.R |only bittermelon-2.0.2/bittermelon/R/lengths.R | 99 ++ bittermelon-2.0.2/bittermelon/R/monobit.R | 102 -- bittermelon-2.0.2/bittermelon/R/plot.bm_matrix.R |only bittermelon-2.0.2/bittermelon/R/print.bm_bitmap.R | 132 ++- bittermelon-2.0.2/bittermelon/R/print.bm_pixmap.R |only bittermelon-2.0.2/bittermelon/R/sprites.R |only bittermelon-2.0.2/bittermelon/R/ucp.R | 16 bittermelon-2.0.2/bittermelon/R/utils-color.R |only bittermelon-2.0.2/bittermelon/R/yaff.R | 36 bittermelon-2.0.2/bittermelon/README.md | 303 ++++++-- bittermelon-2.0.2/bittermelon/build |only bittermelon-2.0.2/bittermelon/inst/doc |only bittermelon-2.0.2/bittermelon/inst/sprites |only bittermelon-2.0.2/bittermelon/man/Extract.bm_matrix.Rd |only bittermelon-2.0.2/bittermelon/man/Ops.bm_object.Rd | 87 -- bittermelon-2.0.2/bittermelon/man/as.array.bm_matrix.Rd |only bittermelon-2.0.2/bittermelon/man/as.matrix.bm_matrix.Rd |only bittermelon-2.0.2/bittermelon/man/as_bm_bitmap.Rd | 156 +++- bittermelon-2.0.2/bittermelon/man/as_bm_list.Rd | 8 bittermelon-2.0.2/bittermelon/man/as_bm_pixmap.Rd |only bittermelon-2.0.2/bittermelon/man/bittermelon.Rd | 42 - bittermelon-2.0.2/bittermelon/man/bm_bind.Rd | 29 bittermelon-2.0.2/bittermelon/man/bm_bitmap.Rd | 27 bittermelon-2.0.2/bittermelon/man/bm_call.Rd | 6 bittermelon-2.0.2/bittermelon/man/bm_clamp.Rd | 55 + bittermelon-2.0.2/bittermelon/man/bm_compose.Rd | 4 bittermelon-2.0.2/bittermelon/man/bm_compress.Rd | 60 + bittermelon-2.0.2/bittermelon/man/bm_distort.Rd | 88 +- bittermelon-2.0.2/bittermelon/man/bm_edit.Rd | 2 bittermelon-2.0.2/bittermelon/man/bm_expand.Rd | 40 - bittermelon-2.0.2/bittermelon/man/bm_extend.Rd | 109 ++ bittermelon-2.0.2/bittermelon/man/bm_flip.Rd | 71 + bittermelon-2.0.2/bittermelon/man/bm_font.Rd | 4 bittermelon-2.0.2/bittermelon/man/bm_gray.Rd |only bittermelon-2.0.2/bittermelon/man/bm_invert.Rd |only bittermelon-2.0.2/bittermelon/man/bm_mask.Rd | 139 ++- bittermelon-2.0.2/bittermelon/man/bm_options.Rd |only bittermelon-2.0.2/bittermelon/man/bm_outline.Rd | 54 + bittermelon-2.0.2/bittermelon/man/bm_overlay.Rd | 107 ++ bittermelon-2.0.2/bittermelon/man/bm_pad.Rd | 91 ++ bittermelon-2.0.2/bittermelon/man/bm_padding_lengths.Rd | 47 - bittermelon-2.0.2/bittermelon/man/bm_pixmap.Rd |only bittermelon-2.0.2/bittermelon/man/bm_print.Rd |only bittermelon-2.0.2/bittermelon/man/bm_replace.Rd |only bittermelon-2.0.2/bittermelon/man/bm_resize.Rd | 82 +- bittermelon-2.0.2/bittermelon/man/bm_rotate.Rd | 44 - bittermelon-2.0.2/bittermelon/man/bm_shadow.Rd | 188 ++++- bittermelon-2.0.2/bittermelon/man/bm_shift.Rd | 71 + bittermelon-2.0.2/bittermelon/man/bm_trim.Rd | 90 ++ bittermelon-2.0.2/bittermelon/man/col2hex.Rd |only bittermelon-2.0.2/bittermelon/man/col2int.Rd |only bittermelon-2.0.2/bittermelon/man/combine.Rd | 32 bittermelon-2.0.2/bittermelon/man/farming_crops_16x16.Rd |only bittermelon-2.0.2/bittermelon/man/figures/README-plot-1.png |binary bittermelon-2.0.2/bittermelon/man/figures/README-plot_gridpattern-1.png |only bittermelon-2.0.2/bittermelon/man/figures/README-plot_maze-1.png |only bittermelon-2.0.2/bittermelon/man/figures/README-plot_sprites-1.png |only bittermelon-2.0.2/bittermelon/man/hex_font.Rd | 4 bittermelon-2.0.2/bittermelon/man/is_bm_bitmap.Rd | 12 bittermelon-2.0.2/bittermelon/man/is_bm_pixmap.Rd |only bittermelon-2.0.2/bittermelon/man/lengths.Rd | 56 + bittermelon-2.0.2/bittermelon/man/monobit.Rd | 60 - bittermelon-2.0.2/bittermelon/man/plot.bm_matrix.Rd |only bittermelon-2.0.2/bittermelon/man/print.bm_bitmap.Rd | 112 ++ bittermelon-2.0.2/bittermelon/man/print.bm_pixmap.Rd |only bittermelon-2.0.2/bittermelon/man/unicode_code_points.Rd | 7 bittermelon-2.0.2/bittermelon/man/yaff_font.Rd | 4 bittermelon-2.0.2/bittermelon/tests/testthat/_snaps/plot |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_bitmap.R | 49 + bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_clamp.R | 25 bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_distort.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_expand.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_extend.R | 119 ++- bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_flip.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_gray.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_invert.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_list.R | 81 -- bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_mask.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_options.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_outline.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_overlay.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_pad.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_pixmap.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_replace.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_shift.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_trim.R | 137 ++- bittermelon-2.0.2/bittermelon/tests/testthat/test-bm_widths.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-gridpattern.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-hex.R | 7 bittermelon-2.0.2/bittermelon/tests/testthat/test-monobit.R | 4 bittermelon-2.0.2/bittermelon/tests/testthat/test-plot.R |only bittermelon-2.0.2/bittermelon/tests/testthat/test-print.bm_bitmap.R | 23 bittermelon-2.0.2/bittermelon/tests/testthat/test-print.bm_pixmap.R |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bind_bm_pixmap.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_clamp.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_distort.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_expand.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_extend_magick.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_extend_nativeRaster.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_extend_pixmap.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_extend_raster.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_flip.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_gray.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_invert.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_mask.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_outline.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_overlay.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_replace.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_rotate.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_shadow.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_shift.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_trim_magick.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_trim_nativeRaster.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_trim_pixmap.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/bm_trim_raster.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/capital_r_expand_2vw.txt | 2 bittermelon-2.0.2/bittermelon/tests/testthat/txt/capital_r_expand_2w.txt | 2 bittermelon-2.0.2/bittermelon/tests/testthat/txt/capital_r_trimmed.txt | 90 ++ bittermelon-2.0.2/bittermelon/tests/testthat/txt/gridpattern.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/maze.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/maze_solution.txt |only bittermelon-2.0.2/bittermelon/tests/testthat/txt/plus_unicode.txt | 2 bittermelon-2.0.2/bittermelon/tests/testthat/txt/print_bm_pixmap.txt |only bittermelon-2.0.2/bittermelon/vignettes |only 186 files changed, 5180 insertions(+), 1741 deletions(-)
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between XML versions 3.99-0.16.1 dated 2024-01-22 and 3.99-0.17 dated 2024-06-25
ChangeLog | 84 +++++++++++++++++++++++++++++++++++++++++++++++++++- DESCRIPTION | 6 +-- MD5 | 8 ++-- src/XMLEventParse.c | 10 ++++-- src/XMLTree.c | 4 +- 5 files changed, 101 insertions(+), 11 deletions(-)
Title: Relationship-Based Mixed-Effects Models
Description: Fit relationship-based and customized mixed-effects models with complex variance-covariance structures using the 'lme4' machinery. The core computational algorithms are implemented using the
'Eigen' 'C++' library for numerical linear algebra and 'RcppEigen' 'glue'.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between lme4breeding versions 1.0.1 dated 2024-05-17 and 1.0.21 dated 2024-06-25
ChangeLog | 10 DESCRIPTION | 8 MD5 | 48 +- R/funs.R | 272 ++++--------- R/utils.R | 133 ++++-- inst/doc/lmebreed.gxe.R | 76 +-- inst/doc/lmebreed.gxe.Rmd | 76 +-- inst/doc/lmebreed.gxe.pdf |binary inst/doc/lmebreed.qg.R | 6 inst/doc/lmebreed.qg.Rmd | 6 inst/doc/lmebreed.qg.pdf |binary man/DT_example.Rd | 5 man/DT_halfdiallel.Rd | 1 man/DT_ige.Rd | 2 man/DT_rice.Rd | 18 man/DT_wheat.Rd | 19 man/getMME.Rd | 2 man/lme4breeding-package.Rd | 4 man/lmebreed.Rd | 28 + man/tps.Rd | 2 man/umat.Rd | 5 vignettes/lmebreed.gxe.Rmd | 76 +-- vignettes/lmebreed.gxe.html | 380 ++++++++---------- vignettes/lmebreed.qg.Rmd | 6 vignettes/lmebreed.qg.html | 892 ++++++++++++++++++++++---------------------- 25 files changed, 1024 insertions(+), 1051 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran <hemant.ishwaran@gmail.com>, Udaya B. Kogalur <ubk@kogalur.com>
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.2.3 dated 2023-12-06 and 3.3.0 dated 2024-06-25
DESCRIPTION | 10 - MD5 | 79 +++++++-------- NAMESPACE | 4 R/generic.predict.rfsrc.R | 14 +- R/partial.rfsrc.R | 37 +++++-- R/plot.competing.risk.rfsrc.R | 14 +- R/plot.subsample.rfsrc.R | 30 +++-- R/plot.variable.rfsrc.R | 200 ++++++++++++++++++++------------------ R/print.rfsrc.R | 32 ++++-- R/rfsrc.R | 12 +- R/subsample.rfsrc.R | 8 - R/utilities.factor.R | 20 ++- R/utilities.imbalanced.R | 177 +++++++++++++++++++++++++++++++++ R/utilities.performance.R | 20 +++ R/utilities.quantreg.R | 9 + R/utilities.saveload.R |only R/utilities.subsample.R | 36 ++++++ R/utilities.subsample.bootstrap.R | 6 - configure | 18 +-- configure.ac | 2 data/breast.rda |binary data/follic.rda |binary data/hd.rda |binary data/housing.rda |binary data/nutrigenomic.rda |binary data/pbc.rda |binary data/peakVO2.rda |binary data/vdv.rda |binary data/veteran.rda |binary data/wihs.rda |binary data/wine.rda |binary inst/NEWS | 14 ++ man/partial.rfsrc.Rd | 18 +++ man/plot.subsample.rfsrc.Rd | 11 +- man/plot.variable.rfsrc.Rd | 10 + man/predict.rfsrc.Rd | 8 - man/quantreg.rfsrc.Rd | 4 man/rfsrc.Rd | 190 ++++++++++++++++++++---------------- man/subsample.rfsrc.Rd | 57 +++++----- src/randomForestSRC.c | 159 +++++++++++++++++++++++++++--- src/randomForestSRC.h | 36 ++++-- 41 files changed, 863 insertions(+), 372 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: Sparsity by Worst-Case Quadratic Penalties
Description: Fits classical sparse regression models with
efficient active set algorithms by solving quadratic problems as described by
Grandvalet, Chiquet and Ambroise (2017) <doi:10.48550/arXiv.1210.2077>. Also provides a few
methods for model selection purpose (cross-validation, stability selection).
Author: Julien Chiquet [aut, cre]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between quadrupen versions 0.2-11 dated 2023-12-18 and 0.2-12 dated 2024-06-25
DESCRIPTION | 12 ++++++------ MD5 | 19 ++++++++++--------- NEWS.md | 4 ++++ R/init.R | 2 +- R/quadrupen-package.R | 10 ++++++++-- build |only inst/WORDLIST | 5 ++++- man/quadrupen-package.Rd | 18 ++++++++++++++++-- src/elastic_net.cpp | 2 +- src/utils.h | 2 +- tests/testthat/test-penscale.R | 2 +- 11 files changed, 52 insertions(+), 24 deletions(-)
Title: 'Antares' Results Processing
Description: Process results generated by 'Antares', a powerful open source software developed by
RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems (more information about
'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>).
This package provides functions to create new columns like net load, load factors, upward and
downward margins or to compute aggregated statistics like economic surpluses
of consumers, producers and sectors.
Author: Tatiana Vargas [aut, cre],
Jalal-Edine ZAWAM [aut],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
RTE [cph]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresProcessing versions 0.18.1 dated 2021-11-06 and 0.18.2 dated 2024-06-25
antaresProcessing-0.18.1/antaresProcessing/R/h5_processing.R |only antaresProcessing-0.18.1/antaresProcessing/man/addProcessingH5.Rd |only antaresProcessing-0.18.1/antaresProcessing/tests/testthat/test-h5_allias.R |only antaresProcessing-0.18.1/antaresProcessing/tests/testthat/test-h5_processing.R |only antaresProcessing-0.18.2/antaresProcessing/DESCRIPTION | 16 antaresProcessing-0.18.2/antaresProcessing/MD5 | 38 antaresProcessing-0.18.2/antaresProcessing/NAMESPACE | 2 antaresProcessing-0.18.2/antaresProcessing/NEWS | 4 antaresProcessing-0.18.2/antaresProcessing/R/addCongestionLink.R | 216 ++--- antaresProcessing-0.18.2/antaresProcessing/R/addDownwardMargin.R | 176 ++-- antaresProcessing-0.18.2/antaresProcessing/R/addExportAndImport.R | 250 +++--- antaresProcessing-0.18.2/antaresProcessing/R/addUpwardMargin.R | 204 ++--- antaresProcessing-0.18.2/antaresProcessing/R/compare.R | 330 ++++---- antaresProcessing-0.18.2/antaresProcessing/R/surplus.R | 320 +++---- antaresProcessing-0.18.2/antaresProcessing/R/zzz.R | 222 ++--- antaresProcessing-0.18.2/antaresProcessing/README.md | 183 ++-- antaresProcessing-0.18.2/antaresProcessing/build/vignette.rds |binary antaresProcessing-0.18.2/antaresProcessing/inst/doc/antaresProcessing.html | 408 +++++++--- antaresProcessing-0.18.2/antaresProcessing/man/addExportAndImport.Rd | 2 antaresProcessing-0.18.2/antaresProcessing/man/compare.Rd | 2 antaresProcessing-0.18.2/antaresProcessing/tests/testthat/helper_init.R | 234 ++--- antaresProcessing-0.18.2/antaresProcessing/tests/testthat/test-thermalGroupCapacities.R | 46 - 22 files changed, 1434 insertions(+), 1219 deletions(-)
More information about antaresProcessing at CRAN
Permanent link
Title: Create Actuarial Experience Studies: Prepare Data, Summarize
Results, and Create Reports
Description: Experience studies are used by actuaries to explore historical
experience across blocks of business and to inform assumption setting
activities. This package provides functions for preparing data, creating
studies, visualizing results, and beginning assumption development.
Experience study methods, including exposure calculations, are described in:
Atkinson & McGarry (2016) "Experience Study Calculations"
<https://www.soa.org/49378a/globalassets/assets/files/research/experience-study-calculations.pdf>.
The limited fluctuation credibility method used by the 'exp_stats()'
function is described in: Herzog (1999, ISBN:1-56698-374-6)
"Introduction to Credibility Theory".
Author: Matt Heaphy [aut, cre]
Maintainer: Matt Heaphy <mattrmattrs@gmail.com>
Diff between actxps versions 1.4.0 dated 2023-11-26 and 1.5.0 dated 2024-06-25
DESCRIPTION | 14 MD5 | 88 +-- NAMESPACE | 3 NEWS.md | 306 +++++++------ R/add_predictions.R | 132 ++--- R/exp_shiny.R | 23 - R/expose.R | 149 ++++-- R/expose_split.R | 99 +--- R/globals.R | 2 R/plot_special.R | 3 R/pol_yr.R | 23 - R/tables.R | 15 R/transactions.R | 6 R/trx_df_helpers.R | 3 R/trx_stats.R | 2 inst/doc/actxps.R | 2 inst/doc/actxps.Rmd | 2 inst/doc/actxps.html | 314 ++++++------- inst/doc/exp_summary.R | 20 inst/doc/exp_summary.Rmd | 30 - inst/doc/exp_summary.html | 836 ++++++++++++++++++------------------- inst/doc/exposures.R | 12 inst/doc/exposures.Rmd | 12 inst/doc/exposures.html | 745 ++++++++++++++++---------------- inst/doc/misc.R | 13 inst/doc/misc.Rmd | 18 inst/doc/misc.html | 215 ++++----- inst/doc/transactions.html | 640 ++++++++++++++-------------- man/add_predictions.Rd | 98 ++-- man/add_transactions.Rd | 2 man/as_trx_df.Rd | 3 man/exp_shiny.Rd | 2 man/expose.Rd | 2 man/pol_yr.Rd | 10 man/trx_stats.Rd | 2 tests/testthat/test-exp_stats.R | 25 - tests/testthat/test-expose.R | 99 ++++ tests/testthat/test-pol_yr.R | 9 tests/testthat/test-tables.R | 11 tests/testthat/test-transactions.R | 21 tests/testthat/test-trx_stats.R | 9 vignettes/actxps.Rmd | 2 vignettes/exp_summary.Rmd | 30 - vignettes/exposures.Rmd | 12 vignettes/misc.Rmd | 18 45 files changed, 2096 insertions(+), 1986 deletions(-)
Title: Sparse Linear Algebra
Description: Some basic linear algebra functionality for sparse matrices is
provided: including Cholesky decomposition and backsolving as well as
standard R subsetting and Kronecker products.
Author: Roger Koenker [cre, aut],
Pin Tian Ng [ctb] ,
Yousef Saad [ctb] ,
Ben Shaby [ctb] ,
Martin Maechler [ctb] tweaks; S4,
<https://orcid.org/0000-0002-8685-9910>)
Maintainer: Roger Koenker <rkoenker@uiuc.edu>
Diff between SparseM versions 1.83 dated 2024-05-30 and 1.84 dated 2024-06-25
DESCRIPTION | 28 MD5 | 49 - NAMESPACE | 32 R/SparseM.R | 733 +++++++++---------- build/vignette.rds |binary demo/LeastSquares.R | 3 demo/Solve.R | 4 inst/ChangeLog | 43 - inst/doc/SparseM.pdf |binary man/SparseM.ontology.Rd | 163 ++-- man/SparseM.ops.Rd | 93 +- man/SparseM.solve.Rd | 104 +- man/matrix.coo-class.Rd | 28 man/matrix.csc-class.Rd | 19 man/matrix.csc.hb-class.Rd | 17 man/matrix.csr-class.Rd | 47 - man/matrix.csr.chol-class.Rd | 93 +- man/matrix.ssc-class.Rd | 9 man/matrix.ssr-class.Rd | 14 src/SparseM.h |only src/bckslv.f | 5 src/chol.f | 35 src/chol2csr.f | 6 src/cholesky.f | 417 +++++------ src/init.c | 76 -- src/sparskit.f | 1599 +++++++++++++++++++++---------------------- 26 files changed, 1899 insertions(+), 1718 deletions(-)
Title: Download and Tidy IPC and CH Data
Description: Utilities to access Integrated Food Security Phase Classification
(IPC) and Cadre Harmonisé (CH) food security data. Wrapper functions are
available for all of the 'IPC-CH' Public API (<https://docs.api.ipcinfo.org>)
simplified and advanced endpoints to easily download the data in a clean and
tidy format.
Author: Seth Caldwell [aut, cre, cph]
Maintainer: Seth Caldwell <caldwellst@gmail.com>
Diff between ripc versions 0.3.0 dated 2024-04-22 and 0.3.1 dated 2024-06-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/ipc_get_analyses.R | 1 + R/population_utils.R | 3 ++- 5 files changed, 16 insertions(+), 8 deletions(-)
Title: An Improved Version of WA-PLS
Description: The goal of this package is to provide an improved version of
WA-PLS (Weighted Averaging Partial Least Squares) by including the
tolerances of taxa and the frequency of the sampled climate variable.
This package also provides a way of leave-out cross-validation that
removes both the test site and sites that are both geographically
close and climatically close for each cycle, to avoid the risk of
pseudo-replication.
Author: Mengmeng Liu [aut] ,
Iain Colin Prentice [aut] ,
Cajo J. F. ter Braak [aut] ,
Sandy P. Harrison [aut] ,
Roberto Villegas-Diaz [aut, cre]
,
SPECIAL Research Group @ University of Reading [cph]
Maintainer: Roberto Villegas-Diaz <r.villegas-diaz@outlook.com>
Diff between fxTWAPLS versions 0.1.2 dated 2022-11-25 and 0.1.3 dated 2024-06-25
DESCRIPTION | 11 +++++------ MD5 | 6 +++--- inst/CITATION | 6 +++--- man/pb.Rd | 4 +++- 4 files changed, 14 insertions(+), 13 deletions(-)
Title: Seeded Sequential LDA for Topic Modeling
Description: Seeded Sequential LDA can classify sentences of texts into pre-define topics with a small number of seed words (Watanabe & Baturo, 2023) <doi:10.1177/08944393231178605>.
Implements Seeded LDA (Lu et al., 2010) <doi:10.1109/ICDMW.2011.125> and Sequential LDA (Du et al., 2012) <doi:10.1007/s10115-011-0425-1> with the distributed LDA algorithm (Newman, et al., 2009) for parallel computing.
Author: Kohei Watanabe [aut, cre, cph],
Phan Xuan-Hieu [aut, cph]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between seededlda versions 1.3.0 dated 2024-06-19 and 1.3.1 dated 2024-06-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ man/textmodel_lda.Rd | 2 +- src/array.h | 2 +- 5 files changed, 13 insertions(+), 9 deletions(-)
Title: R Interface to NLopt
Description: Solve optimization problems using an R interface to NLopt. NLopt is a
free/open-source library for nonlinear optimization, providing a common
interface for a number of different free optimization routines available
online as well as original implementations of various other algorithms.
See <https://nlopt.readthedocs.io/en/latest/NLopt_Algorithms/> for more
information on the available algorithms. Building from included sources
requires 'CMake'. On Linux and 'macOS', if a suitable system build of
NLopt (2.7.0 or later) is found, it is used; otherwise, it is built
from included sources via 'CMake'. On Windows, NLopt is obtained through
'rwinlib' for 'R <= 4.1.x' or grabbed from the appropriate toolchain for
'R >= 4.2.0'.
Author: Jelmer Ypma [aut],
Steven G. Johnson [aut] ,
Aymeric Stamm [ctb, cre] ,
Hans W. Borchers [ctb],
Dirk Eddelbuettel [ctb],
Brian Ripley [ctb] ,
Kurt Hornik [ctb] ,
Julien Chiquet [ctb],
Avraham Adler [ctb] ,
Xiongtao Dai [ctb],
Jeroen Ooms [ctb]
Maintainer: Aymeric Stamm <aymeric.stamm@cnrs.fr>
Diff between nloptr versions 2.1.0 dated 2024-06-19 and 2.1.1 dated 2024-06-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 7 +++++++ build/vignette.rds |binary inst/doc/nloptr.html | 4 ++-- inst/tinytest/test-wrapper-global.R | 4 +--- 6 files changed, 18 insertions(+), 13 deletions(-)
Title: Generalized Reporter Score-Based Enrichment Analysis for Omics
Data
Description: Inspired by the classic 'RSA', we developed the improved 'Generalized Reporter
Score-based Analysis (GRSA)' method, implemented in the R package 'ReporterScore', along
with comprehensive visualization methods and pathway databases. 'GRSA' is a threshold-free
method that works well with all types of biomedical features, such as genes, chemical compounds,
and microbial species. Importantly, the 'GRSA' supports multi-group and longitudinal experimental
designs, because of the included multi-group-compatible statistical methods.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <pengchen2001@zju.edu.cn>
Diff between ReporterScore versions 0.1.5 dated 2024-06-05 and 0.1.6 dated 2024-06-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/calculation.R | 3 ++- inst/doc/ReporterScore.html | 4 ++-- 5 files changed, 17 insertions(+), 10 deletions(-)
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 2.0.0 dated 2024-06-21 and 2.1.0 dated 2024-06-25
DESCRIPTION | 6 ++-- MD5 | 6 ++-- R/EQF.plot.R | 73 ++++++++++++++++++++++++++++++++++++++++++++++---------- man/EQF.plot.Rd | 10 +++++-- 4 files changed, 73 insertions(+), 22 deletions(-)
Title: Data for "Forecasting: Principles and Practice" (3rd Edition)
Description: All data sets required for the examples and exercises in the book
"Forecasting: principles and practice" by Rob J Hyndman and George Athanasopoulos
<https://OTexts.com/fpp3/>. All packages required to run the examples are also
loaded. Additional data sets not used in the book are also included.
Author: Rob Hyndman [aut, cre, cph] ,
George Athanasopoulos [ctb],
Mitchell O'Hara-Wild [ctb],
Nuwani Palihawadana [ctb],
Shanika Wickramasuriya [ctb],
RStudio [cph]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between fpp3 versions 0.5 dated 2023-01-31 and 1.0.0 dated 2024-06-25
DESCRIPTION | 33 ++-- MD5 | 56 ++++-- NAMESPACE | 1 NEWS.md | 20 ++ R/conflicts.R | 11 - R/data.R | 366 ++++++++++++++++++++++++++++++++++++++++++--- R/utils.R | 1 README.md | 20 +- data/aus_births.rda |only data/aus_fertility.rda |only data/aus_inbound.rda |only data/aus_migration.rda |only data/aus_mortality.rda |only data/aus_outbound.rda |only data/aus_tobacco.rda |only data/aus_vehicle_sales.rda |only data/melb_walkers.rda |only data/nsw_offences.rda |only data/ny_childcare.rda |only data/otexts_views.rda |only man/aus_accommodation.Rd | 6 man/aus_arrivals.Rd | 2 man/aus_births.Rd |only man/aus_fertility.Rd |only man/aus_inbound.Rd |only man/aus_migration.Rd |only man/aus_mortality.Rd |only man/aus_outbound.Rd |only man/aus_tobacco.Rd |only man/aus_vehicle_sales.Rd |only man/fpp3-package.Rd | 7 man/insurance.Rd | 2 man/melb_walkers.Rd |only man/nsw_offences.Rd |only man/ny_childcare.Rd |only man/otexts_views.Rd |only man/prices.Rd | 2 man/souvenirs.Rd | 2 man/us_change.Rd | 2 man/us_employment.Rd | 2 man/us_gasoline.Rd | 4 41 files changed, 455 insertions(+), 82 deletions(-)
Title: Analysis of Chemical Degradation Kinetic Data
Description: A collection of functions that have been developed to assist
experimenter in modeling chemical degradation kinetic data. The
selection of the appropriate degradation model and parameter
estimation is carried out automatically as far as possible and is
driven by a rigorous statistical interpretation of the results. The
package integrates already available goodness-of-fit statistics for
nonlinear models. In addition it allows data fitting with the
nonlinear first-order multi-target (FOMT) model.
Author: Matteo Migliorini [aut, cre, cph],
Roberto Chignola [aut]
Maintainer: Matteo Migliorini <matteo.migliorini@univr.it>
Diff between chemdeg versions 0.1.2 dated 2023-05-17 and 0.1.4 dated 2024-06-25
DESCRIPTION | 8 MD5 | 17 - NEWS.md | 30 +- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION |only inst/doc/chemdeg_basics.R | 4 inst/doc/chemdeg_basics.html | 592 ++++++++++++++++++++-------------------- tests/testthat/test-det_order.R | 10 10 files changed, 337 insertions(+), 326 deletions(-)
Title: R Commander Plug-in for the EZR (Easy R) Package
Description: EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN: 978-4-498-10918-6, Nankodo, ISBN: 978-4-524-26158-1, Ohmsha, ISBN: 978-4-274-22632-8), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below. This report has been cited in more than 10,000 scientific articles.
Author: Yoshinobu Kanda
Maintainer: Yoshinobu Kanda <ycanda-tky@umin.ac.jp>
Diff between RcmdrPlugin.EZR versions 1.67 dated 2024-05-24 and 1.68 dated 2024-06-25
DESCRIPTION | 8 +++--- MD5 | 18 +++++++------- NEWS | 6 ++++ R/EZR.R | 35 ++++++++++++++++++---------- inst/CHANGES | 6 ++++ inst/doc/EZR.htm | 10 ++++---- inst/doc/EZR.pdf |binary inst/po/ja/LC_MESSAGES/R-RcmdrPlugin.EZR.mo |binary man/EZR.Rd | 4 +-- po/R-RcmdrPlugin.EZR.po | 14 ++++++++++- 10 files changed, 66 insertions(+), 35 deletions(-)
More information about RcmdrPlugin.EZR at CRAN
Permanent link
Title: A Multivariate Meta-Analysis Model for Metabolomics Data
Description: Performs multivariate meta-analysis for high-dimensional metabolomics data for integrating and collectively analysing individual-level metabolomics data generated from multiple studies as well as for combining summary estimates. This approach accounts for correlation between metabolites, considers variability within and between studies, handles missing values and uses shrinkage estimation to allow for high dimensionality. A detailed vignette with example datasets and code to prepare data and analyses are available on <https://bookdown.org/a2delivera/MetaHD/>.
Author: Jayamini Liyanage [aut, cre],
Alysha De Livera [aut]
Maintainer: Jayamini Liyanage <j.liyanage@latrobe.edu.au>
Diff between MetaHD versions 0.1.0 dated 2024-06-07 and 0.1.1 dated 2024-06-25
DESCRIPTION | 13 ++-- MD5 | 19 +++--- NAMESPACE | 18 ++++++ R/MetaHD.R | 146 +++++++++++++++++++++++++++++++++++++++++++++-------- data/realdata.rda |binary data/simdata.1.rda |binary data/simdata.2.rda |binary man/MetaHD.Rd | 21 ++++++- man/MetaHDInput.Rd |only man/simdata.1.Rd | 16 +++-- man/simdata.2.Rd | 18 +++--- 11 files changed, 197 insertions(+), 54 deletions(-)
Title: Tools for Reading, Writing, Viewing and Manipulating CIFTI Files
Description: CIFTI files contain brain imaging data in "grayordinates," which
represent the gray matter as cortical surface vertices (left and right) and
subcortical voxels (cerebellum, basal ganglia, and other deep gray matter).
'ciftiTools' provides a unified environment for reading, writing,
visualizing and manipulating CIFTI-format data. It supports the "dscalar,"
"dlabel," and "dtseries" intents. Grayordinate data is read in as a "xifti"
object, which is structured for convenient access to the data and metadata,
and includes support for surface geometry files to enable
spatially-dependent functionality such as static or interactive
visualizations and smoothing.
Author: Amanda Mejia [aut, cre],
Damon Pham [aut] ,
John Muschelli [ctb]
Maintainer: Amanda Mejia <mandy.mejia@gmail.com>
Diff between ciftiTools versions 0.14.0 dated 2024-02-24 and 0.15.1 dated 2024-06-25
ciftiTools-0.14.0/ciftiTools/man/ROI_brainstructures_Param_LR.Rd |only ciftiTools-0.14.0/ciftiTools/man/brainstructures_Param_LR.Rd |only ciftiTools-0.15.1/ciftiTools/DESCRIPTION | 9 ciftiTools-0.15.1/ciftiTools/MD5 | 76 +-- ciftiTools-0.15.1/ciftiTools/R/as.xifti.R | 2 ciftiTools-0.15.1/ciftiTools/R/impute_xifti.R |only ciftiTools-0.15.1/ciftiTools/R/info_cifti.R | 6 ciftiTools-0.15.1/ciftiTools/R/make_xifti.R | 23 - ciftiTools-0.15.1/ciftiTools/R/make_xifti_components.R | 206 +++++----- ciftiTools-0.15.1/ciftiTools/R/newdata_xifti.R | 10 ciftiTools-0.15.1/ciftiTools/R/parc_utils.R | 11 ciftiTools-0.15.1/ciftiTools/R/read_cifti.R | 10 ciftiTools-0.15.1/ciftiTools/R/read_cifti_convert.R | 4 ciftiTools-0.15.1/ciftiTools/R/read_cifti_separate.R | 4 ciftiTools-0.15.1/ciftiTools/R/read_surf.R | 34 - ciftiTools-0.15.1/ciftiTools/R/resample_gifti.R | 3 ciftiTools-0.15.1/ciftiTools/R/rox_args_docs.R | 6 ciftiTools-0.15.1/ciftiTools/R/separate_cifti.R | 44 +- ciftiTools-0.15.1/ciftiTools/R/utils_xifti.R | 2 ciftiTools-0.15.1/ciftiTools/R/view_xifti.R | 2 ciftiTools-0.15.1/ciftiTools/R/write_nifti.R | 10 ciftiTools-0.15.1/ciftiTools/README.md | 2 ciftiTools-0.15.1/ciftiTools/inst/extdata/subcort_label_list.txt | 6 ciftiTools-0.15.1/ciftiTools/man/ROI_brainstructures_Param_all.Rd |only ciftiTools-0.15.1/ciftiTools/man/as.xifti.Rd | 2 ciftiTools-0.15.1/ciftiTools/man/brainstructures_Param_all.Rd | 9 ciftiTools-0.15.1/ciftiTools/man/make_subcort.Rd | 2 ciftiTools-0.15.1/ciftiTools/man/make_xifti.Rd | 23 - ciftiTools-0.15.1/ciftiTools/man/read_cifti.Rd | 10 ciftiTools-0.15.1/ciftiTools/man/read_cifti_convert.Rd | 4 ciftiTools-0.15.1/ciftiTools/man/read_cifti_separate.Rd | 4 ciftiTools-0.15.1/ciftiTools/man/separate_cifti.Rd | 6 ciftiTools-0.15.1/ciftiTools/man/separate_cifti_files.Rd | 2 ciftiTools-0.15.1/ciftiTools/man/separate_cifti_wrapper.Rd | 2 ciftiTools-0.15.1/ciftiTools/man/substructure_table.Rd | 3 ciftiTools-0.15.1/ciftiTools/man/write_subcort_nifti.Rd | 2 ciftiTools-0.15.1/ciftiTools/man/write_xifti2.Rd | 2 ciftiTools-0.15.1/ciftiTools/tests/testthat/test-misc.R | 8 ciftiTools-0.15.1/ciftiTools/tests/testthat/test-plotting_surf.R | 2 ciftiTools-0.15.1/ciftiTools/tests/testthat/test-plotting_together.R | 2 ciftiTools-0.15.1/ciftiTools/tests/testthat/test-resampling.R | 6 41 files changed, 294 insertions(+), 265 deletions(-)