Title: Enhances Interaction with 'ODBC' Databases
Description: Provides simple and powerful interfaces that facilitate interaction
with 'ODBC' data sources. Each data source gets its own unique and dedicated
interface, wrapped around 'RODBC'. Communication settings are remembered
between queries, and are managed silently in the background. The interfaces
support multi-statement 'SQL' scripts, which can be parameterised via
metaprogramming structures and embedded 'R' expressions.
Author: Mike Lee
Maintainer: Mike Lee <random.deviate@gmail.com>
Diff between SQRL versions 1.0.1 dated 2022-09-20 and 1.0.2 dated 2023-12-02
ChangeLog | 16 DESCRIPTION | 8 MD5 | 24 R/SQRL.R | 4062 +++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/SQRL_primer.Rnw | 5 inst/doc/SQRL_primer.pdf |binary man/sqrlConfig.Rd | 6 man/sqrlParams.Rd | 3 man/sqrlScript.Rd | 72 man/sqrlSource.Rd | 3 man/sqrlUsage.Rd | 1 vignettes/SQRL_primer.Rnw | 5 13 files changed, 2175 insertions(+), 2030 deletions(-)
Title: Methods to Create Hierarchical Age Length Keys for Age
Assignment
Description: Provides methods for implementing hierarchical age length keys
to estimate fish ages from lengths using data borrowing. Users can create
hierarchical age length keys and use them to assign ages given length.
Author: Paul Frater [aut, cre]
Maintainer: Paul Frater <paul.frater@wisconsin.gov>
Diff between halk versions 0.0.4 dated 2023-09-23 and 0.0.5 dated 2023-12-02
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/make_halk.R | 9 +++++++++ R/predict_ages.R | 15 ++++++++++----- build/vignette.rds |binary 5 files changed, 26 insertions(+), 12 deletions(-)
Title: Principal Stratification Analysis in R
Description: Estimating causal effects in the presence of post-treatment confounding using principal stratification. 'PStrata' allows for customized monotonicity assumptions and exclusion restriction assumptions, with automatic full Bayesian inference supported by 'Stan'. The main function to use in this package is PStrata(), which provides posterior estimates of principal causal effect with uncertainty quantification. Visualization tools are also provided for diagnosis and interpretation. See Liu and Li (2023) <arXiv:2304.02740> for details.
Author: Bo Liu [aut, cre],
Fan Li [ctb]
Maintainer: Bo Liu <bl226@duke.edu>
Diff between PStrata versions 0.0.4 dated 2023-11-16 and 0.0.5 dated 2023-12-02
DESCRIPTION | 10 ++++++---- MD5 | 6 +++++- build |only inst/doc |only vignettes |only 5 files changed, 11 insertions(+), 5 deletions(-)
Title: Marginal Analysis of Misclassified Longitudinal Ordinal Data
Description: Three estimating equation methods are provided in this package for marginal analysis of longitudinal ordinal data with misclassified responses and covariates.
The naive analysis which is solely based on the observed data without adjustment may lead to bias.
The corrected generalized estimating equations (GEE2) method which is unbiased requires the misclassification parameters to be known beforehand.
The corrected generalized estimating equations (GEE2) with validation subsample method estimates the misclassification parameters based on a given
validation set. This package is an implementation
of Chen (2013) <doi:10.1002/bimj.201200195>.
Author: Yuliang Xu [aut, cre],
Zhijian Chen [aut],
Shuo Shuo Liu [aut],
Grace Yi [aut]
Maintainer: Yuliang Xu <yuliangx@umich.edu>
Diff between mgee2 versions 0.4 dated 2023-04-27 and 0.5 dated 2023-12-02
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/mgee2.c | 5 +++-- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Some Movies to Illustrate Concepts in Statistics
Description: Provides movies to help students to understand statistical
concepts. The 'rpanel' package <https://cran.r-project.org/package=rpanel>
is used to create interactive plots that move to illustrate key statistical
ideas and methods. There are movies to: visualise probability distributions
(including user-supplied ones); illustrate sampling distributions of the
sample mean (central limit theorem), the median, the sample maximum
(extremal types theorem) and (the Fisher transformation of the)
product moment correlation coefficient; examine the influence of an
individual observation in simple linear regression; illustrate key concepts
in statistical hypothesis testing. Also provided are dpqr functions for the
distribution of the Fisher transformation of the correlation coefficient
under sampling from a bivariate normal distribution.
Author: Paul J. Northrop [aut, cre, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between smovie versions 1.1.5 dated 2023-09-02 and 1.1.6 dated 2023-12-02
DESCRIPTION | 8 MD5 | 64 NEWS.md | 6 R/central_limit_theorem.R | 1424 +++++++++---------- R/continuous.R | 854 +++++------ R/correlation.R | 888 +++++------ R/discrete.R | 802 +++++----- R/extremal_types_theorem.R | 1404 +++++++++--------- R/fisher_corr.R | 268 +-- R/leverage_and_influence.R | 338 ++-- R/main_menu.R | 740 ++++----- R/mean_vs_median.R | 760 +++++----- R/quantile_central_limit_theorem.R | 1202 ++++++++-------- R/simple_hypotheses.R | 512 +++--- R/smovie-package.R | 38 R/wald_wilks_score.R | 1006 ++++++------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/smovie-vignette.R | 60 inst/doc/smovie-vignette.Rmd | 442 ++--- inst/doc/smovie-vignette.html | 207 +- man/Fcorr.Rd | 162 +- man/clt.Rd | 16 man/cltq.Rd | 16 man/ett.Rd | 20 man/mean_vs_median.Rd | 12 man/shypo.Rd | 8 man/smovie-package.Rd | 162 +- man/wws.Rd | 8 tests/testthat/test-FPearson.R | 146 - vignettes/smovie-vignette.Rmd | 442 ++--- vignettes/smovie.bib | 56 vignettes/taylor-and-francis-chicago-author-date.csl | 1066 +++++++------- 33 files changed, 6571 insertions(+), 6566 deletions(-)
Title: A Collection of Functions for Negligible Effect/Equivalence
Testing
Description: Researchers often want to evaluate whether there is a negligible
relationship among variables. The 'negligible' package provides functions that
are useful for conducting negligible effect testing (also called
equivalence testing). For example, there are functions for evaluating the
equivalence of means or the presence of a negligible association
(correlation or regression). Beribisky, N., Mara, C., & Cribbie, R. A. (2020) <doi:10.20982/tqmp.16.4.p424>.
Beribisky, N., Davidson, H., Cribbie, R. A. (2019) <doi:10.7717/peerj.6853>.
Shiskina, T., Farmus, L., & Cribbie, R. A. (2018) <doi:10.20982/tqmp.14.3.p167>.
Mara, C. & Cribbie, R. A. (2017) <doi:10.1080/00220973.2017.1301356>.
Counsell, A. & Cribbie, R. A. (2015) <doi:10.1111/bmsp.12045>.
van Wieringen, K. & Cribbie, R. A. (2014) <doi:10.1111/bmsp.12015>.
Goertzen, J. R. & Cribbie, R. A. (2010) <doi:10.1348/000711009x475853>.
Cribbie, R. A., Gruman, J. & Arpin-Cribbi [...truncated...]
Author: Robert Cribbie [aut, cre],
Udi Alter [aut],
Nataly Beribisky [aut],
Phil Chalmers [aut],
Alyssa Counsell [aut],
Linda Farmus [aut],
Naomi Martinez Gutierrez [aut],
Victoria Ng [ctb]
Maintainer: Robert Cribbie <cribbie@yorku.ca>
Diff between negligible versions 0.1.5 dated 2023-11-29 and 0.1.6 dated 2023-12-02
DESCRIPTION | 6 +- MD5 | 4 - R/neg.pd.R | 140 ++++++++++++++++++++++++++++++------------------------------ 3 files changed, 75 insertions(+), 75 deletions(-)
Title: Create Layout Plots of Biological Culture Plates and Microplates
Description: Enables users to create simple plots of biological culture plates as well as microplates. Both continuous and discrete values can be plotted onto the plate layout.
Author: Jan-Philipp Quast [aut, cre]
Maintainer: Jan-Philipp Quast <quast@imsb.biol.ethz.ch>
Diff between ggplate versions 0.1.0 dated 2023-11-10 and 0.1.1 dated 2023-12-02
DESCRIPTION | 8 +- MD5 | 22 +++---- NEWS.md | 7 ++ R/plate_plot.R | 8 +- README.md | 31 +++++++--- man/figures/README-standard_plot-1.png |binary man/figures/README-standard_plot_384_well_new_gradient-1.png |binary man/figures/README-standard_plot_384_well_new_limits-1.png |binary man/figures/README-standard_plot_384_well_new_limits_outlier-1.png |binary man/figures/README-standard_plot_48_empty_wells-1.png |binary man/figures/README-standard_plot_labels-1.png |binary man/figures/README-standard_plot_labels_wells-1.png |binary 12 files changed, 49 insertions(+), 27 deletions(-)
Title: An Alternative 'Rcpp' Wrapper of 'MeCab'
Description: A plain 'Rcpp' wrapper of 'MeCab' that can segment Chinese,
Japanese, and Korean text into tokens. The main goal of this package
is to provide an alternative to 'tidytext' using morphological
analysis.
Author: Akiru Kato [aut, cre],
Shogo Ichinose [aut],
Taku Kudo [aut],
Jorge Nocedal [ctb],
Nippon Telegraph and Telephone Corporation [cph]
Maintainer: Akiru Kato <paithiov909@gmail.com>
Diff between gibasa versions 0.9.5 dated 2023-07-09 and 1.0.1 dated 2023-12-02
DESCRIPTION | 8 MD5 | 141 ++--- NAMESPACE | 2 NEWS.md | 4 R/RcppExports.R | 45 + R/bind_lr.R | 2 R/bind_tf_idf2.R | 2 R/build_dict.R |only R/collapse_tokens.R | 2 R/lex_density.R | 2 R/mute_tokens.R | 2 R/pack.R | 6 R/prettify.R | 12 R/tokenize.R | 12 R/utils.R | 4 README.md | 176 +++++- build/partial.rdb |binary inst/include/gibasa_RcppExports.h | 58 +- inst/latin |only man/build_sys_dic.Rd |only man/build_user_dic.Rd |only man/dict_index_sys.Rd |only man/dict_index_user.Rd |only man/gbs_tokenize.Rd | 6 man/get_dict_features.Rd | 6 man/pack.Rd | 2 man/prettify.Rd | 2 man/tokenize.Rd | 10 src/Makevars | 5 src/Makevars.win | 9 src/RcppExports.cpp | 125 +++- src/char_property.cpp | 79 +- src/char_property.h | 89 ++- src/common.h | 119 ++-- src/connector.cpp | 45 - src/connector.h | 30 - src/context_id.cpp | 40 - src/context_id.h | 25 src/darts.h | 267 ++++----- src/dictionary.cpp | 909 ++++++++++++++++----------------- src/dictionary.h | 72 +- src/dictionary_compiler.cpp |only src/dictionary_rewriter.cpp |only src/dictionary_rewriter.h |only src/feature_index.cpp |only src/feature_index.h |only src/freelist.h | 38 - src/iconv_utils.cpp | 69 +- src/iconv_utils.h | 6 src/learner_node.h | 77 +- src/libmecab.cpp | 272 ++++------ src/mecab.h | 1018 +++++++++++++++++++------------------- src/mmap.h | 60 +- src/nbest_generator.cpp | 10 src/nbest_generator.h | 10 src/param.cpp | 77 +- src/param.h | 36 - src/posDebug.cpp | 126 ++-- src/posParallel.cpp | 129 ++-- src/scoped_ptr.h | 68 +- src/string_buffer.cpp | 14 src/string_buffer.h | 75 +- src/tagger.cpp | 442 ++++++---------- src/thread.h | 173 ++---- src/tokenizer.cpp | 156 ++--- src/tokenizer.h | 50 - src/ucs.h | 25 src/utils.cpp | 343 +++++++----- src/utils.h | 78 +- src/viterbi.cpp | 54 +- src/viterbi.h | 15 src/writer.cpp | 246 +++++---- src/writer.h | 12 tests/testthat/_snaps/pack.md | 2 tests/testthat/test-pack.R | 2 75 files changed, 3138 insertions(+), 2863 deletions(-)
Title: Threshold Selection and Uncertainty for Extreme Value Analysis
Description: Provides functions for the selection of thresholds for use in
extreme value models, based mainly on the methodology in
Northrop, Attalides and Jonathan (2017) <doi:10.1111/rssc.12159>.
It also performs predictive inferences about future extreme values,
based either on a single threshold or on a weighted average of inferences
from multiple thresholds, using the 'revdbayes' package
<https://cran.r-project.org/package=revdbayes>.
At the moment only the case where the data can be treated as
independent identically distributed observations is considered.
Author: Paul J. Northrop [aut, cre, cph],
Nicolas Attalides [aut]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between threshr versions 1.0.4 dated 2023-09-02 and 1.0.5 dated 2023-12-02
DESCRIPTION | 8 MD5 | 48 ++-- NEWS.md | 6 R/gp_mle.R | 206 ++++++++++---------- R/ithresh.R | 60 ++--- R/ithresh_methods.R | 20 - R/predictive.R | 2 R/threshr-internal.R | 338 ++++++++++++++++----------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/threshr-vignette.R | 14 - inst/doc/threshr-vignette.Rmd | 232 +++++++++++----------- inst/doc/threshr-vignette.html | 224 ++++++++++----------- man/ithresh.Rd | 60 ++--- man/plot.ithresh.Rd | 2 man/predict.ithresh.Rd | 2 man/summary.ithresh.Rd | 18 - man/threshr-package.Rd | 102 ++++----- tests/testthat/test-box_cox.R | 98 ++++----- tests/testthat/test-inv_box_cox.R | 196 +++++++++---------- tests/testthat/test-ithresh.R | 84 ++++---- tests/testthat/test-plot_and_summary.R | 334 ++++++++++++++++---------------- tests/testthat/test-predict_ithresh.R | 92 ++++---- tests/testthat/test-stability.R | 42 ++-- vignettes/threshr-vignette.Rmd | 232 +++++++++++----------- 25 files changed, 1212 insertions(+), 1208 deletions(-)
Title: Markov Chain Monte Carlo Small Area Estimation
Description: Fit multi-level models with possibly correlated
random effects using Markov Chain Monte Carlo simulation.
Such models allow smoothing over space and time and are useful in,
for example, small area estimation.
Author: Harm Jan Boonstra [aut, cre],
Grzegorz Baltissen [ctb]
Maintainer: Harm Jan Boonstra <hjboonstra@gmail.com>
Diff between mcmcsae versions 0.7.5 dated 2023-10-10 and 0.7.6 dated 2023-12-02
DESCRIPTION | 10 MD5 | 94 +++---- NEWS | 12 R/MCMCsim.R | 2 R/TMVN_sampler.R | 109 ++++---- R/cholesky.R | 8 R/family.R | 25 - R/formulas.R | 44 +-- R/mc_bart.R | 11 R/mc_block.R | 215 ++++++++++------ R/mc_gen.R | 459 ++++++++++++++++++++++++----------- R/mc_mec.R | 45 +-- R/mc_reg.R | 200 ++++++++------- R/mc_vfac.R | 44 +-- R/models.R | 21 - R/plots.R | 5 R/prediction.R | 8 R/priors.R | 19 - R/random.R | 29 +- R/samplers.R | 229 +++++++++++------ build/vignette.rds |binary inst/doc/area_level.Rmd | 2 inst/doc/area_level.html | 64 ++-- inst/doc/unit_level.Rmd | 2 inst/doc/unit_level.html | 324 ++++++++++++------------ man/create_sampler.Rd | 9 man/gen.Rd | 13 man/mcmcsae-family.Rd | 2 man/mec.Rd | 14 - man/plot_coef.Rd | 5 man/predict.mcdraws.Rd | 2 man/reg.Rd | 2 man/sampler_control.Rd | 9 src/chMatrix.c | 23 - tests/testthat.R | 1 tests/testthat/helper.R |only tests/testthat/test_FH.R | 27 -- tests/testthat/test_binreg.R | 40 +-- tests/testthat/test_gammareg.R | 93 ++++++- tests/testthat/test_gen.R |only tests/testthat/test_grouplevel.R | 18 - tests/testthat/test_linreg.R | 68 ++--- tests/testthat/test_negbinreg.R | 10 tests/testthat/test_predict.R | 9 tests/testthat/test_prior_sampling.R | 11 tests/testthat/test_varmod.R | 72 ++++- tests/testthat/test_weights.R | 12 vignettes/area_level.Rmd | 2 vignettes/unit_level.Rmd | 2 49 files changed, 1477 insertions(+), 948 deletions(-)
Title: Concise, Lazy and Reliable Wrapper for 'chromote' and 'selenium'
Description: A user-friendly wrapper for web automation, using either 'chromote'
or 'selenium'. Provides a simple and consistent API to make web scraping
and testing scripts easy to write and understand. Elements are lazy, and
automatically wait for the website to be valid, resulting in reliable and
reproducible code, with no visible impact on the experience of the
programmer.
Author: Ashby Thorpe [aut, cre, cph]
Maintainer: Ashby Thorpe <ashbythorpe@gmail.com>
Diff between selenider versions 0.1.2 dated 2023-10-01 and 0.2.0 dated 2023-12-02
DESCRIPTION | 18 MD5 | 200 ++-- NAMESPACE | 9 NEWS.md | 32 R/aaa_env.R | 90 - R/actions.R | 1489 +++++++++++++++++++++++++------ R/api.R | 14 R/cache.R | 23 R/children.R | 33 R/conditions.R | 283 ++--- R/docs.R | 14 R/elem_filter.R | 103 +- R/elem_flatten.R | 31 R/equal.R | 20 R/eval_conditions.R | 74 - R/expect.R | 728 ++++++++++----- R/expect_all.R | 24 R/find_actual_element.R | 151 ++- R/find_browser_and_version.R | 54 - R/find_element.R | 69 - R/find_elements.R | 124 -- R/flatmap.R | 40 R/format.R | 258 ++++- R/get_actual_element.R | 62 - R/global_actions.R | 106 +- R/js.R | 445 +++++++-- R/keys.R | 136 ++ R/lazy_list.R | 39 R/minimal_selenider_session.R | 11 R/print.R |only R/print_lazy.R |only R/properties.R | 200 ++-- R/retry_with_timeout.R | 92 - R/rvest.R | 64 - R/selector.R | 59 - R/selenium.R |only R/session.R | 772 +++++++++++----- R/testthat.R | 21 R/utils-checks.R | 65 + R/utils-chromote.R | 16 R/utils-errors.R | 196 +++- R/utils.R | 208 +++- README.md | 30 build/vignette.rds |binary inst/doc/selenider.R | 8 inst/doc/selenider.Rmd | 10 inst/doc/selenider.html | 125 +- inst/doc/unit-testing.R | 4 inst/doc/unit-testing.Rmd | 22 inst/doc/unit-testing.html | 47 inst/doc/with-rvest.html | 4 man/as.list.selenider_elements.Rd | 38 man/back.Rd | 3 man/create_rselenium_client.Rd |only man/current_url.Rd |only man/elem_ancestors.Rd | 33 man/elem_attr.Rd | 6 man/elem_cache.Rd | 23 man/elem_click.Rd | 15 man/elem_css_property.Rd | 2 man/elem_expect.Rd | 50 - man/elem_expect_all.Rd | 24 man/elem_filter.Rd | 37 man/elem_flatten.Rd | 4 man/elem_hover.Rd | 7 man/elem_name.Rd | 3 man/elem_scroll_to.Rd | 4 man/elem_select.Rd |only man/elem_set_value.Rd | 18 man/elem_submit.Rd | 1 man/execute_js_fn.Rd | 23 man/find_element.Rd | 24 man/find_elements.Rd | 11 man/get_actual_element.Rd | 30 man/get_page_source.Rd | 1 man/get_session.Rd | 21 man/has_attr.Rd | 6 man/open_url.Rd | 3 man/print.selenider_element.Rd |only man/read_html.selenider_session.Rd | 4 man/reload.Rd | 3 man/s.Rd | 25 man/selenider-config.Rd | 14 man/selenider-package.Rd | 4 man/selenider_available.Rd | 22 man/selenider_session.Rd | 146 +-- man/take_screenshot.Rd | 3 tests/manual/test-session.R | 30 tests/testthat/_snaps/actions.md |only tests/testthat/_snaps/expect.md | 6 tests/testthat/_snaps/format.md | 203 ++-- tests/testthat/_snaps/print.md |only tests/testthat/helper-devtools.R | 105 +- tests/testthat/helper-session.R | 28 tests/testthat/test-actions.R | 155 +++ tests/testthat/test-conditions.R | 9 tests/testthat/test-format.R | 170 +-- tests/testthat/test-get_actual_element.R | 19 tests/testthat/test-global_actions.R | 16 tests/testthat/test-keys.R | 8 tests/testthat/test-lazy_list.R | 1 tests/testthat/test-print.R |only tests/testthat/test-properties.R | 2 tests/testthat/test-session.R | 5 vignettes/selenider.Rmd | 10 vignettes/unit-testing.Rmd | 22 106 files changed, 5424 insertions(+), 2596 deletions(-)
Title: Tests for Right and Interval-Censored Survival Data Based on the
Fleming-Harrington Class
Description: Functions to compare two or more survival curves with:
a) The Fleming-Harrington test for right-censored data based on permutations and on counting processes.
b) An extension of the Fleming-Harrington test for interval-censored data based on a permutation distribution and on a score vector distribution.
Author: Ramon Oller, Klaus Langohr
Maintainer: Ramon Oller <ramon.oller@uvic.cat>
Diff between FHtest versions 1.5 dated 2020-09-23 and 1.5.1 dated 2023-12-02
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/FHtesticp.default.R | 8 ++++---- R/ics.R | 18 +++++++++--------- R/print.FHtestrcc.R | 6 ++++-- R/rcc.R | 7 ++++--- man/FHtest-package.Rd | 6 +++--- man/FHtesticp.Rd | 6 +++--- man/FHtestics.Rd | 6 +++--- man/duser.Rd | 4 ++-- man/illust3.Rd | 4 ++-- 11 files changed, 49 insertions(+), 46 deletions(-)
Title: Loglikelihood Adjustment for Extreme Value Models
Description: Performs adjusted inferences based on model objects fitted, using
maximum likelihood estimation, by the extreme value analysis packages
'eva' <https://cran.r-project.org/package=eva>,
'evd' <https://cran.r-project.org/package=evd>,
'evir' <https://cran.r-project.org/package=evir>,
'extRemes' <https://cran.r-project.org/package=extRemes>,
'fExtremes' <https://cran.r-project.org/package=fExtremes>,
'ismev' <https://cran.r-project.org/package=ismev>,
'mev' <https://cran.r-project.org/package=mev>,
'POT' <https://cran.r-project.org/package=POT> and
'texmex' <https://cran.r-project.org/package=texmex>.
Adjusted standard errors and an adjusted loglikelihood are provided, using
the 'chandwich' package <https://cran.r-project.org/package=chandwich>
and the object-oriented features of the 'sandwich' package
<https://cran.r-project.org/package=sandwich>. The adjustment is based on a
robust sandwich estimator of the parameter covar [...truncated...]
Author: Paul J. Northrop [aut, cre, cph],
Camellia Yin [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between lax versions 1.2.1 dated 2023-09-02 and 1.2.2 dated 2023-12-02
DESCRIPTION | 8 MD5 | 173 +-- NEWS.md | 6 R/POT.R | 114 +- R/POT_methods.R | 50 R/alogLik_methods.R | 22 R/anova.R | 302 ++--- R/bernoulli.R | 314 ++--- R/estfun.R | 358 +++--- R/eva.R | 316 ++--- R/eva_gevr.R | 168 +-- R/eva_gpd.R | 140 +- R/evd.R | 212 +-- R/evd_methods.R | 64 - R/evir.R | 266 ++-- R/evir_gpd.R | 118 +- R/evir_methods.R | 238 ++-- R/evir_pot.R | 170 +-- R/evir_repot.R | 240 ++-- R/extRemes.R | 300 ++--- R/extRemes_fevd.R | 838 +++++++-------- R/fExtremes.R | 210 +-- R/fExtremes_methods.R | 116 +- R/ismev.R | 644 +++++------ R/ismev_gev_fit.R | 200 +-- R/ismev_gpd_fit.R | 190 +-- R/ismev_methods.R | 248 ++-- R/ismev_pp_fit.R | 186 +-- R/ismev_refits.R | 964 ++++++++--------- R/ismev_rlarg_fit.R | 184 +-- R/lax-internal.R | 1040 +++++++++---------- R/lax-package.R | 12 R/lax_methods.R | 14 R/mev.R | 372 +++--- R/mev_egp.R | 120 +- R/mev_gev.R | 112 +- R/mev_gpd.R | 118 +- R/mev_pp.R | 138 +- R/mev_rlarg.R | 146 +- R/return_level.R | 798 +++++++------- R/texmex.R | 264 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/lax-vignette.R | 90 - inst/doc/lax-vignette.Rmd | 501 ++++----- inst/doc/lax-vignette.html | 441 ++++---- man/POT.Rd | 172 +-- man/alogLik.Rd | 430 +++---- man/anova.lax.Rd | 174 +-- man/bernoulli.Rd | 216 +-- man/eva.Rd | 286 ++--- man/evd.Rd | 222 ++-- man/evir.Rd | 234 ++-- man/extRemes.Rd | 312 ++--- man/fExtremes.Rd | 220 ++-- man/ismev.Rd | 518 ++++----- man/ismev_refits.Rd | 352 +++--- man/lax-internal.Rd | 86 - man/lax-package.Rd | 256 ++-- man/mev.Rd | 270 ++-- man/ow.Rd | 68 - man/plot.retlev.Rd | 118 +- man/pot_refit.Rd | 110 +- man/print.retlev.Rd | 72 - man/print.summary.retlev.Rd | 68 - man/return_level.Rd | 372 +++--- man/summary.retlev.Rd | 70 - man/texmex.Rd | 284 ++--- tests/testthat.R | 8 tests/testthat/test-alogLik-default.R | 44 tests/testthat/test-anova.R | 38 tests/testthat/test-bc-deriv.R | 86 - tests/testthat/test-ismev-gev-vs-rlarg.R | 82 - tests/testthat/test-logLik-POT.R | 58 - tests/testthat/test-logLik-eva.R | 318 ++--- tests/testthat/test-logLik-evd.R | 202 +-- tests/testthat/test-logLik-evir.R | 126 +- tests/testthat/test-logLik-extRemes.R | 434 +++---- tests/testthat/test-logLik-fExtremes.R | 116 +- tests/testthat/test-logLik-ismev.R | 396 +++---- tests/testthat/test-logLik-mev.R | 262 ++-- tests/testthat/test-logLik-texmex.R | 240 ++-- tests/testthat/test-nobs.R | 150 +- tests/testthat/test-return-level.R | 124 +- tests/testthat/test-vcov.R | 322 ++--- vignettes/lax-vignette.Rmd | 501 ++++----- vignettes/lax.bib | 238 ++-- vignettes/taylor-and-francis-chicago-author-date.csl |only 88 files changed, 10102 insertions(+), 10078 deletions(-)
Title: Bayesian Analysis, No Gibbs
Description: Provides functions for the Bayesian analysis of some simple
commonly-used models, without using Markov Chain Monte Carlo (MCMC)
methods such as Gibbs sampling. The 'rust' package
<https://cran.r-project.org/package=rust> is used to simulate a random
sample from the required posterior distribution, using the generalized
ratio-of-uniforms method. See Wakefield, Gelfand and Smith (1991)
<DOI:10.1007/BF01889987> for details. At the moment three conjugate
hierarchical models are available: beta-binomial, gamma-Poisson and a 1-way
analysis of variance (ANOVA).
Author: Paul J. Northrop [aut, cre, cph],
Benjamin D. Hall [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between bang versions 1.0.2 dated 2023-09-02 and 1.0.3 dated 2023-12-02
DESCRIPTION | 8 MD5 | 74 +- NEWS.md | 6 R/bang-package.R | 38 - R/bayesplot.R | 276 +++++----- R/plot_summary_print.R | 874 +++++++++++++++++----------------- R/pois_gamma.R | 182 +++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/bang-a-vignette.R | 4 inst/doc/bang-a-vignette.Rmd | 112 ++-- inst/doc/bang-a-vignette.html | 163 +++--- inst/doc/bang-b-hef-vignette.R | 6 inst/doc/bang-b-hef-vignette.Rmd | 184 +++---- inst/doc/bang-b-hef-vignette.html | 259 +++++----- inst/doc/bang-c-anova-vignette.R | 10 inst/doc/bang-c-anova-vignette.Rmd | 726 ++++++++++++++-------------- inst/doc/bang-c-anova-vignette.html | 257 ++++----- inst/doc/bang-d-ppc-vignette.R | 12 inst/doc/bang-d-ppc-vignette.Rmd | 192 +++---- inst/doc/bang-d-ppc-vignette.html | 216 ++++---- man/bang-package.Rd | 104 ++-- man/plot.hef.Rd | 26 - man/temp1.Rd | 14 man/temp2.Rd | 14 man/weight_gain.Rd | 10 tests/testthat/test-bayesplot.R | 54 +- tests/testthat/test-beta_binom.R | 320 ++++++------ tests/testthat/test-binom_beta_marg.R | 134 ++--- tests/testthat/test-gamma_pois.R | 192 +++---- tests/testthat/test-hanova1.R | 474 +++++++++--------- tests/testthat/test-plot_hef.R | 262 +++++----- tests/testthat/test-set_user_prior.R | 16 tests/testthat/test-sim_hanova1.R | 384 +++++++------- vignettes/bang-a-vignette.Rmd | 112 ++-- vignettes/bang-b-hef-vignette.Rmd | 184 +++---- vignettes/bang-c-anova-vignette.Rmd | 726 ++++++++++++++-------------- vignettes/bang-d-ppc-vignette.Rmd | 192 +++---- 38 files changed, 3409 insertions(+), 3408 deletions(-)
Title: Like Set Tools in 'Base' Package but Keeps Duplicate Elements
Description: The 'base' tools union() intersect(), etc., follow the algebraic definition
that each element of a set must be unique.
Since it's often helpful to compare all elements of two vectors,
this toolset treats every element as unique for counting purposes.
For ease of use, all functions in vecsets have an argument
'multiple' which, when set to FALSE,
reverts them to the base::sets (alias for all the items) tools functionality.
Author: Carl Witthoft [aut, cre]
Maintainer: Carl Witthoft <cellocgw@gmail.com>
Diff between vecsets versions 1.3.1 dated 2023-08-28 and 1.4 dated 2023-12-02
ChangeLog | 1 + DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- R/Oldvintersect.R |only R/vintersect.R | 7 +++++-- R/vperm.R | 4 ++-- R/vsetequal.R | 4 ++-- R/vunion.R | 2 ++ man/vintersect.Rd | 2 +- 9 files changed, 25 insertions(+), 18 deletions(-)
Title: Get Executing Script's Path
Description: Determine the path of the executing script. Compatible
with a few popular GUIs: 'Rgui', 'RStudio', 'VSCode',
'Jupyter', 'Emacs', and 'Rscript' (shell). Compatible with
several functions and packages: 'source()', 'sys.source()',
'debugSource()' in 'RStudio', 'compiler::loadcmp()',
'box::use()', 'knitr::knit()', 'plumber::plumb()',
'shiny::runApp()', 'package:targets', and
'testthat::source_file()'.
Author: Iris Simmons
Maintainer: Iris Simmons <ikwsimmo@gmail.com>
Diff between this.path versions 2.2.0 dated 2023-10-29 and 2.3.0 dated 2023-12-02
this.path-2.2.0/this.path/R/basename2.R |only this.path-2.2.0/this.path/R/ext.R |only this.path-2.2.0/this.path/R/pathjoin.R |only this.path-2.2.0/this.path/R/pathsplit.R |only this.path-2.2.0/this.path/man/sys.path.in.Rd |only this.path-2.2.0/this.path/man/this.proj.in.Rd |only this.path-2.3.0/this.path/DESCRIPTION | 12 this.path-2.3.0/this.path/MD5 | 82 this.path-2.3.0/this.path/NAMESPACE | 8 this.path-2.3.0/this.path/NEWS | 11 this.path-2.3.0/this.path/R/backports.R | 6 this.path-2.3.0/this.path/R/files.R |only this.path-2.3.0/this.path/R/fromshell.R | 27 this.path-2.3.0/this.path/R/lineno.R | 52 this.path-2.3.0/this.path/R/promises.R | 23 this.path-2.3.0/this.path/R/thispath.R | 220 this.path-2.3.0/this.path/R/zzz.R | 5 this.path-2.3.0/this.path/README.md | 4 this.path-2.3.0/this.path/build/partial.rdb |binary this.path-2.3.0/this.path/build/stage23.rdb |binary this.path-2.3.0/this.path/build/this.path.pdf | 8065 +++++------- this.path-2.3.0/this.path/configure.win | 2 this.path-2.3.0/this.path/inst/NEWS.in.Rd | 14 this.path-2.3.0/this.path/inst/extdata/main.R | 106 this.path-2.3.0/this.path/inst/extdata/r-editor_msvcrt.txt | 2 this.path-2.3.0/this.path/inst/extdata/untitled_msvcrt.txt | 2 this.path-2.3.0/this.path/man/LINENO.in.Rd | 45 this.path-2.3.0/this.path/man/here.in.Rd | 98 this.path-2.3.0/this.path/man/macros/macros.Rd | 3 this.path-2.3.0/this.path/man/path.functions.in.Rd | 11 this.path-2.3.0/this.path/man/relpath.in.Rd | 36 this.path-2.3.0/this.path/man/set.gui.path.in.Rd | 3 this.path-2.3.0/this.path/man/this.path-defunct.in.Rd | 6 this.path-2.3.0/this.path/man/this.path-miscellaneous.in.Rd |only this.path-2.3.0/this.path/man/this.path-package.in.Rd | 4 this.path-2.3.0/this.path/man/this.path.in.Rd | 287 this.path-2.3.0/this.path/man/try.this.path.in.Rd | 31 this.path-2.3.0/this.path/src/init.c | 1 this.path-2.3.0/this.path/src/ns-hooks.c | 23 this.path-2.3.0/this.path/src/rgui_path.c | 146 this.path-2.3.0/this.path/src/shfile.c | 53 this.path-2.3.0/this.path/src/this.path.h | 1 this.path-2.3.0/this.path/src/thispath.c | 23 this.path-2.3.0/this.path/src/thispathdefn.c | 14 this.path-2.3.0/this.path/src/thispathdefn.h | 1 this.path-2.3.0/this.path/tools/configure.R | 3 46 files changed, 4231 insertions(+), 5199 deletions(-)
Title: Ratio-of-Uniforms Simulation with Transformation
Description: Uses the generalized ratio-of-uniforms (RU) method to simulate
from univariate and (low-dimensional) multivariate continuous distributions.
The user specifies the log-density, up to an additive constant. The RU
algorithm is applied after relocation of mode of the density to zero, and
the user can choose a tuning parameter r. For details see Wakefield, Gelfand
and Smith (1991) <DOI:10.1007/BF01889987>, Efficient generation of random
variates via the ratio-of-uniforms method, Statistics and Computing (1991)
1, 129-133. A Box-Cox variable transformation can be used to make the input
density suitable for the RU method and to improve efficiency. In the
multivariate case rotation of axes can also be used to improve efficiency.
From version 1.2.0 the 'Rcpp' package
<https://cran.r-project.org/package=Rcpp> can be used to improve efficiency.
Author: Paul J. Northrop [aut, cre, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between rust versions 1.4.1 dated 2023-09-02 and 1.4.2 dated 2023-12-02
DESCRIPTION | 8 MD5 | 76 NEWS.md | 7 R/box_cox_functions.R | 942 ++++---- R/box_cox_functions_rcpp.R | 1166 +++++----- R/gp_example.R | 576 ++--- R/ru_sampling.R | 4 R/ru_sampling_rcpp.R | 4 R/rust-internal.R | 2108 +++++++++---------- R/rust-package.R | 12 R/sample_diagnostics.R | 18 build/partial.rdb |binary build/vignette.rds |binary inst/doc/rust-a-vignette.R | 16 inst/doc/rust-a-vignette.Rmd | 738 +++--- inst/doc/rust-a-vignette.html | 624 ++--- inst/doc/rust-b-when-to-use-vignette.R | 8 inst/doc/rust-b-when-to-use-vignette.Rmd | 292 +- inst/doc/rust-b-when-to-use-vignette.html | 233 +- inst/doc/rust-c-using-rcpp-vignette.R | 2 inst/doc/rust-c-using-rcpp-vignette.Rmd | 678 +++--- inst/doc/rust-c-using-rcpp-vignette.html | 491 ++-- man/plot.ru.Rd | 6 man/ru.Rd | 4 man/ru_rcpp.Rd | 4 man/rust-package.Rd | 164 - man/summary.ru.Rd | 12 src/RcppExports.cpp | 120 - tests/testthat/test-find_lambda.R | 138 - tests/testthat/test-find_lambda_one_d.R | 52 tests/testthat/test-mode.R | 48 tests/testthat/test-ru.R | 756 +++--- tests/testthat/test-ru_equal_ru_rcpp.R | 342 +-- tests/testthat/test-ru_rcpp.R | 748 +++--- vignettes/rust-a-vignette.Rmd | 738 +++--- vignettes/rust-b-when-to-use-vignette.Rmd | 292 +- vignettes/rust-c-using-rcpp-vignette.Rmd | 678 +++--- vignettes/rust.bib | 406 +-- vignettes/taylor-and-francis-chicago-author-date.csl | 1066 ++++----- 39 files changed, 6791 insertions(+), 6786 deletions(-)
Title: Automated Spectral Deconvolution, Alignment, and Metabolite
Identification in GC/MS-Based Untargeted Metabolomics
Description: Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics. Outputs a table with compound names, matching scores and the integrated area of the compound for each sample. Package implementation is described in Domingo-Almenara et al. (2016) <doi:10.1021/acs.analchem.6b02927>.
Author: Xavier Domingo-Almenara [aut, cre, cph], Jasen P. Finch [ctb], Adria Olomi [ctb], Sara Samino [aut], Maria Vinaixa [aut], Alexandre Perera [aut, ths], Jesus Brezmes [aut, ths], Oscar Yanes [aut, ths]
Maintainer: Xavier Domingo-Almenara <xavier.domingoa@eurecat.org>
Diff between erah versions 1.1.2 dated 2021-05-11 and 2.0.0 dated 2023-12-02
erah-1.1.2/erah/inst/doc/eRahManual.Rnw |only erah-1.1.2/erah/inst/doc/eRahManual.pdf |only erah-1.1.2/erah/man/show.MetaboSet.Rd |only erah-1.1.2/erah/vignettes/eRahManual.Rnw |only erah-1.1.2/erah/vignettes/eem.pdf |only erah-2.0.0/erah/DESCRIPTION | 25 erah-2.0.0/erah/MD5 | 125 +-- erah-2.0.0/erah/NAMESPACE | 88 +- erah-2.0.0/erah/R/DB.R | 148 ++- erah-2.0.0/erah/R/MSexport.R | 302 ++++--- erah-2.0.0/erah/R/MSimport.R | 498 ++++++++----- erah-2.0.0/erah/R/RI.R | 275 +++++-- erah-2.0.0/erah/R/alignment.R | 13 erah-2.0.0/erah/R/allClasses.R |only erah-2.0.0/erah/R/erah.R | 760 ++++++++++++------- erah-2.0.0/erah/R/file.R | 341 +++++--- erah-2.0.0/erah/R/missingCompRecovery.R | 420 +++++------ erah-2.0.0/erah/R/mslib.R |only erah-2.0.0/erah/R/plotting.R | 792 +++++++++++--------- erah-2.0.0/erah/R/preprocessing.R | 86 +- erah-2.0.0/erah/R/processing.R | 954 ++++++++++++------------- erah-2.0.0/erah/R/reexports.R |only erah-2.0.0/erah/R/show-method.R |only erah-2.0.0/erah/R/support.R | 145 +-- erah-2.0.0/erah/R/support_methods.R | 507 ++++++++----- erah-2.0.0/erah/R/zzz.R | 29 erah-2.0.0/erah/build/vignette.rds |binary erah-2.0.0/erah/data/mslib.rda |binary erah-2.0.0/erah/inst/CITATION | 35 erah-2.0.0/erah/inst/NEWS | 10 erah-2.0.0/erah/inst/doc/erah-manual.Rmd |only erah-2.0.0/erah/inst/doc/erah-manual.html |only erah-2.0.0/erah/man/MetaboSet-class.Rd | 26 erah-2.0.0/erah/man/RawDataParameters-class.Rd | 44 - erah-2.0.0/erah/man/alignComp.Rd | 38 erah-2.0.0/erah/man/alignList.Rd | 39 - erah-2.0.0/erah/man/compInfo.Rd | 22 erah-2.0.0/erah/man/computeRIerror.Rd | 73 - erah-2.0.0/erah/man/createInstrumentalTable.Rd |only erah-2.0.0/erah/man/createPhenoTable.Rd |only erah-2.0.0/erah/man/createdt.Rd | 17 erah-2.0.0/erah/man/dataList.Rd | 48 - erah-2.0.0/erah/man/deconvolveComp.Rd | 76 + erah-2.0.0/erah/man/eRah_DB-class.Rd | 23 erah-2.0.0/erah/man/expClasses.Rd | 17 erah-2.0.0/erah/man/export2CEF.Rd | 21 erah-2.0.0/erah/man/export2MSP.Rd | 30 erah-2.0.0/erah/man/findComp.Rd | 42 - erah-2.0.0/erah/man/idList.Rd | 44 - erah-2.0.0/erah/man/identifyComp.Rd | 41 - erah-2.0.0/erah/man/importGMD.Rd | 27 erah-2.0.0/erah/man/importMSP.Rd | 64 - erah-2.0.0/erah/man/metaData.Rd | 17 erah-2.0.0/erah/man/mslib.Rd | 19 erah-2.0.0/erah/man/newExp.Rd | 57 - erah-2.0.0/erah/man/phenoData.Rd | 17 erah-2.0.0/erah/man/plotAlign.Rd | 31 erah-2.0.0/erah/man/plotChr.Rd | 48 - erah-2.0.0/erah/man/plotProfile.Rd | 33 erah-2.0.0/erah/man/plotSpectra.Rd | 74 + erah-2.0.0/erah/man/recMissComp.Rd | 41 - erah-2.0.0/erah/man/reexports.Rd |only erah-2.0.0/erah/man/sampleInfo.Rd | 19 erah-2.0.0/erah/man/setAlPar.Rd | 44 - erah-2.0.0/erah/man/setDecPar.Rd | 75 + erah-2.0.0/erah/man/show-MetaboSet-method.Rd |only erah-2.0.0/erah/man/showRTRICurve.Rd |only erah-2.0.0/erah/tests |only erah-2.0.0/erah/vignettes/citations.bib |only erah-2.0.0/erah/vignettes/erah-manual.Rmd |only erah-2.0.0/erah/vignettes/figures |only 71 files changed, 3937 insertions(+), 2783 deletions(-)
Title: Genomic Data Retrieval
Description: Perform large scale genomic data retrieval and functional annotation retrieval. This package aims to provide users with a standardized
way to automate genome, proteome, 'RNA', coding sequence ('CDS'), 'GFF', and metagenome
retrieval from 'NCBI RefSeq', 'NCBI Genbank', 'ENSEMBL',
and 'UniProt' databases. Furthermore, an interface to the 'BioMart' database
(Smedley et al. (2009) <doi:10.1186/1471-2164-10-22>) allows users to retrieve
functional annotation for genomic loci. In addition, users can download entire databases such
as 'NCBI RefSeq' (Pruitt et al. (2007) <doi:10.1093/nar/gkl842>), 'NCBI nr',
'NCBI nt', 'NCBI Genbank' (Benson et al. (2013) <doi:10.1093/nar/gks1195>), etc. with only one command.
Author: Hajk-Georg Drost [aut, cre] ,
Haakon Tjeldnes [aut, ctb]
Maintainer: Hajk-Georg Drost <hajk-georg.drost@tuebingen.mpg.de>
Diff between biomartr versions 1.0.6 dated 2023-10-24 and 1.0.7 dated 2023-12-02
DESCRIPTION | 6 MD5 | 93 ++++----- NEWS.md | 16 + R/biomart.R | 86 +++----- R/custom_download.R | 15 - R/ensembl_ftp_generics.R | 17 + R/get.ensembl.info.R | 18 - R/getAttributes.R | 99 ++------- R/getBioSet.R | 13 + R/getDatasets.R | 154 ++++----------- R/getENSEMBLInfo.R | 119 +++++------ R/getFilters.R | 108 +++------- R/getGenome.R | 7 R/getMarts.R | 51 ++--- R/getSubMarts.R | 70 ++++--- R/is.genome.available.R | 5 R/listGenomes.R | 358 +++++++++--------------------------- R/messages.R | 15 + R/organismBM.R | 83 ++++---- R/organismFilters.R | 99 ++++----- README.md | 2 inst/doc/BioMart_Examples.html | 4 inst/doc/Database_Retrieval.html | 4 inst/doc/Functional_Annotation.html | 4 inst/doc/MetaGenome_Retrieval.html | 4 inst/doc/Sequence_Retrieval.html | 4 man/biomart.Rd | 17 + man/getAttributes.Rd | 16 + man/getBio.Rd | 13 + man/getBioSet.Rd | 13 + man/getCollection.Rd | 13 + man/getDatasets.Rd | 12 - man/getENSEMBL.Rd | 4 man/getENSEMBL.Seq.Rd | 4 man/getENSEMBLInfo.Rd | 10 - man/getFilters.Rd | 10 - man/getGenome.Rd | 13 + man/getGenomeSet.Rd | 13 + man/getMarts.Rd | 16 + man/getRNA.Rd | 13 + man/listGenomes.Rd | 13 - man/organismBM.Rd | 32 +-- man/organismFilters.Rd | 48 ++-- tests/testthat/test-biomart.R | 2 tests/testthat/test-getBioSet.R | 1 tests/testthat/test-getDatasets.R | 6 tests/testthat/test-getMarts.R | 1 tests/testthat/test-listGenomes.R |only 48 files changed, 766 insertions(+), 958 deletions(-)
Title: Statistical Inference for Partially Observed Markov Processes
Description: Tools for data analysis with partially observed Markov process (POMP) models (also known as stochastic dynamical systems, hidden Markov models, and nonlinear, non-Gaussian, state-space models). The package provides facilities for implementing POMP models, simulating them, and fitting them to time series data by a variety of frequentist and Bayesian methods. It is also a versatile platform for implementation of inference methods for general POMP models.
Author: Aaron A. King [aut, cre] ,
Edward L. Ionides [aut] ,
Carles Breto [aut] ,
Stephen P. Ellner [ctb] ,
Matthew J. Ferrari [ctb],
Sebastian Funk [ctb] ,
Steven G. Johnson [ctb],
Bruce E. Kendall [ctb] ,
Michael Lavine [ctb],
Dao Nguyen [ctb] ,
Eamon B. O [...truncated...]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between pomp versions 5.4 dated 2023-08-07 and 5.5 dated 2023-12-02
DESCRIPTION | 8 - MD5 | 44 ++++----- R/builder.R | 3 R/objfun.R | 8 - R/templates.R | 18 +++- R/traj_match.R | 9 +- build/partial.rdb |binary data/LondonYorke.rda |binary data/bsflu.rda |binary data/ebolaWA2014.rda |binary data/ewcitmeas.rda |binary data/ewmeas.rda |binary inst/NEWS | 21 ++++ inst/NEWS.Rd | 11 ++ inst/include/pomp.h | 226 ++++++++++++++++++++++++++++++++------------------- src/bspline.c | 28 ++---- src/decls.h | 2 src/init.c | 5 - src/pomp.h | 226 ++++++++++++++++++++++++++++++++------------------- src/probe.c | 6 - src/probe_acf.c | 2 src/synth_lik.c | 2 src/userdata.c | 1 23 files changed, 397 insertions(+), 223 deletions(-)
Title: Similarity and Distance Quantification Between Probability
Functions
Description: Computes 46 optimized distance and similarity measures for comparing probability functions (Drost (2018) <doi:10.21105/joss.00765>). These comparisons between probability functions have their foundations in a broad range of scientific disciplines from mathematics to ecology. The aim of this package is to provide a core framework for clustering, classification, statistical inference, goodness-of-fit, non-parametric statistics, information theory, and machine learning tasks that are based on comparing univariate or multivariate probability functions.
Author: Hajk-Georg Drost [aut, cre] ,
Jakub Nowosad [ctb]
Maintainer: Hajk-Georg Drost <hajk-georg.drost@tuebingen.mpg.de>
Diff between philentropy versions 0.7.0 dated 2022-11-05 and 0.8.0 dated 2023-12-02
DESCRIPTION | 8 MD5 | 34 +- NEWS.md | 17 + R/RcppExports.R | 2 README.md | 45 ++- build/vignette.rds |binary inst/CITATION | 4 inst/doc/Distances.Rmd | 4 inst/doc/Distances.html | 474 ++++++++++++++++++++++++++-------- inst/doc/Information_Theory.Rmd | 3 inst/doc/Information_Theory.html | 536 ++++++++++++++++++++++++++++----------- inst/doc/Introduction.Rmd | 6 inst/doc/Introduction.html | 454 +++++++++++++++++++++++++++------ inst/doc/Many_Distances.html | 512 +++++++++++++++++++++++++++---------- src/RcppExports.cpp | 8 vignettes/Distances.Rmd | 4 vignettes/Information_Theory.Rmd | 3 vignettes/Introduction.Rmd | 6 18 files changed, 1608 insertions(+), 512 deletions(-)
Title: Estimation of the Extremal Index
Description: Performs frequentist inference for the extremal index of a
stationary time series. Two types of methodology are used. One type is
based on a model that relates the distribution of block maxima to the
marginal distribution of series and leads to the semiparametric maxima
estimators described in Northrop (2015) <doi:10.1007/s10687-015-0221-5> and
Berghaus and Bucher (2018) <doi:10.1214/17-AOS1621>. Sliding block maxima
are used to increase precision of estimation. A graphical block size
diagnostic is provided. The other type of methodology uses a model for the
distribution of threshold inter-exceedance times (Ferro and Segers (2003)
<doi:10.1111/1467-9868.00401>). Three versions of this type of approach are
provided: the iterated weight least squares approach of Suveges (2007)
<doi:10.1007/s10687-007-0034-2>, the K-gaps model of
Suveges and Davison (2010) <doi:10.1214/09-AOAS292> and a similar approach
of Holesovsky and Fusek (2020) <doi:10.1007/s1068 [...truncated...]
Author: Paul J. Northrop [aut, cre, cph],
Constantinos Christodoulides [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between exdex versions 1.2.2 dated 2023-09-10 and 1.2.3 dated 2023-12-02
DESCRIPTION | 8 MD5 | 138 - NEWS.md | 8 R/block_maxima.R | 168 - R/choose_b.R | 452 ++-- R/dgaps.R | 690 +++---- R/dgaps_imt.R | 548 ++--- R/dgaps_methods.R | 366 +-- R/exdex-internal.R | 1784 +++++++++---------- R/exdex-package.R | 46 R/iwls.R | 250 +- R/iwls_methods.R | 156 - R/kgaps.R | 16 R/kgaps_imt.R | 522 ++--- R/kgaps_methods.R | 366 +-- R/split_by_NAs.R | 172 - R/spm_methods.R | 514 ++--- R/spm_rcpp.R | 680 +++---- R/zzz.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/exdex-vignette.R | 14 inst/doc/exdex-vignette.Rmd | 364 +-- inst/doc/exdex-vignette.html | 431 ++-- man/cheeseboro.Rd | 74 man/choose_ud.Rd | 222 +- man/dgaps.Rd | 278 +- man/dgaps_confint.Rd | 242 +- man/dgaps_imt.Rd | 184 - man/dgaps_imt_stat.Rd | 112 - man/dgaps_methods.Rd | 198 +- man/dgaps_stat.Rd | 212 +- man/exdex-package.Rd | 172 - man/iwls_methods.Rd | 104 - man/kgaps_confint.Rd | 250 +- man/kgaps_imt.Rd | 192 +- man/kgaps_imt_stat.Rd | 120 - man/kgaps_methods.Rd | 198 +- man/kgaps_stat.Rd | 16 man/plot.choose_ud.Rd | 206 +- man/split_by_NAs.Rd | 110 - man/spm.Rd | 8 man/spm_confint.Rd | 416 ++-- man/spm_methods.Rd | 214 +- man/uccle.Rd | 79 man/uccle720.Rd | 103 - man/uccle720m.Rd | 92 src/RcppExports.cpp | 8 tests/testthat/test-choose_b.R | 38 tests/testthat/test-choose_ud_FALSE.R | 138 - tests/testthat/test-choose_ud_TRUE.R | 138 - tests/testthat/test-choose_uk_FALSE.R | 138 - tests/testthat/test-choose_uk_TRUE.R | 138 - tests/testthat/test-confint.R | 344 +-- tests/testthat/test-dgaps.R | 116 - tests/testthat/test-dgaps_imt.R | 136 - tests/testthat/test-imt_stat.R | 112 - tests/testthat/test-iwls.R | 24 tests/testthat/test-kgaps.R | 54 tests/testthat/test-kgaps_imt.R | 136 - tests/testthat/test-kgaps_imt_simple_eg.R | 274 +- tests/testthat/test-kgaps_imt_vs_old.R | 64 tests/testthat/test-maxima.R | 326 +-- tests/testthat/test-misc.R | 76 tests/testthat/test-sigmahat_dj.R | 60 tests/testthat/test-split_by_NA.R | 224 +- tests/testthat/test-spm.R | 284 +-- vignettes/exdex-vignette.Rmd | 364 +-- vignettes/exdex.bib | 198 +- vignettes/taylor-and-francis-chicago-author-date.csl | 1066 +++++------ 70 files changed, 7981 insertions(+), 7976 deletions(-)
Title: My Utilities for Developing Data Science Software
Description: Some general utilities (helper functions) that I and maybe others
find useful when developing data science software. Functionality includes
argument validation, density calculation, sampling, matrix printing,
user interaction, storage helpers and more. The vignettes illustrate use
cases.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between oeli versions 0.2.0 dated 2023-11-03 and 0.3.0 dated 2023-12-02
oeli-0.2.0/oeli/R/dictionary.R |only oeli-0.2.0/oeli/R/try_something.R |only oeli-0.2.0/oeli/man/Index.Rd |only oeli-0.2.0/oeli/tests/testthat/_snaps/dictionary.md |only oeli-0.2.0/oeli/tests/testthat/test-dictionary.R |only oeli-0.3.0/oeli/DESCRIPTION | 23 oeli-0.3.0/oeli/MD5 | 176 ++-- oeli-0.3.0/oeli/NAMESPACE | 32 oeli-0.3.0/oeli/NEWS.md | 38 oeli-0.3.0/oeli/R/argument_validation.R | 118 ++ oeli-0.3.0/oeli/R/calculate_density.R | 4 oeli-0.3.0/oeli/R/catching_exceptions.R |only oeli-0.3.0/oeli/R/cholesky_root.R | 4 oeli-0.3.0/oeli/R/covariance_differencing.R | 5 oeli-0.3.0/oeli/R/data_frame_helpers.R |only oeli-0.3.0/oeli/R/date_helpers.R |only oeli-0.3.0/oeli/R/dictionary_helpers.R |only oeli-0.3.0/oeli/R/function_helpers.R | 9 oeli-0.3.0/oeli/R/hidden_markov.R |only oeli-0.3.0/oeli/R/index_helpers.R | 49 + oeli-0.3.0/oeli/R/list_helpers.R | 516 ------------ oeli-0.3.0/oeli/R/markov_chain.R | 37 oeli-0.3.0/oeli/R/matrix_helpers.R | 41 oeli-0.3.0/oeli/R/oeli-package.R | 2 oeli-0.3.0/oeli/R/package_helpers.R | 108 ++ oeli-0.3.0/oeli/R/sample_things.R | 106 +- oeli-0.3.0/oeli/R/storage_helpers.R |only oeli-0.3.0/oeli/R/teaching_helpers.R |only oeli-0.3.0/oeli/R/timed_evaluation.R | 44 - oeli-0.3.0/oeli/R/user_interaction.R | 3 oeli-0.3.0/oeli/README.md | 43 - oeli-0.3.0/oeli/build |only oeli-0.3.0/oeli/inst |only oeli-0.3.0/oeli/man/Dictionary.Rd | 2 oeli-0.3.0/oeli/man/Storage.Rd |only oeli-0.3.0/oeli/man/basic_package_sticker.Rd | 46 - oeli-0.3.0/oeli/man/check_correlation_matrix.Rd | 8 oeli-0.3.0/oeli/man/check_covariance_matrix.Rd | 8 oeli-0.3.0/oeli/man/check_date.Rd |only oeli-0.3.0/oeli/man/check_probability_vector.Rd | 78 - oeli-0.3.0/oeli/man/check_transition_probability_matrix.Rd | 84 + oeli-0.3.0/oeli/man/cov_2_chol.Rd | 68 - oeli-0.3.0/oeli/man/ddirichlet.Rd | 64 - oeli-0.3.0/oeli/man/ddirichlet_cpp.Rd | 60 - oeli-0.3.0/oeli/man/delete_data_frame_columns.Rd |only oeli-0.3.0/oeli/man/diff_cov.Rd | 124 +- oeli-0.3.0/oeli/man/dmvnorm.Rd | 66 - oeli-0.3.0/oeli/man/dmvnorm_cpp.Rd | 60 - oeli-0.3.0/oeli/man/do.call_timed.Rd | 5 oeli-0.3.0/oeli/man/dwishart.Rd | 80 - oeli-0.3.0/oeli/man/dwishart_cpp.Rd | 72 - oeli-0.3.0/oeli/man/find_closest_year.Rd |only oeli-0.3.0/oeli/man/function_arguments.Rd | 60 - oeli-0.3.0/oeli/man/function_body.Rd | 62 - oeli-0.3.0/oeli/man/function_defaults.Rd | 52 - oeli-0.3.0/oeli/man/group_data_frame.Rd |only oeli-0.3.0/oeli/man/hmm.Rd |only oeli-0.3.0/oeli/man/ll_hmm.Rd |only oeli-0.3.0/oeli/man/match_arg.Rd | 64 - oeli-0.3.0/oeli/man/match_numerics.Rd |only oeli-0.3.0/oeli/man/matrix_indices.Rd | 58 - oeli-0.3.0/oeli/man/merge_lists.Rd | 46 - oeli-0.3.0/oeli/man/oeli-package.Rd | 5 oeli-0.3.0/oeli/man/parameter.Rd |only oeli-0.3.0/oeli/man/permutations.Rd | 50 - oeli-0.3.0/oeli/man/plot_sequence.Rd |only oeli-0.3.0/oeli/man/print_matrix.Rd | 118 +- oeli-0.3.0/oeli/man/rdirichlet.Rd | 50 - oeli-0.3.0/oeli/man/rdirichlet_cpp.Rd | 44 - oeli-0.3.0/oeli/man/renv_development_packages.Rd |only oeli-0.3.0/oeli/man/rmvnorm.Rd | 66 - oeli-0.3.0/oeli/man/rmvnorm_cpp.Rd | 70 - oeli-0.3.0/oeli/man/rtnorm_cpp.Rd | 84 - oeli-0.3.0/oeli/man/rwishart.Rd | 64 - oeli-0.3.0/oeli/man/rwishart_cpp.Rd | 70 - oeli-0.3.0/oeli/man/sample_covariance_matrix.Rd | 60 - oeli-0.3.0/oeli/man/sample_transition_probability_matrix.Rd |only oeli-0.3.0/oeli/man/sdd_call.Rd |only oeli-0.3.0/oeli/man/sdds_dictionary.Rd |only oeli-0.3.0/oeli/man/simulate_hmm.Rd |only oeli-0.3.0/oeli/man/simulate_markov_chain.Rd |only oeli-0.3.0/oeli/man/stationary_distribution.Rd | 56 - oeli-0.3.0/oeli/man/timed.Rd | 24 oeli-0.3.0/oeli/man/try_silent.Rd | 58 - oeli-0.3.0/oeli/man/unexpected_error.Rd |only oeli-0.3.0/oeli/man/user_confirm.Rd | 40 oeli-0.3.0/oeli/man/variable_name.Rd | 54 - oeli-0.3.0/oeli/src/RcppExports.cpp | 2 oeli-0.3.0/oeli/tests/testthat.R | 24 oeli-0.3.0/oeli/tests/testthat/_snaps/dictionary_helpers.md |only oeli-0.3.0/oeli/tests/testthat/test-argument_validation.R | 12 oeli-0.3.0/oeli/tests/testthat/test-calculate_density.R | 3 oeli-0.3.0/oeli/tests/testthat/test-data_frame_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-date_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-dictionary_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-function_helpers.R | 10 oeli-0.3.0/oeli/tests/testthat/test-hidden_markov.R |only oeli-0.3.0/oeli/tests/testthat/test-index_helpers.R | 13 oeli-0.3.0/oeli/tests/testthat/test-list_helpers.R | 31 oeli-0.3.0/oeli/tests/testthat/test-markov_chain.R | 19 oeli-0.3.0/oeli/tests/testthat/test-package_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-sample_things.R | 43 - oeli-0.3.0/oeli/tests/testthat/test-storage_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-teaching_helpers.R |only oeli-0.3.0/oeli/tests/testthat/test-timed_evaluation.R | 17 oeli-0.3.0/oeli/vignettes |only 106 files changed, 1809 insertions(+), 1803 deletions(-)
Title: The Interpolate, Truncate, Project (ITP) Root-Finding Algorithm
Description: Implements the Interpolate, Truncate, Project (ITP) root-finding
algorithm developed by Oliveira and Takahashi (2021) <doi:10.1145/3423597>.
The user provides the function, from the real numbers to the real numbers,
and an interval with the property that the values of the function at its
endpoints have different signs. If the function is continuous over this
interval then the ITP method estimates the value at which the function is
equal to zero. If the function is discontinuous then a point of
discontinuity at which the function changes sign may be found.
The function can be supplied using either an R function or an external
pointer to a C++ function. Tuning parameters of the ITP algorithm can be
set by the user. Default values are set based on arguments in Oliveira and
Takahashi (2021).
Author: Paul J. Northrop [aut, cre, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between itp versions 1.2.0 dated 2022-07-16 and 1.2.1 dated 2023-12-02
DESCRIPTION | 10 MD5 | 82 - NAMESPACE | 20 NEWS.md | 54 R/RcppExports.R | 14 R/itp-internal.R | 118 +- R/itp-package.R | 68 - R/itp.R | 530 ++++----- R/itpPlot.R | 128 +- R/itpPrint.R | 76 - README.md | 56 build/partial.rdb |binary build/vignette.rds |binary inst/doc/itp-vignette.R | 12 inst/doc/itp-vignette.Rmd | 472 ++++---- inst/doc/itp-vignette.html | 643 ++++++++--- man/figures/README-lambert-1.png |binary man/figures/README-staircase-1.png |binary man/figures/README-warsaw-1.png |binary man/itp-internal.Rd | 38 man/itp-package.Rd | 94 - man/itp.Rd | 400 +++---- man/itp_c.Rd | 138 +- man/plot.itp.Rd | 98 - man/print.itp.Rd | 80 - man/xptr_create.Rd | 82 - man/xptr_eval.Rd | 94 - src/RcppExports.cpp | 24 src/user_fns.cpp | 12 tests/testthat.R | 8 tests/testthat/test-R-vs-Cpp.R | 140 +- tests/testthat/test-continuous.R | 342 +++--- tests/testthat/test-discontinuous.R | 90 - tests/testthat/test-errors-itpC.R | 130 +- tests/testthat/test-errors.R | 122 +- tests/testthat/test-itp-vs-itpC.R | 194 +-- tests/testthat/test-multiple-roots.R | 50 tests/testthat/test-plot.R | 74 - tests/testthat/test-print.R | 28 vignettes/itp-vignette.Rmd | 472 ++++---- vignettes/itp.bib | 38 vignettes/taylor-and-francis-chicago-author-date.csl | 1066 +++++++++---------- 42 files changed, 3180 insertions(+), 2917 deletions(-)
Title: Processing Hemispherical Canopy Images
Description: Import and classify canopy fish-eye images, estimate angular gap fraction and derive canopy attributes like leaf area index and openness. Additional information is provided in the study by Chianucci F., Macek M. (2023) <doi:10.1016/j.agrformet.2023.109470>.
Author: Francesco Chianucci [aut, cre]
,
Martin Macek [aut]
Maintainer: Francesco Chianucci <fchianucci@gmail.com>
Diff between hemispheR versions 1.1.0 dated 2023-11-20 and 1.1.1 dated 2023-12-02
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ R/gapfrac_fisheye.R | 16 +++++++++------- 4 files changed, 18 insertions(+), 13 deletions(-)
Title: 'Dang' Associated New Goodies
Description: A collection of utility functions.
Author: Dirk Eddelbuettel with contributions by Brodie Gaslam, Kevin Denny,
Kabira Namit, Colin Gillespie, R Core, Josh Ulrich, Jordan Mark Barbone,
Bill Dunlap, and others.
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between dang versions 0.0.15 dated 2021-10-29 and 0.0.16 dated 2023-12-02
ChangeLog | 77 +++++++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 10 ++--- MD5 | 33 ++++++++++-------- NAMESPACE | 4 +- R/datatable.R | 31 ++++++++++++++++- R/googleFinanceData.R | 12 ------ R/intradayMarketMonitor.R | 11 +++--- R/plotOBOS.R | 5 +- R/readAndConvert.R | 2 - R/shadowedPackages.R |only R/str.language.R |only README.md | 5 +- inst/NEWS.Rd | 17 +++++++++ man/googleFinanceData.Rd | 2 - man/intradayMarketMonitor.Rd | 5 ++ man/limitDataTableCores.Rd |only man/readAndConvert.Rd | 2 - man/shadowedPackages.Rd |only man/str.language.Rd |only src/readAndConvert.cpp | 6 ++- 20 files changed, 173 insertions(+), 49 deletions(-)
Title: A C++11 Interface for R's C Interface
Description: Provides a header only, C++11 interface to R's C
interface. Compared to other approaches 'cpp11' strives to be safe
against long jumps from the C API as well as C++ exceptions, conform
to normal R function semantics and supports interaction with 'ALTREP'
vectors.
Author: Davis Vaughan [aut, cre] ,
Jim Hester [aut] ,
Romain Francois [aut] ,
Benjamin Kietzman [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between cpp11 versions 0.4.6 dated 2023-08-10 and 0.4.7 dated 2023-12-02
DESCRIPTION | 8 MD5 | 40 - NEWS.md | 5 inst/doc/FAQ.R | 6 inst/doc/FAQ.html | 10 inst/doc/converting.R | 37 - inst/doc/converting.Rmd | 200 ++++----- inst/doc/converting.html | 778 +++++++------------------------------- inst/doc/cpp11.R | 8 inst/doc/cpp11.Rmd | 20 inst/doc/cpp11.html | 64 +-- inst/doc/internals.R | 2 inst/doc/internals.html | 2 inst/doc/motivations.R | 22 - inst/doc/motivations.html | 6 inst/include/cpp11/protect.hpp | 4 inst/include/cpp11/sexp.hpp | 11 tests/testthat/_snaps/register.md | 2 tests/testthat/_snaps/source.md | 5 vignettes/converting.Rmd | 200 ++++----- vignettes/cpp11.Rmd | 20 21 files changed, 459 insertions(+), 991 deletions(-)
Title: Entropy-Based Segregation Indices
Description: Computes segregation indices, including the Index of Dissimilarity,
as well as the information-theoretic indices developed by
Theil (1971) <isbn:978-0471858454>, namely
the Mutual Information Index (M) and Theil's Information Index (H).
The M, further described by Mora and Ruiz-Castillo (2011) <doi:10.1111/j.1467-9531.2011.01237.x>
and Frankel and Volij (2011) <doi:10.1016/j.jet.2010.10.008>,
is a measure of segregation that is highly decomposable. The package provides
tools to decompose the index by units and groups (local segregation),
and by within and between terms. The package also provides a method to decompose
differences in segregation as described by Elbers (2021) <doi:10.1177/0049124121986204>.
The package includes standard error estimation by bootstrapping, which also corrects for
small sample bias. The package also contains functions for visualizing segregation patterns.
Author: Benjamin Elbers [aut, cre]
Maintainer: Benjamin Elbers <be2239@columbia.edu>
Diff between segregation versions 1.0.0 dated 2023-08-24 and 1.1.0 dated 2023-12-02
DESCRIPTION | 9 - MD5 | 73 +++++----- NAMESPACE | 2 NEWS.md | 11 + R/RcppExports.R | 8 - R/compression.R | 258 ++++++++++++++++++++++++------------ R/dissimilarity.R | 8 - R/exposure.R | 6 R/mutual.R | 10 - R/mutual_difference.R | 2 R/mutual_expected.R | 6 R/plots.R | 175 ++++++++++++++++-------- R/segregation.R | 12 + README.md | 63 ++++---- build/vignette.rds |binary inst/doc/plotting.R | 24 ++- inst/doc/plotting.Rmd | 50 +++++-- inst/doc/plotting.html | 151 ++++++++++++--------- inst/doc/segregation.html | 20 +- man/dissimilarity.Rd | 2 man/dissimilarity_expected.Rd | 2 man/exposure.Rd | 2 man/figures |only man/isolation.Rd | 2 man/merge_units.Rd | 2 man/mutual_expected.Rd | 2 man/mutual_local.Rd | 2 man/mutual_total.Rd | 2 man/mutual_total_nested.Rd | 2 man/mutual_within.Rd | 4 man/segcurve.Rd | 17 +- man/segplot.Rd | 18 +- man/segregation.Rd | 1 src/RcppExports.cpp | 25 ++- src/compression.cpp | 269 ++++++++++++++++++++++++++++++-------- tests/testthat/test_compression.R | 32 ++++ tests/testthat/test_plots.R | 31 +++- vignettes/plotting.Rmd | 50 +++++-- 38 files changed, 931 insertions(+), 422 deletions(-)
Title: Tidy C++ Header-Only Definitions for Parts of the C API of R
Description: Core parts of the C API of R are wrapped in a C++ namespace via a set
of inline functions giving a tidier representation of the underlying data structures
and functionality using a header-only implementation without additional dependencies.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between tidyCpp versions 0.0.6 dated 2021-12-06 and 0.0.7 dated 2023-12-02
ChangeLog | 23 + DESCRIPTION | 8 MD5 | 21 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 8 inst/doc/motivation.html | 911 +++++++++++++++++++++++------------------ inst/doc/motivation.md | 2 inst/include/tidy/internals.h | 12 inst/snippets/createMatrix.cpp |only tests/version.R | 2 vignettes/motivation.md | 2 12 files changed, 575 insertions(+), 414 deletions(-)
Title: Unit Testing for R
Description: Software testing is important, but, in part because it is
frustrating and boring, many of us avoid it. 'testthat' is a testing
framework for R that is easy to learn and use, and integrates with
your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb] )
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between testthat versions 3.2.0 dated 2023-10-06 and 3.2.1 dated 2023-12-02
DESCRIPTION | 16 +++--- MD5 | 72 +++++++++++++++--------------- NEWS.md | 21 ++++++++ R/deprec-condition.R | 2 R/expect-condition.R | 7 ++ R/mock2.R | 13 +---- R/reporter-junit.R | 5 +- R/skip.R | 2 R/snapshot-manage.R | 3 - R/snapshot.R | 2 R/source.R | 2 R/test-compiled-code.R | 2 R/test-files.R | 2 R/utils.R | 30 ------------ build/vignette.rds |binary inst/doc/custom-expectation.html | 2 inst/doc/parallel.html | 2 inst/doc/skipping.html | 2 inst/doc/snapshotting.html | 14 +++-- inst/doc/special-files.html | 2 inst/doc/test-fixtures.R | 4 - inst/doc/test-fixtures.Rmd | 4 - inst/doc/test-fixtures.html | 5 -- inst/doc/third-edition.html | 2 inst/include/testthat/testthat.h | 2 man/local_mocked_bindings.Rd | 3 - man/skip.Rd | 2 man/test_file.Rd | 2 tests/testthat/_snaps/R4.3 |only tests/testthat/_snaps/expect-condition.md | 11 ++++ tests/testthat/_snaps/mock2.md | 5 -- tests/testthat/test-expect-condition.R | 4 + tests/testthat/test-expect-known.R | 2 tests/testthat/test-mock2.R | 6 ++ tests/testthat/test-snapshot.R | 12 +++++ tests/testthat/test-source.R | 2 vignettes/test-fixtures.Rmd | 4 - 37 files changed, 142 insertions(+), 129 deletions(-)
Title: Low-Level R to Java Interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
Author: Simon Urbanek <simon.urbanek@r-project.org>
Maintainer: Simon Urbanek <simon.urbanek@r-project.org>
Diff between rJava versions 1.0-6 dated 2021-12-10 and 1.0-10 dated 2023-12-02
DESCRIPTION | 6 MD5 | 204 +++++----- NEWS | 59 ++ R/jfirst.R | 1 R/jinit.R | 6 inst/java/RJavaArrayTools.class |binary inst/java/RJavaArrayTools.java | 6 inst/java/RJavaArrayTools_Test.class |binary inst/java/RJavaArrayTools_Test.java | 8 inst/java/RJavaComparator.class |binary inst/java/RJavaComparator.java | 4 inst/java/boot/RJavaClassLoader$RJavaObjectInputStream.class |binary inst/java/boot/RJavaClassLoader$UnixDirectory.class |binary inst/java/boot/RJavaClassLoader$UnixJarFile.class |binary inst/java/boot/RJavaClassLoader.class |binary inst/java/boot/RJavaClassLoader.java | 1 inst/javadoc/ArrayDimensionException.html | 4 inst/javadoc/ArrayWrapper.html | 4 inst/javadoc/ArrayWrapper_Test.html | 4 inst/javadoc/DummyPoint.html | 4 inst/javadoc/FlatException.html | 4 inst/javadoc/NotAnArrayException.html | 4 inst/javadoc/NotComparableException.html | 4 inst/javadoc/ObjectArrayException.html | 4 inst/javadoc/PrimitiveArrayException.html | 4 inst/javadoc/RJavaArrayIterator.html | 4 inst/javadoc/RJavaArrayTools.ArrayDimensionMismatchException.html | 4 inst/javadoc/RJavaArrayTools.html | 4 inst/javadoc/RJavaArrayTools_Test.html | 4 inst/javadoc/RJavaClassLoader.html | 4 inst/javadoc/RJavaComparator.html | 4 inst/javadoc/RJavaImport.html | 4 inst/javadoc/RJavaTools.html | 4 inst/javadoc/RJavaTools_Test.DummyNonStaticClass.html | 4 inst/javadoc/RJavaTools_Test.TestException.html | 4 inst/javadoc/RJavaTools_Test.html | 4 inst/javadoc/RectangularArrayBuilder.html | 4 inst/javadoc/RectangularArrayBuilder_Test.html | 4 inst/javadoc/RectangularArrayExamples.html | 4 inst/javadoc/RectangularArraySummary.html | 4 inst/javadoc/TestException.html | 4 inst/javadoc/allclasses-index.html | 4 inst/javadoc/allclasses.html | 4 inst/javadoc/allpackages-index.html | 4 inst/javadoc/constant-values.html | 4 inst/javadoc/deprecated-list.html | 4 inst/javadoc/help-doc.html | 4 inst/javadoc/index-all.html | 4 inst/javadoc/index.html | 2 inst/javadoc/jquery/jszip/dist/jszip.js | 151 +++---- inst/javadoc/jquery/jszip/dist/jszip.min.js | 4 inst/javadoc/member-search-index.zip |binary inst/javadoc/overview-tree.html | 4 inst/javadoc/package-search-index.zip |binary inst/javadoc/package-summary.html | 4 inst/javadoc/package-tree.html | 4 inst/javadoc/serialized-form.html | 4 inst/javadoc/type-search-index.zip |binary inst/jri/JRIEngine.jar |binary inst/jri/REngine.jar |binary jri/Makefile.all | 1 jri/REngine/JRI/JRIEngine.java | 38 - jri/REngine/REXPReference.java | 2 jri/REngine/REngine.java | 2 jri/REngine/Rserve/OOBInterface.java |only jri/REngine/Rserve/RConnection.java | 95 ++++ jri/REngine/Rserve/protocol/RPacket.java | 7 jri/REngine/Rserve/protocol/RTalk.java | 95 +++- jri/RFactor.java | 4 jri/src/Makefile.all | 8 jri/src/Rcallbacks.c | 105 +++-- jri/src/Rcallbacks.h | 6 jri/src/Rinit.c | 18 jri/src/Rinit.h | 2 jri/src/rjava.c | 6 jri/src/rjava.h | 6 jri/src/rjstring.c |only jri/src/rjstring.h |only man/javaImport.Rd | 2 man/jcall.Rd | 2 man/jinit.Rd | 32 + man/jnull.Rd | 4 man/rJava-internal.Rd |only src/Rglue.c | 193 +-------- src/callJNI.c | 4 src/fields.c | 3 src/init.c | 35 + src/java/RJavaArrayTools.class |binary src/java/RJavaArrayTools.java | 6 src/java/RJavaArrayTools_Test.class |binary src/java/RJavaArrayTools_Test.java | 8 src/java/RJavaClassLoader$RJavaObjectInputStream.class |binary src/java/RJavaClassLoader$UnixDirectory.class |binary src/java/RJavaClassLoader$UnixJarFile.class |binary src/java/RJavaClassLoader.class |binary src/java/RJavaClassLoader.java | 1 src/java/RJavaComparator.class |binary src/java/RJavaComparator.java | 4 src/loader.c | 2 src/otables.c | 2 src/rJava.c | 10 src/rJava.h | 25 - src/registration.c | 2 src/rjstring.c |only src/rjstring.h |only src/tools.c | 6 106 files changed, 760 insertions(+), 572 deletions(-)
Title: Mine Sweeper Game
Description: This is the very popular mine sweeper game! The game requires you to find out tiles that contain mines through clues from unmasking neighboring tiles. Each tile that does not contain a mine shows the number of mines in its adjacent tiles. If you unmask all tiles that do not contain mines, you win the game; if you unmask any tile that contains a mine, you lose the game. For further game instructions, please run `help(run_game)` and check details. This game runs in X11-compatible devices with `grDevices::x11()`.
Author: Xiurui Zhu [aut, cre]
Maintainer: Xiurui Zhu <zxr6@163.com>
Diff between mineSweepR versions 0.1.0 dated 2023-10-09 and 0.1.1 dated 2023-12-02
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md |only R/main.R | 29 +++++++++++++++++------------ README.md | 4 ++-- 5 files changed, 26 insertions(+), 20 deletions(-)
Title: I/O Tools for Streaming
Description: Basic I/O tools for streaming and data parsing.
Author: Simon Urbanek <Simon.Urbanek@r-project.org>, Taylor Arnold <taylor.arnold@acm.org>
Maintainer: Simon Urbanek <Simon.Urbanek@r-project.org>
Diff between iotools versions 0.3-2 dated 2021-07-23 and 0.3-5 dated 2023-12-02
iotools-0.3-2/iotools/tests/testthat |only iotools-0.3-2/iotools/tests/testthat.R |only iotools-0.3-5/iotools/DESCRIPTION | 9 +- iotools-0.3-5/iotools/MD5 | 28 ++++---- iotools-0.3-5/iotools/NAMESPACE | 1 iotools-0.3-5/iotools/NEWS | 46 +++++++++++++ iotools-0.3-5/iotools/R/local.R | 15 ++-- iotools-0.3-5/iotools/R/stream.R | 107 +++++++++++++++++++------------ iotools-0.3-5/iotools/README.md | 14 ++-- iotools-0.3-5/iotools/man/chunk.apply.Rd | 74 +++++++++++++++++++-- iotools-0.3-5/iotools/src/acc.c |only iotools-0.3-5/iotools/src/as_output.c | 26 +++++-- iotools-0.3-5/iotools/src/lnchunk.c | 62 +++++++++++++---- iotools-0.3-5/iotools/src/split_df_fw.c | 2 iotools-0.3-5/iotools/tests/non-cran |only iotools-0.3-5/iotools/tests/test.R |only iotools-0.3-5/iotools/tests/tests |only 17 files changed, 282 insertions(+), 102 deletions(-)
Title: Generate Generative Data for a Data Source
Description: Generative Adversarial Networks are applied to generate generative data for a data source. A generative model consisting of a generator and a discriminator network is trained. In iterated training steps the distribution of generated data is converging to that of the data source. Direct applications of generative data are the created functions for data classifying and missing data completion. Reference: Goodfellow et al. (2014) <arXiv:1406.2661v1>.
Author: Werner Mueller
Maintainer: Werner Mueller <werner.mueller5@chello.at>
Diff between ganGenerativeData versions 1.5.1 dated 2023-11-19 and 1.5.3 dated 2023-12-02
DESCRIPTION | 10 +- MD5 | 10 +- man/ganGenerativeData-package.Rd | 19 ++++- src/dataSource.h | 1 src/dsInt.cpp | 22 +++--- src/gdInt.cpp | 142 ++++++++++++++++++++------------------- 6 files changed, 112 insertions(+), 92 deletions(-)
More information about ganGenerativeData at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-11 1.0.0
Title: Permutations of Multisets in Cool-Lex Order
Description: A set of tools to permute multisets without loops or hash tables and to generate integer partitions. The permutation functions are based on C code from Aaron Williams. Cool-lex order is similar to colexicographical order. The algorithm is described in Williams, A. Loopless Generation of Multiset Permutations by Prefix Shifts. SODA 2009, Symposium on Discrete Algorithms, New York, United States. The permutation code is distributed without restrictions. The code for stable and efficient computation of multinomial coefficients comes from Dave Barber. The code can be download from <http://tamivox.org/dave/multinomial/index.html> and is distributed without conditions. The package also generates the integer partitions of a positive, non-zero integer n. The C++ code for this is based on Python code from Jerome Kelleher which can be found here <https://jeromekelleher.net/category/combinatorics.html>. The C++ code and Python code are distributed without conditions.
Author: James Curran, Aaron Williams, Jerome Kelleher, Dave Barber
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between multicool versions 0.1-12 dated 2021-06-29 and 1.0.0 dated 2023-12-02
DESCRIPTION | 11 +++++------ MD5 | 12 ++++++------ R/allPerm.R | 3 ++- R/initMC.r | 9 ++++----- man/initMC.Rd | 8 +++----- src/RcppExports.cpp | 5 +++++ src/multicool.cpp | 2 +- 7 files changed, 26 insertions(+), 24 deletions(-)
Title: Mixture of Markov Chains with Support of Higher Orders and
Multiple Sequences
Description: Fit mixture of Markov chains of higher orders from multiple
sequences. It is also compatible with ordinary 1-component, 1-order or
single-sequence Markov chains. Various utility functions are provided
to derive transition patterns, transition probabilities per component
and component priors. In addition, print(), predict() and component
extracting/replacing methods are also defined as a convention of
mixture models.
Author: Xiurui Zhu [aut, cre]
Maintainer: Xiurui Zhu <zxr6@163.com>
Diff between markovmix versions 0.1.2 dated 2023-05-27 and 0.1.3 dated 2023-12-02
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/RcppExports.R | 2 +- README.md | 4 ++-- src/RcppExports.cpp | 4 ++-- 6 files changed, 20 insertions(+), 13 deletions(-)
Title: Actuarial Functions for Non-Life Insurance Modelling
Description: Assists actuaries and other insurance modellers in pricing,
reserving and capital modelling for non-life insurance and
reinsurance modelling. Provides functions that help model
excess levels, capping and pure Incurred but not reported
claims (pure IBNR).
Includes capped mean, exposure curves and increased limit
factor curves (ILFs) for LogNormal, Gamma, Pareto, Sliced
LogNormal-Pareto and Sliced Gamma-Pareto distributions.
Includes mean, probability density function (pdf), cumulative
probability function (cdf) and inverse cumulative probability
function for Sliced LogNormal-Pareto and Sliced Gamma-Pareto
distributions.
Includes calculating pure IBNR exposure with LogNormal and
Gamma distribution for reporting delay.
Includes three shiny tools, one to simulate insurance claims applying
reinsurance structures, fit generalised linear models and fit claims
frequency or severity distributions.
Methods used in the package refer to
Free for All by Yiannis Parizas (2023) <https://www.theact [...truncated...]
Author: Yiannis Parizas [aut, cre]
Maintainer: Yiannis Parizas <yiannis.parizas@gmail.com>
Diff between NetSimR versions 0.1.4 dated 2023-10-24 and 0.1.5 dated 2023-12-02
DESCRIPTION | 8 ++-- MD5 | 22 +++++------ NEWS | 7 +++ R/GLMFittingToolGlobal.R | 2 - R/GLMFittingToolServer.R | 17 ++++---- R/GLMFittingToolUI.R | 1 R/distribution_fitting_tool_Server.R | 67 +++++++++++++++++++++++++++++++++++ R/distribution_fitting_tool_UI.R | 23 ++++++++++++ R/distribution_fitting_tool_global.R | 2 - inst/doc/CappedMean.html | 2 - inst/doc/PureIBNR.html | 2 - inst/doc/SlicedDistributions.html | 2 - 12 files changed, 127 insertions(+), 28 deletions(-)
Title: Definition of Geographic Dimensions
Description: The geographic dimension plays a fundamental role in
multidimensional systems. To define a geographic dimension in a star
schema, we need a table with attributes corresponding to the levels of
the dimension. Additionally, we will also need one or more geographic
layers to represent the data using this dimension. The goal of this
package is to support the definition of geographic dimensions from
layers of geographic information related to each other. It makes it
easy to define relationships between layers and obtain the necessary
data from them.
Author: Jose Samos [aut, cre, cph]
Maintainer: Jose Samos <jsamos@ugr.es>
Diff between geodimension versions 1.0.1 dated 2023-10-05 and 1.0.2 dated 2023-12-02
geodimension-1.0.1/geodimension/tests/testthat/test-coordinates_to_geometry.R |only geodimension-1.0.1/geodimension/tests/testthat/test-get_level_layer.R |only geodimension-1.0.2/geodimension/DESCRIPTION | 6 - geodimension-1.0.2/geodimension/LICENSE | 2 geodimension-1.0.2/geodimension/MD5 | 56 ++++------ geodimension-1.0.2/geodimension/NEWS.md | 25 ++-- geodimension-1.0.2/geodimension/README.md | 5 geodimension-1.0.2/geodimension/inst/doc/geodimension.R | 2 geodimension-1.0.2/geodimension/inst/doc/geodimension.Rmd | 2 geodimension-1.0.2/geodimension/inst/doc/geodimension.html | 4 geodimension-1.0.2/geodimension/man/figures/README-unnamed-chunk-6-1.png |binary geodimension-1.0.2/geodimension/man/layer_us_city.Rd | 38 +++--- geodimension-1.0.2/geodimension/man/layer_us_county.Rd | 38 +++--- geodimension-1.0.2/geodimension/man/layer_us_division.Rd | 38 +++--- geodimension-1.0.2/geodimension/man/layer_us_nation.Rd | 38 +++--- geodimension-1.0.2/geodimension/man/layer_us_region.Rd | 38 +++--- geodimension-1.0.2/geodimension/man/layer_us_state.Rd | 38 +++--- geodimension-1.0.2/geodimension/tests/testthat/test-add_level.R | 4 geodimension-1.0.2/geodimension/tests/testthat/test-complete_point_geometry.R | 4 geodimension-1.0.2/geodimension/tests/testthat/test-complete_relation_by_geography.R | 6 - geodimension-1.0.2/geodimension/tests/testthat/test-geolevel.R | 2 geodimension-1.0.2/geodimension/tests/testthat/test-get_empty_geometry_instances.R | 6 - geodimension-1.0.2/geodimension/tests/testthat/test-get_higher_level_names.R | 6 - geodimension-1.0.2/geodimension/tests/testthat/test-get_level_data.R | 4 geodimension-1.0.2/geodimension/tests/testthat/test-get_level_geometries.R | 4 geodimension-1.0.2/geodimension/tests/testthat/test-get_level_names.R | 4 geodimension-1.0.2/geodimension/tests/testthat/test-get_unrelated_instances.R | 8 - geodimension-1.0.2/geodimension/tests/testthat/test-relate_levels.R | 6 - geodimension-1.0.2/geodimension/tests/testthat/test-select_levels.R | 4 geodimension-1.0.2/geodimension/vignettes/geodimension.Rmd | 2 30 files changed, 187 insertions(+), 203 deletions(-)
Title: R Bindings to the 'Fstlib' Library
Description: The 'fstlib' library provides multithreaded serialization of compressed data frames using the
'fst' format. The 'fst' format allows for random access of stored data and compression with the 'LZ4' and 'ZSTD'
compressors.
Author: Mark Klik [aut, cre, cph] ,
Yuta Mori [ctb, cph] ,
Przemyslaw Skibinski [ctb, cph] ,
Tino Reichardt [ctb, cph] ,
Yann Collet [ctb, cph] ,
Facebook, Inc. [cph]
Maintainer: Mark Klik <markklik@gmail.com>
Diff between fstcore versions 0.9.16 dated 2023-11-29 and 0.9.18 dated 2023-12-02
fstcore-0.9.16/fstcore/src/fstlib/ZSTD/decompress/huf_decompress_amd64.S |only fstcore-0.9.18/fstcore/DESCRIPTION | 8 +++---- fstcore-0.9.18/fstcore/MD5 | 11 ++++------ fstcore-0.9.18/fstcore/NEWS.md | 6 ++++- fstcore-0.9.18/fstcore/src/Makevars.in | 2 - fstcore-0.9.18/fstcore/src/Makevars.win | 4 +-- fstcore-0.9.18/fstcore/src/fstlib/ZSTD/decompress/huf_decompress.c | 2 + 7 files changed, 19 insertions(+), 14 deletions(-)
Title: A Pharmacometrics Data Transformation and Analysis Tool
Description: Exploration of pharmacometrics data involves both general tools (transformation and plotting) and specific techniques (non-compartmental analysis). This kind of exploration is generally accomplished by utilizing different packages. The purpose of 'ruminate' is to create a 'shiny' interface to make these tools more broadly available while creating reproducible results.
Author: John Harrold [aut, cre]
Maintainer: John Harrold <john.m.harrold@gmail.com>
Diff between ruminate versions 0.1.1 dated 2023-08-29 and 0.2.0 dated 2023-12-02
DESCRIPTION | 18 MD5 | 72 NAMESPACE | 19 NEWS.md | 8 R/MB_Server.R |only R/NCA_Server.R | 279 +-- R/ruminate.R |only README.md | 35 build/vignette.rds |binary inst/doc/deployment.R |only inst/doc/deployment.Rmd |only inst/doc/deployment.html |only inst/doc/model_builder.R |only inst/doc/model_builder.Rmd |only inst/doc/model_builder.html |only inst/doc/noncompartmental_analysis.R | 13 inst/doc/noncompartmental_analysis.Rmd | 21 inst/doc/noncompartmental_analysis.html | 2665 +++++++++++++++++++++++++++++++- inst/docker/install_packages.R |only inst/docker/local_container | 33 inst/templates/MB.yaml |only inst/templates/MB_model_NONMEM.ctl |only inst/templates/MB_model_rxode2.R |only inst/templates/MB_module_components.R |only inst/templates/NCA.yaml | 12 inst/templates/NCA_module_components.R | 6 inst/templates/ruminate.R | 128 + inst/test_apps/MB_funcs.R |only inst/test_apps/nca_app.R | 128 + inst/test_data |only man/MB_Server.Rd |only man/MB_append_report.Rd |only man/MB_build_code.Rd |only man/MB_del_current_element.Rd |only man/MB_fetch_catalog.Rd |only man/MB_fetch_code.Rd |only man/MB_fetch_component.Rd |only man/MB_fetch_current_element.Rd |only man/MB_fetch_mdl.Rd |only man/MB_fetch_state.Rd |only man/MB_init_state.Rd |only man/MB_new_element.Rd |only man/MB_set_current_element.Rd |only man/MB_test_catalog.Rd |only man/MB_test_mksession.Rd |only man/MB_update_checksum.Rd |only man/MB_update_model.Rd |only man/NCA_Server.Rd | 128 + man/NCA_mkactive_ana.Rd |only man/mk_rx_obj.Rd |only man/ruminate.Rd | 17 tests/testthat/test-MB.R |only vignettes/deployment.Rmd |only vignettes/model_builder.Rmd |only vignettes/noncompartmental_analysis.Rmd | 21 55 files changed, 3303 insertions(+), 300 deletions(-)
Title: Matrices in Data Frames
Description: Provides functions to collapse a tidy data frame into matrices in a data frame
and expand a data frame of matrices into a tidy data frame.
Author: Matthew Heun [aut, cre]
Maintainer: Matthew Heun <matthew.heun@me.com>
Diff between matsindf versions 0.4.4 dated 2023-08-18 and 0.4.5 dated 2023-12-02
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 20 ++++++++++---------- NEWS.md | 10 +++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 4 ++-- inst/doc/iris_pca.R | 2 +- inst/doc/iris_pca.html | 4 ++-- inst/doc/matsindf.html | 4 ++-- inst/doc/midf_apply_primer.html | 4 ++-- 11 files changed, 33 insertions(+), 25 deletions(-)
Title: Root Mean Square Curvature Calculation
Description: Calculates the RMS intrinsic and parameter-effects curvatures of a nonlinear regression model. The curvatures are global measures of assessing whether a model/data set combination is close-to-linear or not. See Bates and Watts (1980) <doi:10.1002/9780470316757> and Ratkowsky and Reddy (2017) <doi:10.1093/aesa/saw098> for details.
Author: Peijian Shi [aut, cre],
Peter M. Ridland [aut],
David A. Ratkowsky [aut],
Yang Li [aut]
Maintainer: Peijian Shi <pjshi@njfu.edu.cn>
Diff between IPEC versions 1.0.5 dated 2023-10-30 and 1.0.6 dated 2023-12-02
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 2 +- R/biasIPEC.R | 2 +- R/curvIPEC.R | 2 +- R/skewIPEC.R | 4 ++-- build/partial.rdb |binary man/skewIPEC.Rd | 4 ++-- 8 files changed, 18 insertions(+), 18 deletions(-)
Title: Classification with Parallel Factor Analysis
Description: Classification using Richard A. Harshman's Parallel Factor Analysis-1 (Parafac) model or Parallel Factor Analysis-2 (Parafac2) model fit to a three-way or four-way data tensor/array. See Harshman and Lundy (1994): <doi:10.1016/0167-9473(94)90132-5>. Uses component weights from one mode of the Parafac or Parafac2 model as features to tune parameters for one or more classification methods via a k-fold cross-validation procedure. Allows for constraints on different tensor modes. Supports penalized logistic regression, support vector machine, random forest, feed-forward neural network, and regularized discriminant analysis. Supports binary and multiclass classification. Predicts class labels or class probabilities and calculates multiple classification performance measures. Implements parallel computing via the 'parallel' and 'doParallel' packages.
Author: Matthew A. Snodgress <snodg031@umn.edu>
Maintainer: Matthew A. Snodgress <snodg031@umn.edu>
Diff between cpfa versions 1.0-9 dated 2023-11-18 and 1.1-0 dated 2023-12-02
DESCRIPTION | 8 +-- MD5 | 24 ++++----- R/cpfa.R | 50 ++++++++++++------- R/cpm.R | 27 ++++++---- R/cpm.all.R | 15 +++-- R/kcv.nn.R | 3 - R/kcv.plr.R | 7 ++ R/kcv.rda.R | 3 - R/kcv.rf.R | 3 - R/kcv.svm.R | 3 - R/predict.cpfa.R | 67 +++++++++++++++++-------- R/tune.cpfa.R | 139 ++++++++++++++++++++++++++++++++--------------------- inst/ChangeLog.txt | 12 ++++ 13 files changed, 233 insertions(+), 128 deletions(-)