Title: R Interface to 'Apache Tika'
Description: Extract text or metadata from over a thousand file types, using Apache Tika <https://tika.apache.org/>. Get either plain text or structured XHTML content.
Author: Sasha Goodman [aut, cre],
The Apache Software Foundation [aut, cph],
Julia Silge [rev] ,
David Gohel [rev]
Maintainer: Sasha Goodman <goodmansasha@gmail.com>
Diff between rtika versions 2.4.1 dated 2022-09-26 and 2.7.0 dated 2023-05-04
DESCRIPTION | 8 +++---- MD5 | 18 +++++++-------- NEWS.md | 8 ++++++- R/install_tika.R | 8 +++---- R/tika.R | 2 - R/zzz.R | 2 - README.md | 2 - build/vignette.rds |binary inst/doc/rtika_introduction.html | 44 +++++++++++++++++++-------------------- man/install_tika.Rd | 8 +++---- 10 files changed, 53 insertions(+), 47 deletions(-)
Title: Multiple-Scaled Clustering
Description: Model based clustering using
the multivariate multiple Scaled t (MST) and multivariate multiple
scaled contaminated normal (MSCN) distributions. The MST is an
extension of the multivariate Student-t distribution to include
flexible tail behaviors, Forbes, F. & Wraith, D. (2014) <doi:10.1007/s11222-013-9414-4>. The MSCN represents a heavy-tailed
generalization of the multivariate normal (MN) distribution to
model elliptical contoured scatters in the presence of mild outliers
(also referred to as "bad" points) and automatically detect bad points, Punzo, A. & Tortora, C. (2021) <doi:10.1177/1471082X19890935>.
Author: Cristina Tortora [aut, cre, cph]
,
Antonio Punzo [aut] ,
Louis Tran [aut]
Maintainer: Cristina Tortora <grikris1@gmail.com>
Diff between MSclust versions 1.0.2 dated 2022-08-31 and 1.0.3 dated 2023-05-04
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/MSmixt.R | 18 +++++++++++++----- 3 files changed, 19 insertions(+), 11 deletions(-)
Title: Fairness Auditing and Debiasing for 'mlr3'
Description: Integrates fairness auditing and bias mitigation methods for the 'mlr3' ecosystem.
This includes fairness metrics, reporting tools, visualizations and bias mitigation techniques such as
"Reweighing" described in 'Kamiran, Calders' (2012) <doi:10.1007/s10115-011-0463-8> and
"Equalized Odds" described in 'Hardt et al.' (2016) <https://papers.nips.cc/paper/2016/file/9d2682367c3935defcb1f9e247a97c0d-Paper.pdf>.
Integration with 'mlr3' allows for auditing of ML models as well as convenient joint tuning of
machine learning algorithms and debiasing methods.
Author: Florian Pfisterer [cre, aut] ,
Wei Siyi [aut],
Michel Lang [aut]
Maintainer: Florian Pfisterer <pfistererf@googlemail.com>
Diff between mlr3fairness versions 0.3.1 dated 2022-08-16 and 0.3.2 dated 2023-05-04
DESCRIPTION | 20 MD5 | 179 +- NAMESPACE | 3 NEWS.md | 8 R/MeasureFairness.R | 3 R/MeasureFairnessComposite.R | 5 R/MeasureFairnessConstraint.R | 5 R/MeasurePositiveProbability.R | 1 R/MeasureSubgroup.R | 2 R/PipeOpEOd.R | 7 R/PipeOpExplicitPta.R | 3 R/PipeOpReweighing.R | 3 R/aaa.R |only R/adult.R | 18 R/assertions.R | 10 R/bibentries.R | 15 R/compare_metrics.R | 7 R/compas.R | 30 R/compute_metrics.R |only R/fairness_accuracy_tradeoff.R | 13 R/fairness_prediction_density.R | 5 R/fairness_tensor.R | 30 R/helpers.R | 9 R/measure_operations.R | 1 R/mlr_learners_fairness.R | 4 R/mlr_measures_fairness.R | 5 R/reports.R | 1 R/zzz.R | 117 + README.md | 181 +- build/partial.rdb |binary build/vignette.rds |binary data/adult_test.rda |binary data/adult_train.rda |binary inst/doc/debiasing-vignette.R | 2 inst/doc/debiasing-vignette.Rmd | 11 inst/doc/debiasing-vignette.html | 265 ++- inst/doc/measures-vignette.R | 27 inst/doc/measures-vignette.Rmd | 87 + inst/doc/measures-vignette.html | 700 ++++++---- inst/doc/reports-vignette.R | 3 inst/doc/reports-vignette.Rmd | 4 inst/doc/reports-vignette.html | 183 +- inst/doc/visualization-vignette.R | 36 inst/doc/visualization-vignette.Rmd | 50 inst/doc/visualization-vignette.html | 370 +++-- inst/references.bib |only inst/rmarkdown/templates/datasheets/skeleton/skeleton.Rmd | 4 inst/rmarkdown/templates/datasheets/skeleton/style.css | 12 inst/rmarkdown/templates/fairness_report/skeleton/skeleton.Rmd | 46 man/MeasureFairness.Rd | 10 man/MeasureFairnessComposite.Rd | 12 man/MeasureFairnessConstraint.Rd | 13 man/MeasureSubgroup.Rd | 1 man/adult.Rd | 24 man/compas.Rd | 35 man/compute_metrics.Rd |only man/fairness_accuracy_tradeoff.Rd | 14 man/fairness_compare_metrics.Rd | 14 man/fairness_prediction_density.Rd | 12 man/fairness_tensor.Rd | 26 man/figures/unnamed-chunk-6-1.png |binary man/groupdiff_tau.Rd | 9 man/groupwise_metrics.Rd | 1 man/mlr_learners_classif.fairfgrrm.Rd | 1 man/mlr_learners_classif.fairzlrm.Rd | 1 man/mlr_learners_fairness.Rd | 10 man/mlr_learners_regr.fairfrrm.Rd | 1 man/mlr_learners_regr.fairnclm.Rd | 1 man/mlr_learners_regr.fairzlm.Rd | 1 man/mlr_measures_fairness.Rd | 35 man/mlr_measures_positive_probability.Rd | 1 man/mlr_pipeops_equalized_odds.Rd | 3 man/mlr_pipeops_explicit_pta.Rd | 3 man/mlr_pipeops_reweighing.Rd | 3 man/report_fairness.Rd | 1 man/task_summary.Rd | 3 tests/testthat/helper_data.R | 2 tests/testthat/helper_learner_tests.R | 2 tests/testthat/test_fairness_tensor.R |only tests/testthat/test_learners_fairml.R | 2 tests/testthat/test_learners_fairml_ptas.R | 2 tests/testthat/test_measure_subgroup.R | 9 tests/testthat/test_measures.R | 9 tests/testthat/test_pipeop_eod.R | 8 tests/testthat/test_pipeop_explicit_pta.R | 2 tests/testthat/test_pipeop_reweighing.R | 6 tests/testthat/test_report_modelcard_datasheet.R | 5 tests/testthat/test_visualizations.R | 3 tests/testthat/test_write_files.R | 2 vignettes/debiasing-vignette.Rmd | 11 vignettes/measures-vignette.Rmd | 87 + vignettes/reports-vignette.Rmd | 4 vignettes/visualization-vignette.Rmd | 50 93 files changed, 1942 insertions(+), 982 deletions(-)
Title: Categorical Analysis of Neo- And Paleo-Endemism
Description: Provides functions to analyze the spatial distribution of
biodiversity, in particular categorical analysis of neo- and paleo-endemism
(CANAPE) as described in Mishler et al (2014) <doi:10.1038/ncomms5473>.
'canaper' conducts statistical tests to determine the types of endemism that
occur in a study area while accounting for the evolutionary relationships of
species.
Author: Joel H. Nitta [aut, cre] ,
Shawn W. Laffan [ctb, dtc],
Brent D. Mishler [ctb, dtc],
Wataru Iwasaki [ctb] ,
Klaus Schliep [rev]
Maintainer: Joel H. Nitta <joelnitta@gmail.com>
Diff between canaper versions 1.0.0 dated 2022-10-04 and 1.0.1 dated 2023-05-04
DESCRIPTION | 14 MD5 | 44 - NEWS.md | 17 R/cpr_rand_test.R | 685 +++++++++++++++---------------- R/utils.R | 48 +- README.md | 41 + build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 6 inst/WORDLIST | 43 + inst/doc/canape.Rmd | 79 +-- inst/doc/canape.html | 102 ++-- inst/doc/how-many-rand.Rmd | 14 inst/doc/how-many-rand.html | 27 - inst/doc/parallel.Rmd | 26 - inst/doc/parallel.html | 59 +- tests/testthat/test-cpr_classify_endem.R | 6 tests/testthat/test-cpr_rand_comm.R | 6 tests/testthat/test-cpr_rand_test.R | 102 +++- tests/testthat/test-utils.R | 22 vignettes/canape.Rmd | 79 +-- vignettes/how-many-rand.Rmd | 14 vignettes/parallel.Rmd | 26 - 23 files changed, 795 insertions(+), 665 deletions(-)
Title: Write Formatted Tables in Excel Workbooks
Description: For writing tables with custom formats in a Excel file ready to be distributed.
Author: Jesus Maria Rodriguez Rodriguez
Maintainer: Jesus Maria Rodriguez Rodriguez <jesusmro@gmail.com>
Diff between tablaxlsx versions 1.2.4 dated 2020-10-19 and 1.2.5 dated 2023-05-04
tablaxlsx-1.2.4/tablaxlsx/R/trim.R |only tablaxlsx-1.2.4/tablaxlsx/man/trim.Rd |only tablaxlsx-1.2.5/tablaxlsx/DESCRIPTION | 10 +++++----- tablaxlsx-1.2.5/tablaxlsx/MD5 | 6 ++---- tablaxlsx-1.2.5/tablaxlsx/NAMESPACE | 2 +- 5 files changed, 8 insertions(+), 10 deletions(-)
Title: Missing Data Imputation Using Gaussian Copulas
Description: Provides functions to impute missing values using Gaussian
copulas for mixed data types as described by Christoffersen et al.
(2021) <arXiv:2102.02642>. The method is related to Hoff (2007)
<doi:10.1214/07-AOAS107> and Zhao and Udell (2019) <arXiv:1910.12845>
but differs by making a direct approximation of the log marginal likelihood
using an extended version of the Fortran code created by Genz and Bretz
(2002) <doi:10.1198/106186002394> in addition to also support multinomial
variables.
Author: Benjamin Christoffersen [cre, aut]
,
Alan Genz [cph],
Frank Bretz [cph],
Torsten Hothorn [cph],
R-core [cph],
Ross Ihaka [cph]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Diff between mdgc versions 0.1.6 dated 2022-09-10 and 0.1.7 dated 2023-05-04
DESCRIPTION | 7 +++---- MD5 | 8 ++++---- NEWS | 6 ++++++ src/Makevars | 1 - src/threat-safe-random.h | 4 ++-- 5 files changed, 15 insertions(+), 11 deletions(-)
Title: Machine Learning Model Evaluation for 'h2o' Package
Description: Several functions are provided that simplify using 'h2o'
package. Currently, a function for extracting the AutoML
model parameter is provided, alongside a function for computing
F-Measure statistics at any given threshold. For more information
about 'h2o' package see <https://h2o.ai/>.
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@uio.no>
Diff between h2otools versions 0.1 dated 2022-10-02 and 0.3 dated 2023-05-04
DESCRIPTION | 10 LICENSE | 4 MD5 | 29 + NAMESPACE | 31 + R/Fmeasure.R | 106 +++--- R/automlModelParam.R | 820 +++++++++++++++++++++++------------------------ R/bootPerformance.R |only R/checkFrame.R | 100 ++--- R/getPerfMatrix.R |only R/kappa.R |only R/performance.R | 119 +++--- R/summarizePerformance.R |only README.md | 54 ++- man/Fmeasure.Rd | 102 ++--- man/automlModelParam.Rd | 80 ++-- man/bootPerformance.Rd |only man/getPerfMatrix.Rd |only man/kappa.Rd |only man/performance.Rd | 82 ++-- 19 files changed, 785 insertions(+), 752 deletions(-)
More information about pseudohouseholds at CRAN
Permanent link
Title: Network Analysis and Causal Inference Through Structural
Equation Modeling
Description: Estimate networks and causal relationships in complex systems through
Structural Equation Modeling. This package also includes functions to import,
weight, manipulate, and fit biological network models within the
Structural Equation Modeling framework described in
Grassi M, Palluzzi F, Tarantino B (2022) <doi:10.1093/bioinformatics/btac567>.
Author: Mario Grassi [aut],
Fernando Palluzzi [aut],
Barbara Tarantino [aut, cre]
Maintainer: Barbara Tarantino <barbara.tarantino01@universitadipavia.it>
Diff between SEMgraph versions 1.1.3 dated 2022-10-12 and 1.2.0 dated 2023-05-04
DESCRIPTION | 23 MD5 | 60 +- NAMESPACE | 1 NEWS.md | 75 ++ R/semCluster.R | 79 +- R/semFit.R | 773 +++++++++++++++++++---------- R/semLearn.R | 1299 ++++++++++++++++++++++++++++++++----------------- R/semPaths.R | 13 R/semUtils.R | 150 ++--- R/semWeights.R | 4 README.md | 2 build/partial.rdb |binary man/SEMbap.Rd | 188 +++++-- man/SEMdag.Rd | 122 +++- man/SEMdci.Rd | 31 - man/SEMrun.Rd | 39 - man/SEMtree.Rd | 25 man/Shipley.test.Rd | 36 - man/clusterScore.Rd | 5 man/colorGraph.Rd | 4 man/dagitty2graph.Rd | 4 man/extractClusters.Rd | 11 man/factor.analysis.Rd | 13 man/graph2dagitty.Rd | 4 man/lavaan2graph.Rd | 12 man/localCI.test.Rd | 17 man/mergeNodes.Rd | 25 man/modelSearch.Rd | 9 man/pathFinder.Rd | 11 man/resizeGraph.Rd | 28 - man/weightGraph.Rd | 2 31 files changed, 1978 insertions(+), 1087 deletions(-)
Title: High Precision Timing of R Expressions
Description: Tools to accurately benchmark and analyze execution times for
R expressions.
Author: Jim Hester [aut],
Davis Vaughan [aut, cre],
Drew Schmidt [ctb] ,
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between bench versions 1.1.2 dated 2021-11-30 and 1.1.3 dated 2023-05-04
bench-1.1.2/bench/man/figures/README-pressure-1.png |only bench-1.1.3/bench/DESCRIPTION | 29 +-- bench-1.1.3/bench/LICENSE | 2 bench-1.1.3/bench/MD5 | 74 ++++----- bench-1.1.3/bench/NAMESPACE | 8 bench-1.1.3/bench/NEWS.md | 18 ++ bench-1.1.3/bench/R/autoplot.R | 2 bench-1.1.3/bench/R/bench-package.R | 7 bench-1.1.3/bench/R/bench_process_memory.R | 6 bench-1.1.3/bench/R/bytes.R | 3 bench-1.1.3/bench/R/expression.R | 7 bench-1.1.3/bench/R/import-standalone-s3-register.R |only bench-1.1.3/bench/R/mark.R | 36 ++-- bench-1.1.3/bench/R/press.R | 30 ++- bench-1.1.3/bench/R/time.R | 2 bench-1.1.3/bench/R/utils.R | 32 --- bench-1.1.3/bench/R/zzz.R | 55 +----- bench-1.1.3/bench/README.md | 137 ++++++++++------- bench-1.1.3/bench/man/autoplot.bench_mark.Rd | 2 bench-1.1.3/bench/man/bench-package.Rd | 3 bench-1.1.3/bench/man/bench_process_memory.Rd | 6 bench-1.1.3/bench/man/figures/README-autoplot-1.png |binary bench-1.1.3/bench/man/figures/README-custom-plot-1.png |binary bench-1.1.3/bench/man/knit_print.bench_mark.Rd | 20 +- bench-1.1.3/bench/man/mark.Rd | 4 bench-1.1.3/bench/src/load.c | 2 bench-1.1.3/bench/src/mark.c | 19 +- bench-1.1.3/bench/src/nanotime.c | 28 +-- bench-1.1.3/bench/src/nanotime.h | 4 bench-1.1.3/bench/src/os.h | 6 bench-1.1.3/bench/src/process_memory.c | 2 bench-1.1.3/bench/tests/testthat.R | 8 bench-1.1.3/bench/tests/testthat/_snaps |only bench-1.1.3/bench/tests/testthat/test-bench_time.R | 4 bench-1.1.3/bench/tests/testthat/test-bytes.R | 2 bench-1.1.3/bench/tests/testthat/test-hires_time.R | 2 bench-1.1.3/bench/tests/testthat/test-mark.R | 54 ++++-- bench-1.1.3/bench/tests/testthat/test-press.R | 46 +++-- bench-1.1.3/bench/tests/testthat/test-time.R | 2 39 files changed, 368 insertions(+), 294 deletions(-)
Title: Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'
Description: Enables users-customized data retrieval, processing, analysis, and data visualization of molecular quantitative trait locus and gene expression data from public resources through the application programming interface <https://gtexportal.org/home/api-docs/index.html> of 'GTEx' and <http://www.ebi.ac.uk/eqtl/api> of 'eQTL cagalogue'.
Author: Ruofan Ding [aut, cre],
Xudong Zou [aut, ctb],
Yangmei Qin [aut, ctb],
Gao Wang [aut, ctb],
Lei Li [aut, ctb, cph]
Maintainer: Ruofan Ding <dingruofan1@foxmail.com>
Diff between xQTLbiolinks versions 1.2.2 dated 2022-08-27 and 1.4.2 dated 2023-05-04
xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/Colocalization_analysis_with_xQTLbiolinks.R |only xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/Colocalization_analysis_with_xQTLbiolinks.Rmd |only xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/Colocalization_analysis_with_xQTLbiolinks.html |only xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/eQTL_Specificity.R |only xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/eQTL_Specificity.Rmd |only xQTLbiolinks-1.2.2/xQTLbiolinks/inst/doc/eQTL_Specificity.html |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLanalyze_TSExp.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLanalyze_propensity.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLdownload_eqtl.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLdownload_eqtlSig.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLdownload_sqtlSig.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/man/xQTLvisual_qtlPropensity.Rd |only xQTLbiolinks-1.2.2/xQTLbiolinks/vignettes/Colocalization_analysis_with_xQTLbiolinks.Rmd |only xQTLbiolinks-1.2.2/xQTLbiolinks/vignettes/eQTL_Specificity.Rmd |only xQTLbiolinks-1.2.2/xQTLbiolinks/vignettes/references.bib |only xQTLbiolinks-1.4.2/xQTLbiolinks/DESCRIPTION | 22 xQTLbiolinks-1.4.2/xQTLbiolinks/MD5 | 131 - xQTLbiolinks-1.4.2/xQTLbiolinks/NAMESPACE | 36 xQTLbiolinks-1.4.2/xQTLbiolinks/NEWS.md | 19 xQTLbiolinks-1.4.2/xQTLbiolinks/R/analyze.R | 416 --- xQTLbiolinks-1.4.2/xQTLbiolinks/R/anno.R |only xQTLbiolinks-1.4.2/xQTLbiolinks/R/download.R | 1150 +++------- xQTLbiolinks-1.4.2/xQTLbiolinks/R/internal_dealWithGencode.R | 15 xQTLbiolinks-1.4.2/xQTLbiolinks/R/query.R | 628 +++++ xQTLbiolinks-1.4.2/xQTLbiolinks/R/visualize.R | 834 ++++++- xQTLbiolinks-1.4.2/xQTLbiolinks/R/zzz.R | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/README.md | 41 xQTLbiolinks-1.4.2/xQTLbiolinks/build/vignette.rds |binary xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/Quick_start.R | 56 xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/Quick_start.Rmd | 89 xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/Quick_start.html | 553 +++- xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/query_download.R |only xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/query_download.Rmd |only xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/query_download.html |only xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/visualization.R | 6 xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/visualization.Rmd | 10 xQTLbiolinks-1.4.2/xQTLbiolinks/inst/doc/visualization.html | 347 ++- xQTLbiolinks-1.4.2/xQTLbiolinks/man/EBIquery_allTerm.Rd | 4 xQTLbiolinks-1.4.2/xQTLbiolinks/man/apiAdmin_ping.Rd | 1 xQTLbiolinks-1.4.2/xQTLbiolinks/man/apiEbi_ping.Rd | 1 xQTLbiolinks-1.4.2/xQTLbiolinks/man/dbsnpQueryRange.Rd | 1 xQTLbiolinks-1.4.2/xQTLbiolinks/man/extractGeneInfo.Rd | 4 xQTLbiolinks-1.4.2/xQTLbiolinks/man/fetchContent.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/fetchContentEbi.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/is.wholenumber.Rd | 1 xQTLbiolinks-1.4.2/xQTLbiolinks/man/retrieveLD_LDproxy.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanalyze_coloc.Rd | 2 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanalyze_coloc_diy.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanalyze_getTraits.Rd | 16 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanno_calLambda.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanno_enrich.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLanno_genomic.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_egene.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_eqtlAllAsso.Rd | 15 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_eqtlExp.Rd | 5 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_exp.Rd | 15 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_geneMedExp.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_sgene.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_sqtlAllAsso.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_sqtlExp.Rd | 5 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLdownload_xqtlAllAsso.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_eqtl.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_eqtlSig.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_gene.Rd | 9 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_sampleByTissue.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_sqtlSig.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_tissue.Rd | 8 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_varId.Rd | 6 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLquery_varPos.Rd | 13 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_PZPlot.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_anno.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_coloc.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_enrich.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_eqtl.Rd | 4 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_eqtlExp.Rd | 5 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_geneExpTissues.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_genesExp.Rd | 9 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_locusZoom.Rd | 3 xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_manhattan.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_qqPlot.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_sqtl.Rd |only xQTLbiolinks-1.4.2/xQTLbiolinks/man/xQTLvisual_sqtlExp.Rd | 5 xQTLbiolinks-1.4.2/xQTLbiolinks/vignettes/Quick_start.Rmd | 89 xQTLbiolinks-1.4.2/xQTLbiolinks/vignettes/query_download.Rmd |only xQTLbiolinks-1.4.2/xQTLbiolinks/vignettes/visualization.Rmd | 10 85 files changed, 2790 insertions(+), 1818 deletions(-)
Title: TAP-Compliant Unit Testing
Description: Concise TAP <http://testanything.org/> compliant unit testing package. Authored tests can be run using CMD check with minimal implementation overhead.
Author: Jamie Lentin [aut, cre],
Anthony Hennessey [aut]
Maintainer: Jamie Lentin <jm@ravingmantis.com>
Diff between unittest versions 1.5-3 dated 2022-09-25 and 1.6-0 dated 2023-05-04
ChangeLog | 7 ++ DESCRIPTION | 10 +-- MD5 | 33 ++++++------ NEWS.md | 6 ++ R/non_interactive_summary.R | 6 ++ R/ok.R | 16 +++++- README.md | 55 +++++++++++---------- build/vignette.rds |binary inst/doc/faq.html | 31 +++++++---- inst/doc/getting_started.html | 34 +++++++------ inst/doc/testing_packages.html | 41 +++++++++------ man/figures |only man/ok.Rd | 62 ++++++++--------------- man/ok_group.Rd | 46 ++++++----------- man/unittest-package.Rd | 54 ++++++++++++++------ man/ut_cmp.Rd | 106 +++++++++++++---------------------------- man/ut_cmp_error.Rd | 15 ++--- tests/test_ok.R | 20 +++++++ 18 files changed, 287 insertions(+), 255 deletions(-)
Title: Prediction Explanation with Dependence-Aware Shapley Values
Description: Complex machine learning models are often hard to interpret. However, in
many situations it is crucial to understand and explain why a model made a specific
prediction. Shapley values is the only method for such prediction explanation framework
with a solid theoretical foundation. Previously known methods for estimating the Shapley
values do, however, assume feature independence. This package implements the method
described in Aas, Jullum and Løland (2019) <arXiv:1903.10464>, which accounts for any feature
dependence, and thereby produces more accurate estimates of the true Shapley values.
Author: Nikolai Sellereite [aut] ,
Martin Jullum [cre, aut] ,
Annabelle Redelmeier [aut],
Anders Loeland [ctb],
Jens Christian Wahl [ctb],
Camilla Lingjaerde [ctb],
Norsk Regnesentral [cph, fnd]
Maintainer: Martin Jullum <Martin.Jullum@nr.no>
Diff between shapr versions 0.2.1 dated 2023-02-27 and 0.2.2 dated 2023-05-04
DESCRIPTION | 6 MD5 | 24 NAMESPACE | 1 NEWS.md | 142 +- R/RcppExports.R | 358 ++--- R/models.R | 1 README.md | 544 ++++---- build/vignette.rds |binary inst/doc/understanding_shapr.R | 620 +++++----- inst/doc/understanding_shapr.html | 2356 ++++++++++++++++++-------------------- tests/testthat/test-a-shapley.R | 270 ++-- tests/testthat/test-explanation.R | 1064 ++++++++--------- tests/testthat/test-models.R | 10 13 files changed, 2700 insertions(+), 2696 deletions(-)
Title: Analyzing Pointer Years and Components of Resilience
Description: Functions to calculate and plot event and pointer years as well as resilience indices. Designed for dendroecological applications, but also suitable to analyze patterns in other ecological time series.
Author: Marieke van der Maaten-Theunissen [aut, cph, cre, trl], Ernst van der Maaten [aut, trl], Gottfried Jetsckhe [aut, trl], Mario Trouillier [aut, trl]
Maintainer: Marieke van der Maaten-Theunissen <marieke.theunissen@tu-dresden.de>
Diff between pointRes versions 2.0.1 dated 2022-05-07 and 2.0.2 dated 2023-05-04
DESCRIPTION | 8 +- MD5 | 10 +- R/pointer.rgc.R | 2 inst/CITATION | 13 +++ inst/Changelog | 5 + inst/doc/pointRes_functionality.html | 120 ++++++++++++++++++----------------- 6 files changed, 91 insertions(+), 67 deletions(-)
Title: Public Economic Data and Quantitative Analysis
Description: Provides an interface to access public economic and financial data for
economic research and quantitative analysis. The data sources including
NBS, FRED, Sina, Eastmoney and etc. It also provides quantitative
functions for trading strategies based on the 'data.table', 'TTR',
'PerformanceAnalytics' and etc packages.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>
Diff between pedquant versions 0.2.1 dated 2022-11-12 and 0.2.2 dated 2023-05-04
pedquant-0.2.1/pedquant/R/ed_0interest.R |only pedquant-0.2.1/pedquant/R/md_stock1_163.R |only pedquant-0.2.1/pedquant/R/md_stock1_emtx.R |only pedquant-0.2.1/pedquant/R/md_stock_adj.R |only pedquant-0.2.1/pedquant/R/md_stock_fs.R |only pedquant-0.2.1/pedquant/inst/extdata/md_stock1_yahoo.R |only pedquant-0.2.2/pedquant/DESCRIPTION | 9 pedquant-0.2.2/pedquant/MD5 | 84 +- pedquant-0.2.2/pedquant/NAMESPACE | 12 pedquant-0.2.2/pedquant/NEWS.md | 5 pedquant-0.2.2/pedquant/R/datasets.R | 10 pedquant-0.2.2/pedquant/R/ed_0cate.R | 60 + pedquant-0.2.2/pedquant/R/ed_nbs.R | 11 pedquant-0.2.2/pedquant/R/func_date.R | 12 pedquant-0.2.2/pedquant/R/func_helper.R | 152 ++- pedquant-0.2.2/pedquant/R/md_2chinamoney.R |only pedquant-0.2.2/pedquant/R/md_2money.R | 47 - pedquant-0.2.2/pedquant/R/md_stock1_.R | 94 +- pedquant-0.2.2/pedquant/R/md_stock1_hist.R |only pedquant-0.2.2/pedquant/R/md_stock1_info.R |only pedquant-0.2.2/pedquant/R/md_stock1_real.R | 43 - pedquant-0.2.2/pedquant/R/md_stock_financials.R |only pedquant-0.2.2/pedquant/R/md_stock_symbol.R | 384 +++------- pedquant-0.2.2/pedquant/R/md_stocka_real.R |only pedquant-0.2.2/pedquant/R/pq_freq.R | 3 pedquant-0.2.2/pedquant/R/pq_orders.R | 20 pedquant-0.2.2/pedquant/R/pq_performance.R | 3 pedquant-0.2.2/pedquant/R/pq_plot2.R | 17 pedquant-0.2.2/pedquant/R/pq_portfolio.R | 14 pedquant-0.2.2/pedquant/R/pq_return.R | 6 pedquant-0.2.2/pedquant/R/sysdata.rda |binary pedquant-0.2.2/pedquant/README.md | 19 pedquant-0.2.2/pedquant/data/dt_banks.rda |binary pedquant-0.2.2/pedquant/data/dt_ssec.rda |binary pedquant-0.2.2/pedquant/inst/extdata/md_stock1_history_163.R |only pedquant-0.2.2/pedquant/inst/extdata/md_stock1_history_yahoo.R |only pedquant-0.2.2/pedquant/inst/extdata/md_stock_adj.R |only pedquant-0.2.2/pedquant/inst/extdata/md_stock_fs.R |only pedquant-0.2.2/pedquant/inst/extdata/md_stocka_real.R |only pedquant-0.2.2/pedquant/inst/extdata/symbol_163.R |only pedquant-0.2.2/pedquant/man/dt_banks.Rd | 5 pedquant-0.2.2/pedquant/man/dt_ssec.Rd | 5 pedquant-0.2.2/pedquant/man/md_money.Rd | 2 pedquant-0.2.2/pedquant/man/md_moneycn.Rd |only pedquant-0.2.2/pedquant/man/md_stock.Rd | 42 - pedquant-0.2.2/pedquant/man/md_stock_adjust.Rd | 12 pedquant-0.2.2/pedquant/man/md_stock_financials.Rd | 37 pedquant-0.2.2/pedquant/man/pq_freq.Rd | 3 pedquant-0.2.2/pedquant/man/pq_performance.Rd | 3 pedquant-0.2.2/pedquant/man/pq_plot.Rd | 2 pedquant-0.2.2/pedquant/man/pq_portfolio.Rd | 14 pedquant-0.2.2/pedquant/man/pq_return.Rd | 2 52 files changed, 534 insertions(+), 598 deletions(-)
Title: Power Analysis and Data Simulation for Multilevel Models
Description: A declarative language for specifying multilevel models,
solving for population parameters based on specified variance-explained effect
size measures, generating data, and conducting power analyses to determine
sample size recommendations. The specification allows for any number of
within-cluster effects, between-cluster effects, covariate effects
at either level, and random coefficients. Moreover, the models do not
assume orthogonal effects, and predictors can correlate at either level
and accommodate models with multiple interaction effects.
Author: Brian T. Keller [aut, cre, cph]
Maintainer: Brian T. Keller <bk@utexas.edu>
Diff between mlmpower versions 1.0.0 dated 2023-04-26 and 1.0.1 dated 2023-05-04
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- NEWS.md |only R/parameters.R | 15 +++++++++++++-- R/utils.R | 2 ++ README.md | 11 +++-------- 6 files changed, 26 insertions(+), 17 deletions(-)
Title: Relationship Between Species and Groups of Sites
Description: Functions to assess the strength and statistical significance of the relationship between species occurrence/abundance and groups of sites [De Caceres & Legendre (2009) <doi:10.1890/08-1823.1>]. Also includes functions to measure species niche breadth using resource categories [De Caceres et al. (2011) <doi:10.1111/J.1600-0706.2011.19679.x>].
Author: Miquel De Caceres [aut, cre] ,
Florian Jansen [aut],
Noah Dell [aut]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between indicspecies versions 1.7.12 dated 2022-03-06 and 1.7.13 dated 2023-05-04
DESCRIPTION | 14 MD5 | 34 NEWS.md | 3 build/vignette.rds |binary inst/CITATION | 23 inst/doc/IndicatorSpeciesAnalysis.html | 1341 +++++++++++++++++++++++---------- inst/doc/PigeonExample.html | 538 ++++++++++--- man/combinespecies.Rd | 8 man/coverage.Rd | 4 man/indicators.Rd | 5 man/multipatt.Rd | 4 man/nicheoverlap.Rd | 2 man/nichevar.Rd | 24 man/plotniche.Rd | 2 man/predict.indicators.Rd | 4 man/pruneindicators.Rd | 4 man/signassoc.Rd | 2 man/summary.multipatt.Rd | 4 18 files changed, 1434 insertions(+), 582 deletions(-)
Title: Estimation Methods for Causal Inference Based on Inverse
Probability Weighting
Description: Various estimators of causal effects based on inverse probability weighting, doubly robust estimation, and double machine learning. Specifically, the package includes methods for estimating average treatment effects, direct and indirect effects in causal mediation analysis, and dynamic treatment effects. The models refer to studies of Froelich (2007) <doi:10.1016/j.jeconom.2006.06.004>, Huber (2012) <doi:10.3102/1076998611411917>, Huber (2014) <doi:10.1080/07474938.2013.806197>, Huber (2014) <doi:10.1002/jae.2341>, Froelich and Huber (2017) <doi:10.1111/rssb.12232>, Hsu, Huber, Lee, and Lettry (2020) <doi:10.1002/jae.2765>, and others.
Author: Hugo Bodory [aut, cre] ,
Martin Huber [aut] ,
Jannis Kueck [aut]
Maintainer: Hugo Bodory <hugo.bodory@unisg.ch>
Diff between causalweight versions 1.0.3 dated 2022-08-12 and 1.0.4 dated 2023-05-04
DESCRIPTION | 20 MD5 | 18 NAMESPACE | 96 - R/coupon.R |only R/couponsretailer.R |only R/functions.R | 3512 +++++++++++++++++++++++---------------------- R/identificationDML.R |only R/lateweight.R | 1 R/treatweight.R | 1 data/coupon.RData |only data/couponsretailer.RData |only man/coupon.Rd |only man/couponsretailer.Rd |only man/identificationDML.Rd |only 14 files changed, 1901 insertions(+), 1747 deletions(-)
Title: Extract Saccades via an Ensemble of Methods Approach
Description: A modular and extendable approach to extract (micro)saccades from gaze samples via an ensemble of methods.
Although there is an agreement about a general definition of a saccade, the more specific details are harder to agree upon.
Therefore, there are numerous algorithms that extract saccades based on various heuristics, which differ in the assumptions about velocity,
acceleration, etc. The package uses three methods (Engbert and Kliegl (2003) <doi:10.1016/S0042-6989(03)00084-1>,
Otero-Millan et al. (2014)<doi:10.1167/14.2.18>, and Nyström and Holmqvist (2010) <doi:10.3758/BRM.42.1.188>)
to label individual samples and then applies a majority vote approach to identify saccades. The package includes three
methods but can be extended via custom functions. It also uses a modular approach to compute velocity and
acceleration from noisy samples. Finally, you can obtain methods votes per gaze sample instead of saccades.
Author: Alexander Pastukhov [aut, cre]
Maintainer: Alexander Pastukhov <pastukhov.alexander@gmail.com>
Diff between saccadr versions 0.1.1 dated 2022-09-20 and 0.1.2 dated 2023-05-04
DESCRIPTION | 10 +- MD5 | 25 ++--- NEWS.md |only R/extract_saccades.R | 6 + R/method_nh.R | 9 ++ R/method_om.R | 3 README.md | 17 +++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/methods.html | 142 ++++++++++++++++---------------- inst/doc/using_custom_methods.html | 124 ++++++++++++++-------------- inst/doc/using_sample_votes.html | 142 ++++++++++++++++---------------- inst/doc/velocity_computation.html | 144 +++++++++++++++++---------------- tests/testthat/test-extract_saccades.R | 58 +++++++++++++ 14 files changed, 398 insertions(+), 282 deletions(-)
Title: Getting Bibliographic Records from 'OpenAlex' Database Using
'DSL' API
Description: A set of tools to extract bibliographic content from
'OpenAlex' database using API <https://docs.openalex.org>.
Author: Massimo Aria [aut, cre, cph] ,
Corrado Cuccurullo [ctb] ,
Trang Le [aut] ,
June Choe [ctb]
Maintainer: Massimo Aria <aria@unina.it>
Diff between openalexR versions 1.0.2.9 dated 2023-04-01 and 1.1.0 dated 2023-05-04
DESCRIPTION | 8 MD5 | 30 +- NEWS.md | 9 R/oa2df.R | 460 ++++++++++++++++++-------------------- R/oa_fetch.R | 136 +++++------ R/oa_snowball.R | 9 R/utils.R | 19 + README.md | 80 +++--- man/oa2df.Rd | 8 man/oa_fetch.Rd | 40 +-- man/oa_query.Rd | 33 +- man/oa_random.Rd | 4 man/oa_request.Rd | 4 man/works2df.Rd | 2 tests/testthat/test-oa_fetch.R | 52 +++- tests/testthat/test-oa_snowball.R | 2 16 files changed, 478 insertions(+), 418 deletions(-)
Title: Functions for Community Data and Ordinations
Description: A collection of functions useful in (vegetation) community analyses and ordinations. Includes automatic species selection for ordination diagrams, NMDS stress/scree plots, species response curves and rank-abundance curves as well as calculation and sorting of synoptic tables.
Author: Friedemann von Lampe [aut, cre],
Jenny Schellenberg [aut]
Maintainer: Friedemann von Lampe <fvonlampe@uni-goettingen.de>
Diff between goeveg versions 0.6.0 dated 2023-04-19 and 0.6.1 dated 2023-05-04
DESCRIPTION | 8 +++--- MD5 | 16 ++++++------- NEWS.md | 5 +++- R/ordiselect.r | 33 +++++++++++++++++++++++++--- R/racurves.r | 2 - R/specresponse.R | 61 ++++++++++++++++++++++++++++++++++++++++++++-------- man/ordiselect.Rd | 7 +++++ man/racurves.Rd | 2 - man/specresponse.Rd | 13 +++++------ 9 files changed, 113 insertions(+), 34 deletions(-)
Title: Compares the Distribution of Sister Clades Through a Phylogeny
Description: An implementation of the nodiv algorithm, see Borregaard, M.K., Rahbek, C., Fjeldsaa, J., Parra, J.L., Whittaker, R.J. & Graham, C.H. 2014. Node-based analysis of species distributions. Methods in Ecology and Evolution 5(11): 1225-1235. <DOI:10.1111/2041-210X.12283>. Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped.
Author: Michael Krabbe Borregaard
Maintainer: Michael Krabbe Borregaard <mkborregaard@sund.ku.dk>
Diff between nodiv versions 1.4.0 dated 2020-05-26 and 1.4.1 dated 2023-05-04
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- R/Prepare_data.R | 6 +++--- README.md | 2 +- inst/CITATION | 4 ++-- man/gridData.Rd | 2 ++ man/plotSOS.Rd | 4 ++-- man/subsample.Rd | 2 ++ 8 files changed, 24 insertions(+), 20 deletions(-)
Title: Sparse-Aware Maximum Likelihood for Structural Equation Models
Description: Provides Sparse-aware maximum likelihood for structural equation models in inferring network structure (topology).
Author: Anhui Huang [aut, ctb, cre]
Maintainer: Anhui Huang <anhuihuang@gmail.com>
Diff between sparseSEM versions 3.8 dated 2023-04-21 and 3.8-1 dated 2023-05-04
DESCRIPTION | 6 +-- MD5 | 18 +++++----- R/elasticNetSML.R | 4 +- R/elasticNetSMLcv.R | 34 +++++++++++++++----- R/elasticNetSMLpoint.R | 2 - man/elasticNetSML.Rd | 76 ++++++++++++++++++++++++++++++++++++++++------ man/elasticNetSMLcv.Rd | 64 +++++++++++++++++++++++++++++--------- man/elasticNetSMLpoint.Rd | 57 ++++++++++++++++++++++++++++------ man/sparseSEM-package.Rd | 2 - src/lassoSMLv10beta.c | 52 ++++++++++++++++++++++--------- 10 files changed, 242 insertions(+), 73 deletions(-)
Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 9.1.8 dated 2023-03-24 and 9.1.9 dated 2023-05-04
rswipl-9.1.8/rswipl/src/swipl-devel/src/Tests/core/test_cgc.pl |only rswipl-9.1.8/rswipl/src/swipl-devel/src/Tests/core/test_db.pl |only rswipl-9.1.8/rswipl/src/swipl-devel/src/Tests/core/test_dbref.pl |only rswipl-9.1.8/rswipl/src/swipl-devel/src/Tests/core/test_jit.pl |only rswipl-9.1.8/rswipl/src/swipl-devel/src/Tests/core/test_module.pl |only rswipl-9.1.9/rswipl/DESCRIPTION | 8 rswipl-9.1.9/rswipl/MD5 | 140 rswipl-9.1.9/rswipl/NEWS.md | 4 rswipl-9.1.9/rswipl/R/rswipl.R | 6 rswipl-9.1.9/rswipl/src/Makevars | 11 rswipl-9.1.9/rswipl/src/swipl-devel/CMakeLists.txt | 2 rswipl-9.1.9/rswipl/src/swipl-devel/VERSION | 2 rswipl-9.1.9/rswipl/src/swipl-devel/cmake/BuildType.cmake | 6 rswipl-9.1.9/rswipl/src/swipl-devel/cmake/PackageSelection.cmake | 2 rswipl-9.1.9/rswipl/src/swipl-devel/cmake/swipl.cmake | 4 rswipl-9.1.9/rswipl/src/swipl-devel/library/clp/clpfd.pl | 3 rswipl-9.1.9/rswipl/src/swipl-devel/library/date.pl | 13 rswipl-9.1.9/rswipl/src/swipl-devel/library/main.pl | 112 rswipl-9.1.9/rswipl/src/swipl-devel/library/pprint.pl | 57 rswipl-9.1.9/rswipl/src/swipl-devel/packages/archive/test_archive.pl | 6 rswipl-9.1.9/rswipl/src/swipl-devel/packages/clib/process.c | 6 rswipl-9.1.9/rswipl/src/swipl-devel/packages/clib/prolog_server.pl | 25 rswipl-9.1.9/rswipl/src/swipl-devel/packages/cmake/PrologPackage.cmake | 2 rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/CMakeLists.txt | 9 rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2-plx.h |only rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.cpp |only rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.h | 1753 +--- rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/pl2cpp.doc | 9 rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/pl2cpp2.doc | 732 + rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/test_cpp.cpp | 478 - rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/test_cpp.pl | 392 - rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/test_ffi.c | 239 rswipl-9.1.9/rswipl/src/swipl-devel/packages/cpp/test_ffi.pl | 125 rswipl-9.1.9/rswipl/src/swipl-devel/packages/http/cgi_stream.c | 64 rswipl-9.1.9/rswipl/src/swipl-devel/packages/http/http_header.pl | 4 rswipl-9.1.9/rswipl/src/swipl-devel/packages/http/http_json.pl | 11 rswipl-9.1.9/rswipl/src/swipl-devel/packages/http/http_log.pl | 3 rswipl-9.1.9/rswipl/src/swipl-devel/packages/pcre/input |only rswipl-9.1.9/rswipl/src/swipl-devel/packages/pcre/pcre.doc | 6 rswipl-9.1.9/rswipl/src/swipl-devel/packages/pcre/pcre.pl | 12 rswipl-9.1.9/rswipl/src/swipl-devel/packages/pcre/pcre4pl.c | 253 rswipl-9.1.9/rswipl/src/swipl-devel/packages/pcre/test_pcre.pl | 35 rswipl-9.1.9/rswipl/src/swipl-devel/packages/sgml/xpath.pl | 13 rswipl-9.1.9/rswipl/src/swipl-devel/packages/table/error.c | 6 rswipl-9.1.9/rswipl/src/swipl-devel/packages/yaml |only rswipl-9.1.9/rswipl/src/swipl-devel/src/ATOMS | 2 rswipl-9.1.9/rswipl/src/swipl-devel/src/CMakeLists.txt | 17 rswipl-9.1.9/rswipl/src/swipl-devel/src/SWI-Prolog.h | 24 rswipl-9.1.9/rswipl/src/swipl-devel/src/Tests/db |only rswipl-9.1.9/rswipl/src/swipl-devel/src/Tests/files/test_pipe.pl | 8 rswipl-9.1.9/rswipl/src/swipl-devel/src/Tests/save/test_saved_states.pl | 13 rswipl-9.1.9/rswipl/src/swipl-devel/src/os/pl-files.c | 4 rswipl-9.1.9/rswipl/src/swipl-devel/src/os/pl-prologflag.c | 2 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-builtin.h | 4 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-comp.c | 2 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-fli.c | 42 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-global.h | 25 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-init.c | 2 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-load.c | 3 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-prims.c | 30 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-proc.c | 32 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-thread.c | 22 rswipl-9.1.9/rswipl/src/swipl-devel/src/pl-thread.h | 13 rswipl-9.1.9/rswipl/src/swipl-devel/src/test.pl | 3896 +++++----- 64 files changed, 4957 insertions(+), 3737 deletions(-)
Title: Add Custom Legends to 'leaflet' Maps
Description: Provides extensions to the 'leaflet' package to
customize legends with images, text styling, orientation, sizing,
and symbology and functions to create symbols to plot on maps.
Author: Thomas Roh [aut, cre],
Ricardo Rodrigo Basa [ctb]
Maintainer: Thomas Roh <thomas@roh.engineering>
Diff between leaflegend versions 1.0.0 dated 2022-08-05 and 1.1.0 dated 2023-05-04
DESCRIPTION | 8 MD5 | 47 - NAMESPACE | 2 NEWS.md | 23 R/legend.R | 1345 +++++++++++++++++++++++++-------- README.md | 31 man/addLeafLegends.Rd | 67 - man/addLegendImage.Rd | 2 man/availableShapes.Rd |only man/figures/circle-pch.svg |only man/figures/cross-circle-pch.svg |only man/figures/cross-rect-pch.svg |only man/figures/diamond-pch.svg |only man/figures/down-triangle-pch.svg |only man/figures/hexagram-pch.svg |only man/figures/open-circle-pch.svg |only man/figures/open-diamond-pch.svg |only man/figures/open-down-triangle-pch.svg |only man/figures/open-rect-pch.svg |only man/figures/open-triangle-pch.svg |only man/figures/plus-circle-pch.svg |only man/figures/plus-diamond-pch.svg |only man/figures/plus-rect-pch.svg |only man/figures/rect-pch.svg |only man/figures/simple-cross-pch.svg |only man/figures/simple-plus-pch.svg |only man/figures/simple-star-pch.svg |only man/figures/solid-circle-bg-pch.svg |only man/figures/solid-circle-md-pch.svg |only man/figures/solid-circle-sm-pch.svg |only man/figures/solid-diamond-pch.svg |only man/figures/solid-rect-pch.svg |only man/figures/solid-triangle-pch.svg |only man/figures/triangle-pch.svg |only man/figures/triangle-rect-pch.svg |only man/legendSymbols.Rd | 8 man/mapSymbols.Rd | 20 tests/testthat/test-legend.R | 213 +++-- 38 files changed, 1305 insertions(+), 461 deletions(-)
Title: Create Tidy Data Frames of Marginal Effects for 'ggplot' from
Model Outputs
Description: Compute marginal effects and adjusted predictions from statistical
models and returns the result as tidy data frames. These data frames are
ready to use with the 'ggplot2'-package. Effects and predictions can be
calculated for many different models. Interaction terms, splines and
polynomial terms are also supported. The main functions are ggpredict(),
ggemmeans() and ggeffect(). There is a generic plot()-method to plot the
results using 'ggplot2'.
Author: Daniel Luedecke [aut, cre] ,
Frederik Aust [ctb] ,
Sam Crawley [ctb] ,
Mattan S. Ben-Shachar [ctb]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between ggeffects versions 1.2.1 dated 2023-04-02 and 1.2.2 dated 2023-05-04
DESCRIPTION | 24 - MD5 | 108 +++--- NAMESPACE | 1 NEWS.md | 61 +++ R/data_frame_methods.R |only R/get_predictions_clm.R | 4 R/get_predictions_clm2.R | 4 R/ggeffect.R | 2 R/ggemmeans.R | 24 + R/ggpredict.R | 16 R/hypothesis_test.R | 111 ++++++ R/plot.R | 427 +++++++++++++++++-------- R/pool_predictions.R | 22 + R/post_processing_labels.R | 21 + R/post_processing_predictions.R | 10 R/predict_zero_inflation.R | 19 - R/predictions.R | 2 R/print.R | 42 -- R/residualize_over_grid.R | 7 R/simulate_predictions.R | 5 R/standard_error_predictions.R | 9 R/themes.R | 5 R/utils.R | 102 ++++- R/utils_colors.R | 6 R/utils_get_data_grid.R | 9 R/utils_get_representative_values.R | 24 - R/utils_ggpredict.R | 14 R/utils_reshape.R | 7 R/utils_select.R | 2 R/utils_set_attr.R | 27 + R/utils_typical_value.R | 4 R/vcov.R | 15 README.md | 2 build/vignette.rds |binary inst/doc/content.html | 4 man/collapse_by_group.Rd | 90 ++--- man/efc.Rd | 42 +- man/figures/unnamed-chunk-4-1.png |binary man/fish.Rd | 20 - man/ggpredict.Rd | 82 ++-- man/hypothesis_test.Rd | 9 man/install_latest.Rd | 80 ++-- man/lung2.Rd | 24 - man/plot.Rd | 2 man/vcov.Rd | 132 +++---- tests/testthat/_snaps/print_hypothesis_test.md | 125 +++++++ tests/testthat/_snaps/print_subsets.md |only tests/testthat/test-as_data_frame.R | 3 tests/testthat/test-check_vars.R |only tests/testthat/test-ci_backticks-names.R |only tests/testthat/test-clm.R | 2 tests/testthat/test-logistf.R | 4 tests/testthat/test-offset_zeroinfl.R | 6 tests/testthat/test-on-the-fly-factor.R | 22 + tests/testthat/test-pool_predictions.R |only tests/testthat/test-print_hypothesis_test.R | 87 +++++ tests/testthat/test-print_subsets.R |only tests/testthat/test-resid_over_grid.R |only tests/testthat/test-scoping.R |only 59 files changed, 1271 insertions(+), 599 deletions(-)
Title: Sean 'Lahman' Baseball Database
Description: Provides the tables from the 'Sean Lahman Baseball Database' as
a set of R data.frames. It uses the data on pitching, hitting and fielding
performance and other tables from 1871 through 2022, as recorded in the 2023
version of the database. Documentation examples show how many baseball
questions can be investigated.
Author: Michael Friendly [aut],
Chris Dalzell [cre, aut],
Martin Monkman [aut],
Dennis Murphy [aut],
Vanessa Foot [ctb],
Justeena Zaki-Azat [ctb],
Sean Lahman [cph]
Maintainer: Chris Dalzell <cdalzell@gmail.com>
Diff between Lahman versions 10.0-1 dated 2022-04-26 and 11.0-0 dated 2023-05-04
Lahman-10.0-1/Lahman/NEWS |only Lahman-11.0-0/Lahman/DESCRIPTION | 10 Lahman-11.0-0/Lahman/MD5 | 136 ++++++------ Lahman-11.0-0/Lahman/NEWS.md |only Lahman-11.0-0/Lahman/build/vignette.rds |binary Lahman-11.0-0/Lahman/data/AllstarFull.RData |binary Lahman-11.0-0/Lahman/data/Appearances.RData |binary Lahman-11.0-0/Lahman/data/AwardsManagers.RData |binary Lahman-11.0-0/Lahman/data/AwardsPlayers.RData |binary Lahman-11.0-0/Lahman/data/AwardsShareManagers.RData |binary Lahman-11.0-0/Lahman/data/AwardsSharePlayers.RData |binary Lahman-11.0-0/Lahman/data/Batting.RData |binary Lahman-11.0-0/Lahman/data/BattingPost.RData |binary Lahman-11.0-0/Lahman/data/CollegePlaying.RData |binary Lahman-11.0-0/Lahman/data/Fielding.RData |binary Lahman-11.0-0/Lahman/data/FieldingOF.RData |binary Lahman-11.0-0/Lahman/data/FieldingOFsplit.RData |binary Lahman-11.0-0/Lahman/data/FieldingPost.RData |binary Lahman-11.0-0/Lahman/data/HallOfFame.RData |binary Lahman-11.0-0/Lahman/data/HomeGames.RData |binary Lahman-11.0-0/Lahman/data/LahmanData.RData |binary Lahman-11.0-0/Lahman/data/Managers.RData |binary Lahman-11.0-0/Lahman/data/ManagersHalf.RData |binary Lahman-11.0-0/Lahman/data/Parks.RData |binary Lahman-11.0-0/Lahman/data/People.RData |binary Lahman-11.0-0/Lahman/data/Pitching.RData |binary Lahman-11.0-0/Lahman/data/PitchingPost.RData |binary Lahman-11.0-0/Lahman/data/Salaries.RData |binary Lahman-11.0-0/Lahman/data/Schools.RData |binary Lahman-11.0-0/Lahman/data/SeriesPost.RData |binary Lahman-11.0-0/Lahman/data/Teams.RData |binary Lahman-11.0-0/Lahman/data/TeamsFranchises.RData |binary Lahman-11.0-0/Lahman/data/TeamsHalf.RData |binary Lahman-11.0-0/Lahman/data/battingLabels.RData |binary Lahman-11.0-0/Lahman/data/fieldingLabels.RData |binary Lahman-11.0-0/Lahman/data/pitchingLabels.RData |binary Lahman-11.0-0/Lahman/inst/doc/hits-by-type.html | 147 ++++++------ Lahman-11.0-0/Lahman/inst/doc/payroll.html | 204 +++++++++--------- Lahman-11.0-0/Lahman/inst/doc/run-scoring-trends.html | 134 ++++++----- Lahman-11.0-0/Lahman/inst/doc/strikeoutsandhr.html | 164 +++++++------- Lahman-11.0-0/Lahman/inst/doc/vignette-intro.Rmd | 2 Lahman-11.0-0/Lahman/inst/doc/vignette-intro.html | 20 - Lahman-11.0-0/Lahman/inst/scripts/readLahman.R | 12 - Lahman-11.0-0/Lahman/man/AllstarFull.Rd | 4 Lahman-11.0-0/Lahman/man/Appearances.Rd | 4 Lahman-11.0-0/Lahman/man/AwardsManagers.Rd | 2 Lahman-11.0-0/Lahman/man/AwardsPlayers.Rd | 4 Lahman-11.0-0/Lahman/man/AwardsShareManagers.Rd | 2 Lahman-11.0-0/Lahman/man/AwardsSharePlayers.Rd | 2 Lahman-11.0-0/Lahman/man/Batting.Rd | 4 Lahman-11.0-0/Lahman/man/BattingPost.Rd | 4 Lahman-11.0-0/Lahman/man/CollegePlaying.Rd | 2 Lahman-11.0-0/Lahman/man/Fielding.Rd | 4 Lahman-11.0-0/Lahman/man/FieldingOF.Rd | 2 Lahman-11.0-0/Lahman/man/FieldingOFsplit.Rd | 6 Lahman-11.0-0/Lahman/man/FieldingPost.Rd | 4 Lahman-11.0-0/Lahman/man/HallOfFame.Rd | 4 Lahman-11.0-0/Lahman/man/HomeGames.Rd | 4 Lahman-11.0-0/Lahman/man/Lahman-package.Rd | 6 Lahman-11.0-0/Lahman/man/Managers.Rd | 4 Lahman-11.0-0/Lahman/man/ManagersHalf.Rd | 2 Lahman-11.0-0/Lahman/man/Parks.Rd | 2 Lahman-11.0-0/Lahman/man/People.Rd | 2 Lahman-11.0-0/Lahman/man/Pitching.Rd | 4 Lahman-11.0-0/Lahman/man/PitchingPost.Rd | 4 Lahman-11.0-0/Lahman/man/Salaries.Rd | 2 Lahman-11.0-0/Lahman/man/Schools.Rd | 2 Lahman-11.0-0/Lahman/man/SeriesPost.Rd | 2 Lahman-11.0-0/Lahman/man/Teams.Rd | 2 Lahman-11.0-0/Lahman/vignettes/vignette-intro.Rmd | 2 70 files changed, 473 insertions(+), 442 deletions(-)
Title: Irucka Embry's Miscellaneous Functions
Description: A collection of Irucka Embry's miscellaneous functions
(Engineering Economics, Civil & Environmental/Water Resources Engineering,
Construction Measurements, GNU Octave compatible functions, Python
compatible function, Trigonometric functions in degrees and function in
radians, Geometry, Statistics, Mortality Calculators, Quick Search, etc.).
Author: Irucka Embry [aut, cre],
Felix Andrews [aut, ctb] ,
Hans Werner Borchers [aut, ctb] ,
Samit Basu [aut, ctb] ,
David Bateman [aut, ctb] ,
Rik Wehbring [aut, ctb] ,
Didier Clamond [aut, ctb] ,
Berry Boessenkool [aut, ctb] ,
Tyler Rinker [aut, ctb] ,
Co [...truncated...]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between iemisc versions 1.0.2 dated 2023-03-07 and 1.0.3 dated 2023-05-04
DESCRIPTION | 19 MD5 | 433 +++++++------- NAMESPACE | 8 NEWS.md | 13 R/AgivenF.R | 2 R/AgivenFcont.R | 12 R/AgivenP.R | 2 R/EffInt.R | 2 R/FgivenA.R | 2 R/FgivenP.R | 2 R/Manningpara.R | 2 R/Manningtrap.R | 4 R/PgivenA.R | 2 R/PgivenA1.R | 2 R/PgivenF.R | 2 R/PgivenFivary.R | 2 R/PgivenG.R | 4 R/Re.R | 6 R/Rem.R | 4 R/SimpIntPaid.R | 8 R/air_stripper.R | 6 R/benefitcost.R | 2 R/concr_mix_lightweight_strength.R | 2 R/concr_mix_normal_strength.R | 2 R/construction_fraction.R | 20 R/cosd.R | 30 R/cv.R | 4 R/engr_survey.R | 17 R/engr_survey2.R | 8 R/engr_survey3.R | 4 R/engr_survey_batch.R | 7 R/engr_survey_reverse.R | 9 R/f.R | 2 R/floor_division.R | 2 R/frac_to_numeric.R | 12 R/iemisc.R | 1 R/igivenPFn.R | 6 R/lat_long2state.R | 4 R/lat_long2utm.R | 4 R/lookupQT.R |only R/maxmre.R | 2 R/mortality_rate.R | 6 R/mre.R | 2 R/na.interp1.R | 2 R/nc.R | 10 R/ngivenPFi.R | 2 R/polygon_area.R | 10 R/project_midpoint.R | 7 R/prop_solver.R | 6 R/rain_garden_driveway.R |only R/ranges.R | 2 R/rational_equation.R | 9 R/reduce_single_digit.R | 105 ++- R/relerror.R | 4 R/righttri.R | 4 R/rms.R | 2 R/sat_vapor_pressure.R | 46 - R/shm.R | 2 R/size.R | 10 R/splitcomma.R | 136 +++- R/surface_area.R |only R/weighted_C.R | 14 R/weighted_CN.R | 14 README.md | 85 ++ build/vignette.rds |binary inst/WORDLIST | 7 inst/doc/Air_Stripper.R | 3 inst/doc/Air_Stripper.Rmd | 6 inst/doc/Air_Stripper.pdf |binary inst/doc/Comparing_Manningtrap.R | 3 inst/doc/Comparing_Manningtrap.Rmd | 6 inst/doc/Comparing_Manningtrap.pdf |binary inst/doc/Comparing_Saturated_Vapor_Pressures.R | 3 inst/doc/Comparing_Saturated_Vapor_Pressures.Rmd | 6 inst/doc/Comparing_Saturated_Vapor_Pressures.pdf |binary inst/doc/Construction_Measurement_Examples.R | 3 inst/doc/Construction_Measurement_Examples.Rmd | 6 inst/doc/Construction_Measurement_Examples.pdf |binary inst/doc/Engineering_Survey_Examples.R | 3 inst/doc/Engineering_Survey_Examples.Rmd | 6 inst/doc/Engineering_Survey_Examples.pdf |binary inst/doc/Friction_Loss_Calculation_Examples.R | 3 inst/doc/Friction_Loss_Calculation_Examples.Rmd | 6 inst/doc/Friction_Loss_Calculation_Examples.pdf |binary inst/doc/GNU-Octave_Rem_Mod_fractdiff_Examples.R | 3 inst/doc/GNU-Octave_Rem_Mod_fractdiff_Examples.Rmd | 6 inst/doc/GNU-Octave_Rem_Mod_fractdiff_Examples.pdf |binary inst/doc/GNU-Octave_cosd_Function_Examples.R | 3 inst/doc/GNU-Octave_cosd_Function_Examples.Rmd | 6 inst/doc/GNU-Octave_cosd_Function_Examples.pdf |binary inst/doc/GNU-Octave_size_Function_Examples.R | 3 inst/doc/GNU-Octave_size_Function_Examples.Rmd | 6 inst/doc/GNU-Octave_size_Function_Examples.pdf |binary inst/doc/Open-Channel-Flow_Examples_Geometric_Shapes.R | 3 inst/doc/Open-Channel-Flow_Examples_Geometric_Shapes.Rmd | 6 inst/doc/Open-Channel-Flow_Examples_Geometric_Shapes.pdf |binary inst/doc/Reynolds_number_Calculation_Examples.R | 3 inst/doc/Reynolds_number_Calculation_Examples.Rmd | 6 inst/doc/Reynolds_number_Calculation_Examples.pdf |binary inst/doc/secprop_R_GNU-Octave_Example.R | 3 inst/doc/secprop_R_GNU-Octave_Example.Rmd | 8 inst/doc/secprop_R_GNU-Octave_Example.pdf |binary man/AgivenF.Rd | 2 man/AgivenFcont.Rd | 2 man/AgivenG.Rd | 2 man/AgivenP.Rd | 2 man/AgivenPcont.Rd | 2 man/CompIntCharg.Rd | 2 man/CompIntPaid.Rd | 2 man/EffInt.Rd | 2 man/FgivenA.Rd | 2 man/FgivenAcont.Rd | 2 man/FgivenP.Rd | 2 man/FgivenPcont.Rd | 2 man/Manningpara.Rd | 2 man/Manningtrap.Rd | 2 man/Manningtrap_critical.Rd | 2 man/Mod_octave.Rd | 2 man/PgivenA.Rd | 2 man/PgivenA1.Rd | 2 man/PgivenAcont.Rd | 2 man/PgivenF.Rd | 2 man/PgivenFcont.Rd | 2 man/PgivenFivary.Rd | 2 man/PgivenG.Rd | 2 man/Re1.Rd | 2 man/Re2.Rd | 2 man/Re4.Rd | 2 man/Rem.Rd | 2 man/SimpIntCharg.Rd | 2 man/SimpIntPaid.Rd | 2 man/acosd.Rd | 2 man/acotd.Rd | 2 man/acscd.Rd | 2 man/air_stripper.Rd | 6 man/approxerror.Rd | 2 man/asecd.Rd | 2 man/asind.Rd | 2 man/atan2d.Rd | 2 man/atand.Rd | 2 man/benefitcost.Rd | 2 man/concr_mix_lightweight_strength.Rd | 2 man/concr_mix_normal_strength.Rd | 2 man/construction_decimal.Rd | 10 man/construction_decimal_eng.Rd | 2 man/construction_fraction.Rd | 8 man/cosd.Rd | 4 man/cotd.Rd | 2 man/cscd.Rd | 2 man/cv.Rd | 4 man/density_water.Rd | 4 man/dyn_visc_water.Rd | 2 man/engr_survey.Rd | 14 man/engr_survey2.Rd | 8 man/engr_survey3.Rd | 2 man/engr_survey4.Rd | 2 man/engr_survey_batch.Rd | 4 man/engr_survey_reverse.Rd | 6 man/f1.Rd | 2 man/floor_division.Rd | 2 man/frac_to_numeric.Rd | 12 man/grapes-notchin-grapes.Rd |only man/grapes-qsin-grapes.Rd | 4 man/igivenICPn.Rd | 4 man/igivenPFn.Rd | 2 man/iscolumn.Rd | 2 man/isrow.Rd | 2 man/kin_visc_water.Rd | 2 man/lat_long2state.Rd | 4 man/lat_long2utm.Rd | 4 man/length_octave.Rd | 2 man/lookupQT.Rd |only man/maxmre.Rd | 2 man/mortality_rate.Rd | 2 man/mortality_rate_pct.Rd | 2 man/mre.Rd | 2 man/n.Rd | 2 man/na.interp1.Rd | 2 man/nc1.Rd | 2 man/nc2.Rd | 2 man/nc3.Rd | 2 man/nc4.Rd | 2 man/ndims.Rd | 2 man/ngivenPFi.Rd | 2 man/numel.Rd | 2 man/polygon_area.Rd | 10 man/project_midpoint.Rd | 4 man/prop_mortality_ratio.Rd | 2 man/prop_solver.Rd | 6 man/rain_garden_driveway.Rd |only man/ranges.Rd | 2 man/rational_formula.Rd | 6 man/reduce_single_digit.Rd | 27 man/relerror.Rd | 2 man/righttri.Rd | 4 man/rms.Rd | 2 man/sat_vapor_pressure.Rd | 4 man/sat_vapor_pressure_ice.Rd | 2 man/sec.Rd | 2 man/secd.Rd | 2 man/sgm.Rd | 2 man/sind.Rd | 2 man/sp_volume.Rd | 2 man/splitcomma.Rd | 8 man/surface_area.Rd |only man/tand.Rd | 2 man/unit_wt.Rd | 2 man/weighted_C.Rd | 14 man/weighted_CN.Rd | 14 vignettes/Air_Stripper.Rmd | 6 vignettes/Comparing_Manningtrap.Rmd | 6 vignettes/Comparing_Saturated_Vapor_Pressures.Rmd | 6 vignettes/Construction_Measurement_Examples.Rmd | 6 vignettes/Engineering_Survey_Examples.Rmd | 6 vignettes/Friction_Loss_Calculation_Examples.Rmd | 6 vignettes/GNU-Octave_Rem_Mod_fractdiff_Examples.Rmd | 6 vignettes/GNU-Octave_cosd_Function_Examples.Rmd | 6 vignettes/GNU-Octave_size_Function_Examples.Rmd | 6 vignettes/Open-Channel-Flow_Examples_Geometric_Shapes.Rmd | 6 vignettes/Reynolds_number_Calculation_Examples.Rmd | 6 vignettes/secprop_R_GNU-Octave_Example.Rmd | 8 221 files changed, 922 insertions(+), 771 deletions(-)
More information about HybridMicrobiomes at CRAN
Permanent link
Title: Generate Code Lists for the OMOP Common Data Model
Description: Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.
Author: Edward Burn [aut, cre]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between CodelistGenerator versions 1.1.0 dated 2023-04-01 and 1.2.0 dated 2023-05-04
CodelistGenerator-1.1.0/CodelistGenerator/R/utils.R |only CodelistGenerator-1.2.0/CodelistGenerator/DESCRIPTION | 8 CodelistGenerator-1.2.0/CodelistGenerator/MD5 | 38 +- CodelistGenerator-1.2.0/CodelistGenerator/NAMESPACE | 2 CodelistGenerator-1.2.0/CodelistGenerator/NEWS.md | 3 CodelistGenerator-1.2.0/CodelistGenerator/R/compareCodelists.R | 2 CodelistGenerator-1.2.0/CodelistGenerator/R/drugCodes.R |only CodelistGenerator-1.2.0/CodelistGenerator/R/getCandidateCodes.R | 21 - CodelistGenerator-1.2.0/CodelistGenerator/R/getMappings.R | 16 - CodelistGenerator-1.2.0/CodelistGenerator/R/inputValidation.R |only CodelistGenerator-1.2.0/CodelistGenerator/R/mockVocabRef.R | 69 +++- CodelistGenerator-1.2.0/CodelistGenerator/R/runSearch.R | 2 CodelistGenerator-1.2.0/CodelistGenerator/R/vocabUtilities.R | 157 +++++++++- CodelistGenerator-1.2.0/CodelistGenerator/README.md | 12 CodelistGenerator-1.2.0/CodelistGenerator/inst/doc/a01_Introduction_to_CodelistGenerator.html | 20 - CodelistGenerator-1.2.0/CodelistGenerator/inst/doc/a02_Candidate_codes_OA.html | 32 +- CodelistGenerator-1.2.0/CodelistGenerator/man/getATCCodes.Rd |only CodelistGenerator-1.2.0/CodelistGenerator/man/getCandidateCodes.Rd | 2 CodelistGenerator-1.2.0/CodelistGenerator/man/getDescendants.Rd | 9 CodelistGenerator-1.2.0/CodelistGenerator/man/getDrugIngredientCodes.Rd |only CodelistGenerator-1.2.0/CodelistGenerator/tests/testthat/test-drugCodes.R |only CodelistGenerator-1.2.0/CodelistGenerator/tests/testthat/test-getCandidateCodes.R | 2 CodelistGenerator-1.2.0/CodelistGenerator/tests/testthat/test-vocabUtilities.R | 45 ++ 23 files changed, 338 insertions(+), 102 deletions(-)
More information about CodelistGenerator at CRAN
Permanent link
Title: Support Functions and Datasets for Venables and Ripley's MASS
Description: Functions and datasets to support Venables and Ripley,
"Modern Applied Statistics with S" (4th edition, 2002).
Author: Brian Ripley [aut, cre, cph],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Kurt Hornik [trl] ,
Albrecht Gebhardt [trl] ,
David Firth [ctb]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between MASS versions 7.3-59 dated 2023-04-21 and 7.3-60 dated 2023-05-04
ChangeLog | 9 +++++++++ DESCRIPTION | 12 ++++++------ MD5 | 37 +++++++++++++++++++------------------ R/add.R | 4 ++-- R/lda.R | 4 ++-- R/lqs.R | 4 ++-- R/negbin.R | 6 +++--- R/polr.R | 4 ++-- R/qda.R | 4 ++-- man/OME.Rd | 4 ++-- man/beav1.Rd | 2 +- man/beav2.Rd | 4 ++-- man/boxcox.Rd | 6 +++--- man/epil.Rd | 4 ++-- man/housing.Rd | 6 +++--- man/logtrans.Rd | 4 ++-- man/petrol.Rd | 4 ++-- man/plot.profile.Rd | 4 ++-- tests/Examples/MASS-Ex.Rout.save | 28 ++++++++++++++-------------- tests/MASS-Ex.Rout |only 20 files changed, 80 insertions(+), 70 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 3.1.7 dated 2023-03-12 and 3.1.8 dated 2023-05-04
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Title: Spatial Absorbing Markov Chains
Description: Implements functions for working with absorbing Markov chains. The
implementation is based on the framework described in "Toward a unified
framework for connectivity that disentangles movement and mortality in space
and time" by Fletcher et al. (2019) <doi:10.1111/ele.13333>, which applies
them to spatial ecology. This framework incorporates both resistance and
absorption with spatial absorbing Markov chains (SAMC) to provide several
short-term and long-term predictions for metrics related to connectivity in
landscapes. Despite the ecological context of the framework, this package
can be used in any application of absorbing Markov chains.
Author: Andrew Marx [aut, cre, cph] ,
Robert Fletcher [ctb] ,
Miguel Acevedo [ctb] ,
Jorge Sefair [ctb] ,
Chao Wang [ctb] ,
Hughes Josie [ctb] ,
Barrett Griffin [ctb]
Maintainer: Andrew Marx <ajm.rpackages@gmail.com>
Diff between samc versions 3.1.0 dated 2023-04-07 and 3.2.0 dated 2023-05-04
DESCRIPTION | 6 ++-- MD5 | 13 +++++----- NEWS.md | 6 ++++ R/visitation.R | 49 +++++++++++++++++++++++++++++++++++++++ inst/doc/overview.R | 18 +++++++------- inst/doc/overview.html | 23 +++++++++++------- man/visitation_net.Rd |only tests/testthat/test-visitation.R | 3 ++ 8 files changed, 91 insertions(+), 27 deletions(-)
Title: Simulation-Based Inference for Regression Models
Description: Performs simulation-based inference as an alternative to the delta method for obtaining valid confidence intervals and p-values for regression post-estimation quantities, such as average marginal effects and predictions at representative values. This framework for simulation-based inference is especially useful when the resulting quantity is not normally distributed and the delta method approximation fails. The methodology is described in King, Tomz, and Wittenberg (2000) <doi:10.2307/2669316>. 'clarify' is meant to replace some of the functionality of the archived package 'Zelig'; see the vignette "Translating Zelig to clarify" for replicating this functionality.
Author: Noah Greifer [aut, cre] ,
Steven Worthington [aut] ,
Stefano Iacus [aut] ,
Gary King [aut]
Maintainer: Noah Greifer <ngreifer@iq.harvard.edu>
Diff between clarify versions 0.1.2 dated 2023-02-22 and 0.1.3 dated 2023-05-04
DESCRIPTION | 6 +-- MD5 | 54 ++++++++++++++-------------- NEWS.md | 4 ++ R/checks.R | 84 +++++++++++++++++++++------------------------ R/clarify_est_methods.R | 11 ++--- R/get_model_components.R | 23 +++++------- R/misim.R | 5 ++ R/plot.clarify_adrf.R | 10 ++--- R/plot.clarify_est.R | 4 -- R/plot.clarify_setx.R | 36 +++++++++---------- R/sim.R | 40 +++++++++++---------- R/sim_adrf.R | 13 +++--- R/sim_ame.R | 73 +++++++++++++++++++-------------------- R/sim_apply.R | 32 +++++++---------- R/sim_setx.R | 36 +++++++++---------- R/summary.clarify_est.R | 5 ++ R/utils.R | 11 ++++- README.md | 10 ++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Zelig.Rmd | 2 - inst/doc/Zelig.html | 21 ++++++++--- inst/doc/clarify.Rmd | 20 +++++----- inst/doc/clarify.html | 73 +++++++++++++++++++++++++-------------- man/summary.clarify_est.Rd | 5 ++ vignettes/Zelig.Rmd | 2 - vignettes/clarify.Rmd | 20 +++++----- vignettes/references.bib | 19 ++++++++++ 28 files changed, 343 insertions(+), 276 deletions(-)
Title: Arbitrary-Precision Integer and Floating-Point Mathematics
Description: Classes for storing and manipulating arbitrary-precision
integer vectors and high-precision floating-point vectors. These
extend the range and precision of the 'integer' and 'double' data
types found in R. This package utilizes the 'Boost.Multiprecision' C++
library. It is specifically designed to work well with the 'tidyverse'
collection of R packages.
Author: David Hall [aut, cre, cph]
Maintainer: David Hall <david.hall.physics@gmail.com>
Diff between bignum versions 0.3.1 dated 2023-04-02 and 0.3.2 dated 2023-05-04
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ tests/testthat/test-vctrs-math.R | 2 +- 4 files changed, 11 insertions(+), 7 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-02-27 1.2.2
Title: Utility Functions for Forest Inventory Estimation and Analysis
Description: A set of tools for data wrangling, spatial data analysis,
statistical modeling (including direct, model-assisted, photo-based, and
small area tools), and USDA Forest Service data base tools. These tools are
aimed to help Foresters, Analysts, and Scientists extract and perform
analyses on USDA Forest Service data.
Author: Tracey Frescino [aut],
Chris Toney [aut],
Grayson White [aut, cre]
Maintainer: Grayson White <graysonwhite13@gmail.com>
Diff between FIESTAutils versions 1.1.5 dated 2023-03-21 and 1.1.6 dated 2023-05-04
DESCRIPTION | 10 +++--- MD5 | 20 ++++++------ R/DBinternal.R | 77 ++++++++++++++++++++++++++--------------------- R/datExportData.R | 3 + R/eval_options.R | 22 ++++++++----- R/getadjfactorPLOT.R | 12 ++++--- R/pcheck.functions.R | 56 ++++++++++++++++++++++++++++++++-- R/raster_functions.R | 83 ++++++++++++++++++++++++++++++--------------------- R/subpsamp.R | 17 +++++----- R/write2sqlite.R | 3 + man/eval_options.Rd | 12 +++---- 11 files changed, 202 insertions(+), 113 deletions(-)