Package: TipDatingBeast 1.1-0

TipDatingBeast: Using Tip Dates with Phylogenetic Trees in BEAST

Assists performing tip-dating of phylogenetic trees with BEAST BEAST is a popular software for phylogenetic analysis. The package assists the implementation of various phylogenetic tip- dating tests using BEAST. It contains two main functions. The first one allows preparing date randomization analyses, which assess the temporal signal of a data set. The second function allows performing leave-one-out analyses, which test for the consistency between independent calibration sequences and allow pinpointing those leading to potential bias. The included tutorial provides detailed step-by-step instructions. An expanded description of the package can be found in article: Rieux, A. and Khatchikian, C.E. (2017), TIPDATINGBEAST: an R package to assist the implementation of phylogenetic tip-dating tests using BEAST. Molecular Ecology Resources, 17: 608-613. <onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.12603>.

Authors:Adrien Rieux, Camilo Khatchikian

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# Install 'TipDatingBeast' in R:
install.packages('TipDatingBeast', repos = c('https://ckhatchikian.r-universe.dev', 'https://cloud.r-project.org'))

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On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.95 score 1 stars 10 scripts 250 downloads 9 mentions 7 exports 56 dependencies

Last updated 5 years agofrom:b23bcc57c3. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 16 2024
R-4.5-winOKNov 16 2024
R-4.5-linuxOKNov 16 2024
R-4.4-winOKNov 16 2024
R-4.4-macOKNov 16 2024
R-4.3-winOKNov 16 2024
R-4.3-macOKNov 16 2024

Exports:ListTaxaPlotDRTPlotLOOCVRandomClusterRandomDatesTaxaOutTaxonOut

Dependencies:askpassbitbit64bootcellrangerclassclicliprcpp11crayoncurldata.tableDescToolse1071ExactexpmfansiforcatsgldgluehavenhmshttrjsonlitelatticelifecyclelmommagrittrMASSMatrixmclustmimemvtnormopensslpillarpkgconfigprettyunitsprogressproxyR6RcppreadrreadxlrematchrlangrootSolverstudioapisysTeachingDemostibbletidyselecttzdbutf8vctrsvroomwithr