Rogue ("wildcard") taxa are leaves with uncertain phylogenetic position. Their position may vary from tree to tree under inference methods that yield a tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony). The presence of rogue taxa in a tree set can potentially remove all information from a consensus tree. The information content of a consensus tree - a function of its resolution and branch support values - can often be increased by removing rogue taxa. 'Rogue' provides an explicitly information-theoretic approach to rogue detection (Smith 2022) <doi:10.1093/sysbio/syab099>, and an interface to 'RogueNaRok' (Aberer et al. 2013) <doi:10.1093/sysbio/sys078>.
Version: 2.1.7 Depends: R (≥ 3.5.0) Imports: ape (≥ 5.0), cli (≥ 3.0), fastmatch, grDevices, matrixStats, Rdpack (≥ 0.7), Rfast, stats, TreeDist (> 2.2.0), TreeTools (≥ 1.9.1.9003), utils Suggests: knitr, PlotTools, rmarkdown, spelling, testthat Published: 2025-07-01 DOI: 10.32614/CRAN.package.Rogue Author: Martin R. Smith [aut, cre, cph], Andre J. Aberer [aut, cph] Maintainer: Martin R. Smith <martin.smith at durham.ac.uk> BugReports: https://github.com/ms609/Rogue/issues/ License: GPL (≥ 3) URL: https://github.com/ms609/Rogue/, https://github.com/aberer/RogueNaRok/, https://github.com/ms609/RogueNaRok/ NeedsCompilation: yes SystemRequirements: C99 Language: en-GB Citation: Rogue citation info Materials: NEWS In views: Phylogenetics CRAN checks: Rogue results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=Rogue to link to this page.
RetroSearch is an open source project built by @garambo | Open a GitHub Issue
Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo
HTML:
3.2
| Encoding:
UTF-8
| Version:
0.7.4