Package: Rtapas 1.2
Rtapas: Random Tanglegram Partitions
Applies a given global-fit method to random partial tanglegrams of a fixed size to identify the associations, terminals, and nodes that maximize phylogenetic (in)congruence. It also includes functions to compute more easily the confidence intervals of classification metrics and plot results, reducing computational time. See "Llaberia-Robledillo et al. (2023, <doi:10.1093/sysbio/syad016>)".
Authors:
Rtapas_1.2.tar.gz
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Rtapas.pdf |Rtapas.html✨
Rtapas/json (API)
# Install 'Rtapas' in R: |
install.packages('Rtapas', repos = c('https://mllaberia.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mllaberia/rtapas/issues
- CP_500tr - Nuclear and chloroplast dataset of orchids
- CPtr - Nuclear and chloroplast dataset of orchids
- NUC_500tr - Nuclear and chloroplast dataset of orchids
- NUCtr - Nuclear and chloroplast dataset of orchids
- am_matrix - Amph_trem dataset
- amphipod - Amph_trem dataset
- amphipod_1000tr - Amph_trem dataset
- np_matrix - Nuclear and chloroplast dataset of orchids
- pp_treesPACo_cong - Nuclear and chloroplast dataset of orchids
- pp_treesPACo_incong - Nuclear and chloroplast dataset of orchids
- trematode - Amph_trem dataset
- trematode_1000tr - Amph_trem dataset
Last updated 10 months agofrom:df64cc56b0. Checks:9 OK. Indexed: yes.
Target | Result | Latest binary |
---|---|---|
Doc / Vignettes | OK | Mar 11 2025 |
R-4.5-win | OK | Mar 11 2025 |
R-4.5-mac | OK | Mar 11 2025 |
R-4.5-linux | OK | Mar 11 2025 |
R-4.4-win | OK | Mar 11 2025 |
R-4.4-mac | OK | Mar 11 2025 |
R-4.4-linux | OK | Mar 11 2025 |
R-4.3-win | OK | Mar 11 2025 |
R-4.3-mac | OK | Mar 11 2025 |
Exports:assoc_matgeo_Dgini_cigini_RSVlink_freqlinkf_CImax_congmax_incongone2one_fpaco_ssparaFprob_statistictangle_gramtrimHS_maxCtrimHS_maxI
Dependencies:apecliclusterclusterGenerationcodacodetoolscombinatcpp11DEoptimdigestdistorydoParallelexpmfastmatchforeachgenericsglueigraphiteratorslatticelifecyclemagrittrmapsMASSMatrixmgcvmnormtnlmenumDerivoptimParallelpacoparallellypermutephangornphytoolspkgconfigplyrquadprogRcpprlangscatterplot3dstringistringrvctrsvegan