Package: apex Title: Phylogenetic Methods for Multiple Gene Data Version: 1.0.7 Authors@R: c(KS=person("Klaus", "Schliep", email="klaus.schliep@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-2941-0161")), TJ=person("Thibaut", "Jombart", , "t.jombart@imperial.ac.uk", role = c("aut")), ZK=person("Zhian Namir", "Kamvar", email = "kamvarz@science.oregonstate.edu", role = c("aut")), EA=person("Eric", "Archer", email="eric.archer@noaa.gov", role = c("aut")), RH=person("Rebecca", "Harris", email="rbharris@uw.edu", role = c("aut"))) Description: Toolkit for the analysis of multiple gene data (Jombart et al. 2017) . 'apex' implements the new S4 classes 'multidna', 'multiphyDat' and associated methods to handle aligned DNA sequences from multiple genes. Depends: R (>= 3.1.3), methods, ape, phangorn Imports: utils, graphics, stats, adegenet License: GPL (>=2) URL: https://github.com/thibautjombart/apex BugReports: https://github.com/thibautjombart/apex/issues Collate: doc.R internal.R multidna.class.R multiphyDat.class.R add.gaps.R rm.gaps.R show.R multidna.constructor.R multiphyDat.constructor.R accessors.R subset.R concatenate.R plot.R readfiles.R datasets.R dist.R getTree.R exports.R VignetteBuilder: knitr Suggests: testthat, knitr, rmarkdown Encoding: UTF-8 RoxygenNote: 7.3.2 Roxygen: list(old_usage = TRUE) Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev libxml2-dev zlib1g-dev Repository: https://thibautjombart.r-universe.dev Date/Publication: 2025-07-24 11:58:06 UTC RemoteUrl: https://github.com/thibautjombart/apex RemoteRef: HEAD RemoteSha: 63c67138aaad3b6ed92ee428595a9844b9d83555 NeedsCompilation: no Packaged: 2026-06-19 08:55:44 UTC; root Author: Klaus Schliep [aut, cre] (ORCID: ), Thibaut Jombart [aut], Zhian Namir Kamvar [aut], Eric Archer [aut], Rebecca Harris [aut] Maintainer: Klaus Schliep