Have you looked into drop.tip from ape? if your labels you are interested in a vector, tip this should work: smalltree <- drop.tip(tree, which(!(tree$tip.label %in% tip)))
Regards, Klaus On Wed, Jul 15, 2015 at 12:15 PM, Sergio Ferreira Cardoso < sff.card...@campus.fct.unl.pt> wrote: > Dear members, > > I have a tree with almost 10.000 species and I want to prune it. The > problem is I only want a tree with 59 of those species. Is there any > possible way to make this in R? Is there any code to prune all taxa except > the ones on my data? > > Thanks in advance. > > Best regards, > Sérgio. > > -- > Com os melhores cumprimentos, > Sérgio Ferreira Cardoso. > > -------------------- > > Best regards, > Sérgio Ferreira Cardoso > > > > > MSc. Paleontology candidate > Departamento de Ciências da Terra - FCT /Universidade Nova de Lisboa > Geociências - Universidade de Évora > > Lisboa, Portugal > ᐧ > > [[alternative HTML version deleted]] > > _______________________________________________ > R-sig-phylo mailing list - R-sig-phylo@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > Searchable archive at > http://www.mail-archive.com/r-sig-phylo@r-project.org/ -- Klaus Schliep Postdoctoral Fellow Revell Lab, University of Massachusetts Boston [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
