Re: [R-sig-phylo] Network from gene trees
Hello, thank You, I overlooked that function. Yes, that is what I'm looking for. Sincerely, Vojtěch Dne Po 3. listopadu 2014 10:23:32 jste napsal(a): > Hello Vojtěch, > > have you looked into consensusNet in phangorn? > > Regards, > Klaus > > Am 03.11.2014 03:10 schrieb "Vojtěch Zeisek" : > > Hello, > > let's say I have many gene trees (all have same labels) in one multiPhylo > > object. The trees are not fully congruent. One of the reasons can be > > hybridizations among taxa. I wonder if I can make from those trees a > > network > > looking, for example, like those from SplitsTree. I looked at functions in > > ape > > and phangorn, but they seem to work on only one phylogenetic tree or on > > distance matrix. I want to get a species tree, but with (possible) > > reticulations. Can I do this? > > Sincerely, > > Vojtěch -- Vojtěch Zeisek http://trapa.cz/en/ Department of Botany, Faculty of Science Charles University in Prague Benátská 2, Prague, 12801, CZ http://botany.natur.cuni.cz/en/ Institute of Botany, Academy of Science Zámek 1, Průhonice, 25243, CZ http://www.ibot.cas.cz/en/ Czech Republic signature.asc Description: This is a digitally signed message part. ___ 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/
Re: [R-sig-phylo] Network from gene trees
Hello Vojt�ch, have you looked into consensusNet in phangorn? Regards, Klaus Am 03.11.2014 03:10 schrieb "Vojt�ch Zeisek" : > Hello, > let's say I have many gene trees (all have same labels) in one multiPhylo > object. The trees are not fully congruent. One of the reasons can be > hybridizations among taxa. I wonder if I can make from those trees a > network > looking, for example, like those from SplitsTree. I looked at functions in > ape > and phangorn, but they seem to work on only one phylogenetic tree or on > distance matrix. I want to get a species tree, but with (possible) > reticulations. Can I do this? > Sincerely, > Vojt�ch > > -- > Vojt�ch Zeisek > http://trapa.cz/en/ > > Department of Botany, Faculty of Science > Charles University in Prague > Ben�tsk� 2, Prague, 12801, CZ > http://botany.natur.cuni.cz/en/ > > Institute of Botany, Academy of Science > Z�mek 1, Pr�honice, 25243, CZ > http://www.ibot.cas.cz/en/ > > Czech Republic > > ___ > 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/ > [[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/
