get.raxml.treeLikelihoods: Extract likelihoods from a RAxML info file

In andrew-hipp/RADami: Phylogenetic Analysis of RADseq Data

Extract likelihoods from a RAxML info file

Description

Reads the info file from a RAxML site-likelihood analysis with multiple input trees. Probably not often needed on its own, but used in match.lnL.to.trees.

Usage

get.raxml.treeLikelihoods(x, logfile = NA)

Arguments

x	file name of a RAxML .info file from site-likelihood analysis
logfile	name of a log file, useful for recording any files that were not successfully read in

Value

A named vector of class double with tree likelihoods, where the names are character equivalents of the tree numbers; or, if the file had no trees in it, the character vector "FAIL"

Author(s)

Andrew Hipp

See Also

match.lnL.to.trees, get.raxml.siteLikelihoods

andrew-hipp/RADami documentation built on Nov. 9, 2023, 5:40 p.m.