Hi There, I’m currently wanting to make some changes to some phylogenies in R by reading in the newick text as a string, rather than as a phylo object. The reason is that the trees are large (~10,000 tips and another set with ~5000 tips) and I must make changes to a complete set of these tree (i.e. 10,000 trees). Currently, these trees have node labels, which I’d like to remove.
Essentially what I’d like to do is substitute “)?:” with “):” or simply delete "?", where “?" is any and all characters that occur between the “close” parenthesis and the colon. So far I found I could use the function ’sub’ but I’d like to make the replacements in one fell swoop, without knowing what the node labels are in advance. Also the sub function seems to only replace the first occurrence of the pattern rather than all matches in a string. Any suggestions would be greatly appreciated! Thank you! best, Karen _______________________________________________ R-sig-phylo mailing list - [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/[email protected]/
