How do I input multiple phylogenetic trees into R?

Asked Dec 19 '19 at 14:26

Active Dec 19 '19 at 14:38

Viewed 376 times

I have 10,000 trees, as individual .tre files, in my working directory, but I can't seem to load them all into R.

I tried this:

library(ape)

temp=list.files(pattern="*.tre")

mamtrees=lapply(temp,read.tree)

Which yielded the following error message:

Error in nchar(tree) : invalid multibyte string, element 592
In addition: Warning message:
In grepl("'", tree) : input string 592 is invalid in this locale

Any suggestions would be much appreciated!

edited Dec 19 '19 at 14:38

StupidWolf

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asked Dec 19 '19 at 14:26

Laura van Holstein

2

Most likely you are picking up some other files? Try temp=list.files(pattern=".tre$"). This ensures it all ends with .tre – StupidWolf Dec 19 '19 at 14:35
1

That worked! Thank you! – Laura van Holstein Dec 19 '19 at 15:06

How do I input multiple phylogenetic trees into R?

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