Hi Lucinda,
You don't give enough information allowing us to help you efficiently.
However, see below.
Lucinda Kirkpatrick wrote on 15/05/2012 07:38:
Dear all,
I am attempting to export a tree I have pruned from 916 taxa to the 53 taxa
I am interested. I used this script:
overlap<- name.check(tree, d)
tree<- drop.tip(tree, overlap$Tree.not.data)
d2<- d[!(rownames(d) %in% overlap$Data.not.tree),]
plot(tree)
name.check(tree,d2)
That was successful but now I want to export the reduced tree as a nexus
file I get the following error:
write.nexus(tree, file="./Results/Tree.nex")
Read 921 items
This suggests you use an old version of ape (which reads the original
data from the NEXUS fil: this feature has been deprecated). I suggest
you update ape first; if your problem persists give us more details,
possibly with some example data.
Best,
Emmanuel
Error in 1:(start - 1) : argument of length 0
I need the reduced tree in a nexus format for another analysis - how is the
best way to do that? I am very new to R so please make any explanation
very simple!
Thanks, Luci
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Emmanuel Paradis
IRD, Jakarta, Indonesia
http://ape.mpl.ird.fr/
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