Question: Converting *.con.tre into Newick format
0
gravatar for jee-wee
3.6 years ago by
jee-wee0
jee-wee0 wrote:

Hi,

To infer duplication events on a gene tree given a species tree I'm using the Archaeopteryx package from Christian Zmasek. I would like to use a *.con.tre generated by MrBayes as a gene tree. Can someone explain to me how to convert this *.con.tre file into Newick format? (Without losing the posterior probability scores)

This is how the file looks like: con.tre.file

ADD COMMENTlink modified 3.6 years ago • written 3.6 years ago by jee-wee0

how does this .con.tre look like? Add the text in question.

ADD REPLYlink modified 3.6 years ago • written 3.6 years ago by Nari870

This output format should be in Nexus format. Searching Nexus to Newick should help you find the answer. Nexus format should contain the tree already in Newick format in a section, so in principle it would be just copy-paste.

ADD REPLYlink written 3.6 years ago by Michael Dondrup47k

This is the *.con.tre file and there is no newick section present in this file. But thanks for your answer.

ADD REPLYlink modified 3.6 years ago • written 3.6 years ago by jee-wee0

Try to use FigTree to open and save as Newick like described here: how to convert a NEXUS treefile to a Newick ultrametric treefile

ADD REPLYlink modified 2.9 years ago • written 3.6 years ago by Michael Dondrup47k
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