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Message started by morecoffee on Sep 10th, 2019 at 9:51pm

Title: MCMC: does it show the probability on the branches?
Post by morecoffee on Sep 10th, 2019 at 9:51pm
Hello there,
I just did a first mcmc with UGENE, and I have some very low numbers on the branches, like 0, 0.001... is that the probability or the sd?

Title: Re: MCMC: does it show the probability on the branches?
Post by Olga Golosova on Sep 12th, 2019 at 2:18pm
We display "length_median" information, produced by MrBayes MCMC tool with the "Savebrlength" option enabled.

For details, see the original command-line tool documentation: http://mrbayes.sourceforge.net/Help/mcmc.html.

And see the attached files:
* tmp.nex.con.tre - output of the MCMC tool (note that the sequences are renamed).
* COI.nwk - the result Newick file, produced from this data

https://forum.ugene.net/forum/YaBB.pl?action=downloadfile;file=tmp_nex_con.tre (7 KB | 269 )
https://forum.ugene.net/forum/YaBB.pl?action=downloadfile;file=COI.nwk (0 KB | 273 )

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