Hi all,
I am new to phylogeny, please excuse me if this question is trivial or if I make some conceptual mistakes.
I need to build a consensus tree of a collection of aka 40 orthologs of a protein that has a globular domain and an intrinsically disordered region. I already have the multiple sequence alignment. Essentially, I have no time or computer power limitations.
Currently, I am using this very simple MrBayes script:
begin mrbayes;
set autoclose=yes nowarn=yes;
[data file]
execute myalignment.nex;
[substitution model]
lset nst=1 rates=gamma;
[mcmc settings]
mcmc savebrlens=yes nruns=1 ngen=100000 samplefreq=10;
sumt burnin=1000;
end;
Do you guys have any recommendation on how to fine-tune this script in order to better fit my needs?
Any information will be helpful!
Thanks in advance,
Miquel
Hi Biojl, thanks for the recommendation. I'll have a look and re-formulate my question in the next days.