[ensembl-dev] Restricting species considered for ortholog requests

[Jason Merkin]

Hello. I am trying to identify duplications that have occured within a
group of species. I have gone through the tutorial and the mailing list
archives and couldn't find anything on it. I will use the example on the
webpage that explains the homology definitions (
http://ensembl.genomics.org.cn:8058/info/docs/compara/homology_method.html)
to illustrate what I am trying to do. Using just human and mouse, as on the
diagram, I would like to query with Hsap1 and get the set of (Hsap1,
Mmus1); query with Hsap2 and get (Hsap2, Hsap2', Mmus2, Mmus2'); and query
with Hsap3 and get (Hsap3, Mmus3, Mmus3'). Is there a way to specify the
homology type and, more importantly, restrict the species to be considered
for definining the homology?

Thanks for any help,
Jason Merkin
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