How to obtain the statistics of the OrthoMCL output file

Question

[javo.vc]

Hey guys,

I been doing some OrthoMCL analyses (stand-alone version) with 4 different species. Now I would like to build a venn diagram showing the statistics of the comparison (e.g. numbers of clusters shared by all the species, number of clusters only shared by two species, and so forth). I haven't came across a way to split the "groups.txt" output file to get this numbers.

Any thoughts?

Thanks in advance,
J.

[5heikki]

Does the groups.txt file follow the format of each ortholog group being listed at a single line? If yes, are your protein IDs species specific? If yes, then getting these statistics ought to be rather easy with e.g. awk

[javo.vc]

No, that's the problem, species are mixed through the file

[javo.vc]

And yes, my protein ID's are species specific

Answer 1

[amanjain]

Try http://bioinformatics.psb.ugent.be/webtools/Venn/ ....nothing more simple than this, but for this you need to use excel and note++. first. Let me now if you still struck up.......I will elaborate........