I have orthologous protein clusters from four metazoan. I dont't know the corresponding genome regions from where these proteins are derived. I can extract that with blat (if needed). I want to visualize these clusters on the graphics generated my artemis/mauve/mummer etc. Could someone suggest me which is the best tool for this and how can I do this?
hey buddy, you can plot like dendrogram graphs or something simillar.
Dear Ashmit
Difftool could apparently solve this. I see that it was hosted at Pasteur institute, Infobiogen group and now moved elsewhere. Alternatively, you could use this http://www.ebi.ac.uk/Tools/pfa/fingerprintscan/ if you know the extracts.
If you are in India, you can request the Anvaya suite from CDAC, Pune. It is free for Academic use.
Best
Prash
My Question is same as ashmit,,
Can u briefly explain the procedure for the same?
Dear Ashmit ,
Based on the ORTHOMCL group file you have to generate the matrix file for the same. You can generate the Venn diagram for Species specific and ortholog genes between species and the second thing you visualize through circos plot .
Dear Ashmit...
I want to use circos..but i donot how to use it...can u give steps??
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