I have checked many post in biostar and other blogs to find orthologous and paralogous gene identification across/within the species. Most of them are suggesting for Best Reciprocal Blast Method(BBRM). But i have 2 leaf and 2 rhizome transcript samples. I have to find out orthologous and paralogous genes between these set. Shall i use BRBM method or are there any other better way to do it.
Please suggest any tools.