how to decomposing segmental duplications (SDs) when i have the SDs annotation files.

Question

how to decomposing segmental duplications (SDs) when i have the SDs annotation files.

zhoudreames opened this issue a year ago · 2 comments

I want to look into the shared and unique SDs for three genomes； I had annotated these genomes using sedef and filter them based on customed standards. Then, I only want to decompose SDs by using the SD annotation files instead of using the whole workflow. Can I do this? Thanks~

Answer 1 · 2023-04-12T02:10:47.000Z

@inumanag @hiseric1 I am sorry to disturb you, can you help me , Thanks~

Answer 2 · 2023-05-03T19:42:07.000Z

Hi @zhoudreames

BISER won't work with SEDEF annotations. I'd suggest running BISER either individually on each of them, or (even better) jointly on all of them. It should not take more than a day.