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

0xTCG / biser

A fast tool for detecting and decomposing segmental duplications in genome assemblies

MIT License

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how to decomposing segmental duplications (SDs) when i have the SDs annotation files. #27

Closed zhoudreames closed 1 year ago

zhoudreames commented 1 year ago

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~

zhoudreames commented 1 year ago

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

inumanag commented 1 year ago

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.