training gene set and joingenes?

Discussions about training AUGUSTUS from various sources of evidence. Not discussed here: BRAKER1 and WebAUGUSTUS!

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Kang
Posts: 1
Joined: Thu Jun 27, 2019 12:57 pm

training gene set and joingenes?

Post by Kang » Thu Jun 27, 2019 1:06 pm

I'm a big fun of AUGUSTUS, I use it as a hub in my genome annotation pipeline, and still I want to learn it so to make it working better.

When I check braker, I found that it is trying to keep genes with less introns to be training set for AUGUSTUS, is it better to use such gene for training?

Also I found something regarding with joingenes. One thing popped out from my mind is that some times in AUGUSTUS output, I find case where two neighbor predicted genes should actually be one really gene, in other word, AUGUSTUS sometimes break gene into two or more pieces. I was wondering if the "joingene" is a trying to fix that? If not, is there anything solution for this kind of case? Thank you very much.

Sincerely,
Kang

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