[maker-devel] Augustus predictions within MAKER2

[Alam,Elissar]

Would that include all the gene models predicted by Augustus or only the ones that Maker retains after considering all ab initio gene predictions (SNAP + Augustus) and the EST evidence?

Thanks a lot,
Elissar

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From: Jason Stajich<mailto:jason.stajich at gmail.com>
Sent: Friday, November 25, 2022 11:51 AM
To: Alam,Elissar<mailto:elissaralam at ufl.edu>
Cc: maker-devel at yandell-lab.org<mailto:maker-devel at yandell-lab.org>
Subject: Re: [maker-devel] Augustus predictions within MAKER2

[External Email]
After you run the gff3_merge step you can
grep augustus final.gff > augustus.gff3

On Wed, Nov 23, 2022 at 8:02 AM Alam,Elissar <elissaralam at ufl.edu<mailto:elissaralam at ufl.edu>> wrote:
Hello,

I ran Augustus and SNAP as part of the MAKER2 gene annotation pipeline. I would like to use the gene predictions generated by Augustus (prior to MAKER selecting the final gene model based on all ab initio predictions) for downstream analyses. Is there a way to obtain the Augustus gene predictions in gff3 format from MAKER2?

Thanks a million,
Elissar
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