[maker-devel] another maker re-annotation question

[Daniel Ence]

Hi Mike, I am pretty sure that you need to strip out everything else. Just keep the "gene", "transcript" and "exon" features. 

Thanks,
Daniel


Daniel Ence
Graduate Student
Eccles Institute of Human Genetics
University of Utah
15 North 2030 East, Room 2100
Salt Lake City, UT 84112-5330
________________________________________
From: maker-devel [maker-devel-bounces at yandell-lab.org] on behalf of Michael Thon [mike.thon at gmail.com]
Sent: Friday, January 17, 2014 10:27 PM
To: MAKER
Subject: [maker-devel] another maker re-annotation question

We would like to re-run maker, keeping our locus IDs from a previous run, if possible.  We added the old maker annotation in maker_gff and set everything else in the re-annotation section to 0.  We also set map_forward=1.  The output has gene annotations but the locus IDs were not transferred.  I did some searching in the mailing list and it seems that our old annotation should be in model_gff.  In that case do we need to strip out all the non-gene model features (match_part, etc) or can we leave it as is?

Mike


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