[maker-devel] Maker Software Question

[Barry Moore]

Hi Chris,

I don’t know if others have responded to you already, but I just found this e-mail unanswered in the depths of my e-mail inbox, so apologies for no reply.

I’m going to forward you e-mail along to the full maker mailing list so that you’ll get the benefit of response from the full group of MAKER developers.

MAKER does include a couple of scripts that add functional annotation to MAKER GFF3 output.  This process is described in the recent paper:

Campbell MS, Holt C, Moore B, Yandell M. Genome Annotation and Curation Using
MAKER and MAKER-P. Curr Protoc Bioinformatics.

http://www.ncbi.nlm.nih.gov/pubmed/25501943

Mike do you have a PDF of the final print version of that you could send directly to Christopher?

B

On Jan 16, 2015, at 8:38 AM, Seabury, Christopher <CSeabury at cvm.tamu.edu<mailto:CSeabury at cvm.tamu.edu>> wrote:

Dear Colleagues,

I would like to quickly ask about a specific routine/possible function in MAKER.
Previously, we have essentially made home-made versions of maker by way of
Multi-step programming.   At present we are exploring MAKER but are wondering
IF MAKER has the ability to populate the GFF with GENE/Protein ID information?
As an initial experiment, we gave MAKER cDNA refseqs, plus corresponding Protein refseqs,
And a reference, but do not see the GENE/Protein ID in the GFF.  Is there a subroutine
For this, or option we have missed?


Thanks and Kind Regards,


Christopher M. Seabury PhD
Associate Professor
Department of Veterinary Pathobiology
College of Veterinary Medicine
Texas A&M University
College Station, TX 77843-4467
cseabury at cvm.tamu.edu<mailto:cseabury at cvm.tamu.edu>
Mobile: 979-492-6400

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20150306/15c2e575/attachment-0002.html>