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Hi Chris,
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<div class="">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.</div>
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<div class="">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.</div>
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<div class="">MAKER does include a couple of scripts that add functional annotation to MAKER GFF3 output. This process is described in the recent paper:</div>
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<pre class="">Campbell MS, Holt C, Moore B, Yandell M. Genome Annotation and Curation Using
MAKER and MAKER-P. Curr Protoc Bioinformatics.</pre>
<pre class=""><a href="http://www.ncbi.nlm.nih.gov/pubmed/25501943" class="">http://www.ncbi.nlm.nih.gov/pubmed/25501943</a></pre>
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<div class="">Mike do you have a PDF of the final print version of that you could send directly to Christopher?</div>
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<div class="">B</div>
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<div class="">On Jan 16, 2015, at 8:38 AM, Seabury, Christopher <<a href="mailto:CSeabury@cvm.tamu.edu" class="">CSeabury@cvm.tamu.edu</a>> wrote:</div>
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Dear Colleagues,<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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I would like to quickly ask about a specific routine/possible function in MAKER.<o:p class=""></o:p></div>
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Previously, we have essentially made home-made versions of maker by way of<o:p class=""></o:p></div>
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Multi-step programming. At present we are exploring MAKER but are wondering<o:p class=""></o:p></div>
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IF MAKER has the ability to populate the GFF with GENE/Protein ID information?<o:p class=""></o:p></div>
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As an initial experiment, we gave MAKER cDNA refseqs, plus corresponding Protein refseqs,<o:p class=""></o:p></div>
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And a reference, but do not see the GENE/Protein ID in the GFF. Is there a subroutine<o:p class=""></o:p></div>
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For this, or option we have missed?<o:p class=""></o:p></div>
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<o:p class=""> </o:p></div>
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Thanks and Kind Regards,<o:p class=""></o:p></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">Christopher M. Seabury PhD<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">Associate Professor<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">Department of Veterinary Pathobiology<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">College of Veterinary Medicine<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">Texas A&M University<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">College Station, TX 77843-4467<o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class=""><a href="mailto:cseabury@cvm.tamu.edu" style="color: purple; text-decoration: underline;" class=""><span style="color: blue;" class="">cseabury@cvm.tamu.edu</span></a><o:p class=""></o:p></span></div>
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<span style="font-size: 12pt; font-family: Cambria, serif;" class="">Mobile: 979-492-6400</span></div>
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