<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; color: rgb(0, 0, 0); font-size: 14px; font-family: Calibri, sans-serif;"><div>Yes. It's ok. Non-genic feature lines will be ignored.</div><div><br></div><div>--Carson</div><div><br></div><span id="OLK_SRC_BODY_SECTION"><div style="font-family:Calibri; font-size:11pt; text-align:left; color:black; BORDER-BOTTOM: medium none; BORDER-LEFT: medium none; PADDING-BOTTOM: 0in; PADDING-LEFT: 0in; PADDING-RIGHT: 0in; BORDER-TOP: #b5c4df 1pt solid; BORDER-RIGHT: medium none; PADDING-TOP: 3pt"><span style="font-weight:bold">From: </span> Felipe Barreto <<a href="mailto:fbarreto@ucsd.edu">fbarreto@ucsd.edu</a>><br><span style="font-weight:bold">Date: </span> Friday, May 23, 2014 at 2:31 PM<br><span style="font-weight:bold">To: </span> MAKER group <<a href="mailto:maker-devel@yandell-lab.org">maker-devel@yandell-lab.org</a>><br><span style="font-weight:bold">Subject: </span> [maker-devel] gff3_merge on models only for SNAP training?<br></div><div><br></div><div dir="ltr">Hi, all,<div><br></div><div>I should have confirmed this well before starting my Maker runs, but better now than never.</div><div><br></div><div>When generating a merged gff file to be used for SNAP training, is it OK to use the default gff output from gff3_merge, which contains all protein/EST evidence alignments (this is what I did)? Or should I have generated a gene models-only merged gff (using the -g flag) for training? I assume the Maker flag within the larger gff file will allow the subsequent scripts (e.g. maker2zff) to ignore the other alignments, but just wanted to check.</div><div><br></div><div>Thanks again!</div><div><br>Felipe </div><div><div><br></div><br></div></div>
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