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<div class="">Begin forwarded message:</div>
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<span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">From:
</b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">"Ence,daniel" <<a href="mailto:d.ence@ufl.edu" class="">d.ence@ufl.edu</a>><br class="">
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<span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Subject:
</b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class=""><b class="">Re: [maker-devel] Some transcripts have no AED?</b><br class="">
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<span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Date:
</b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">March 15, 2018 at 9:06:45 AM EDT<br class="">
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<span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">To:
</b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">"<a href="mailto:wangzhennan@ioz.ac.cn" class="">wangzhennan@ioz.ac.cn</a>" <<a href="mailto:wangzhennan@ioz.ac.cn" class="">wangzhennan@ioz.ac.cn</a>><br class="">
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<span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Cc:
</b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">"Ence,daniel" <<a href="mailto:d.ence@ufl.edu" class="">d.ence@ufl.edu</a>><br class="">
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Hi, I really can’t help you without more information to answer either of your questions (number of genes or the transcripts without AEDs). If you ran maker with some evidence to annotation those 23000 genes, then some of those genes were probably not supported
by the evidence. Did you give those 23000 genes as predictions or as models? Those are two different options in maker and would give different results.
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<div class="">~Daniel<br class="">
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<div class="">On Mar 15, 2018, at 4:11 AM, <a href="mailto:wangzhennan@ioz.ac.cn" class="">
wangzhennan@ioz.ac.cn</a> wrote:</div>
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<p class="">Hi,</p>
<p class=""> I am so sorry that I can not expound my question for you. I run maker with a annotation file(gff) which has 23000 genes, but I got a result with only 21553 genes. Why there were fewer genes than original file? Thank you very much!</p>
<p class=""> Best wishes.</p>
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<p class=""> Wang<br class="">
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-----Original Messages-----<br class="">
<b class="">From:</b><span id="rc_from" class="">"Ence,daniel" <<a href="mailto:d.ence@ufl.edu" class="">d.ence@ufl.edu</a>></span><br class="">
<b class="">Sent Time:</b><span id="rc_senttime" class="">2018-03-14 19:33:01 (Wednesday)</span><br class="">
<b class="">To:</b> "<a href="mailto:wangzhennan@ioz.ac.cn" class="">wangzhennan@ioz.ac.cn</a>" <<a href="mailto:wangzhennan@ioz.ac.cn" class="">wangzhennan@ioz.ac.cn</a>><br class="">
<b class="">Cc:</b> "<a href="mailto:maker-devel@yandell-lab.org" class="">maker-devel@yandell-lab.org</a>" <<a href="mailto:maker-devel@yandell-lab.org" class="">maker-devel@yandell-lab.org</a>><br class="">
<b class="">Subject:</b> Re: [maker-devel] Some transcripts have no AED?<br class="">
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Hi, can you send a few lines of examples? Do some transcripts do have AEDs?
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<div class="">~Daniel <br class="">
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<div class="">Sent from my iPhone</div>
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On Mar 13, 2018, at 23:54, "<a href="mailto:wangzhennan@ioz.ac.cn" target="_blank" class="">wangzhennan@ioz.ac.cn</a>" <<a href="mailto:wangzhennan@ioz.ac.cn" target="_blank" class="">wangzhennan@ioz.ac.cn</a>> wrote:<br class="">
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<p class="">Hi, </p>
<p class=""> When I used maker to get the AED value, some transcripts have no AED values in the result. Why? I used the RNA-Seq data and protein to run maker.Thank you.</p>
<p class=""> Best wishes.</p>
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<p class=""> Wang</p>
<p class="">T</p>
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