<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=us-ascii">
<meta name="Generator" content="Microsoft Word 14 (filtered medium)">
<style><!--
/* Font Definitions */
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
margin-bottom:.0001pt;
font-size:11.0pt;
font-family:"Calibri","sans-serif";
mso-fareast-language:EN-US;}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:blue;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:purple;
text-decoration:underline;}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri","sans-serif";
color:windowtext;}
span.apple-converted-space
{mso-style-name:apple-converted-space;}
.MsoChpDefault
{mso-style-type:export-only;
font-family:"Calibri","sans-serif";
mso-fareast-language:EN-US;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:72.0pt 72.0pt 72.0pt 72.0pt;}
div.WordSection1
{page:WordSection1;}
--></style><!--[if gte mso 9]><xml>
<o:shapedefaults v:ext="edit" spidmax="1026" />
</xml><![endif]--><!--[if gte mso 9]><xml>
<o:shapelayout v:ext="edit">
<o:idmap v:ext="edit" data="1" />
</o:shapelayout></xml><![endif]-->
</head>
<body lang="EN-GB" link="blue" vlink="purple">
<div class="WordSection1">
<p class="MsoNormal"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Dear Maker Developers,<span class="apple-converted-space"> <o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white"><o:p> </o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">I’ve updated a reference that was had errors and was a little incomplete and now trying to produce a annotation
for it. Please note the reference has not changed dramatically. I’ve produced two annotations using as evidence:<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white"><o:p> </o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Annotation 1:<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Uniprot proteins search using species keyword “fusarium”<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Pubmed mRNA for the name of the organism
<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Prior annotation reference transcripts<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white"><o:p> </o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Annotation 2:<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Uniprot proteins search using species keyword “fusarium”<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Pubmed mRNA for the name of the organism
<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">Prior annotation reference transcripts<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">mRNA trinity assembly pasafly of different strain (only RNA-seq available)<o:p></o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white"><o:p> </o:p></span></span></p>
<p class="MsoNormal"><span class="apple-converted-space"><span style="font-size:10.0pt;font-family:"Arial","sans-serif";color:#222222;background:white">I’m not sure if it was a smart move to use the prior annotation reference transcripts?</span></span><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I want to compare these two annotations and have produced AED scores. How do I generate summary stats/figures to compare annotations. You mentioned last year in a post Mike Campbell has a script to produce these, do you know if he will
post it? I’ve got the Eval program and converted to gtf format using the provided script, just waiting on some perl modules to be installed by admin to test it. I’m waiting on some perl modules to be installed by our administrator to test out the “Evaluator”
and “compare” programs too, what do they do?<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Best Wishes<o:p></o:p></p>
<p class="MsoNormal">Rob<o:p></o:p></p>
</div>
<br />--
<br />This message has been scanned for viruses and
<br />dangerous content by
<a href="http://www.mailscanner.info/"><b>MailScanner</b></a>, and
<br />we believe but do not warrant that this e-mail and any attachments
thereto do not contain any viruses. However, you are fully
responsible for performing any virus scanning.
</body>
</html>