<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=Windows-1252">
</head>
<body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">
\o/
<div><br>
</div>
<div>(now I can get rid of rnammer forever!)<br>
<div><br>
</div>
<div>chris</div>
<div><br>
<div>
<div>On May 14, 2014, at 6:33 PM, Torsten Seemann <<a href="mailto:torsten.seemann@monash.edu">torsten.seemann@monash.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<blockquote type="cite">
<div dir="ltr">
<div class="gmail_extra">
<div class="gmail_quote">
<div>Carson & Shaun </div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">
<div dir="ltr">
<blockquote style="margin:1.2em 0px;border-left-width:4px;border-left-style:solid;border-left-color:rgb(221,221,221);padding:0px 1em;color:rgb(119,119,119);quotes:none">
<p style="margin:1.2em 0px!important">It doesn’t appear to support eukaryotes though.</p>
</blockquote>
<p style="margin:1.2em 0px!important">Barrnap supports bacteria, archaea, mitochondria and eukaryotes. The
<code style="font-size:0.85em;font-family:Consolas,Inconsolata,Courier,monospace;margin:0px 0.15em;padding:0px 0.3em;white-space:pre-wrap;border:1px solid rgb(234,234,234);background-color:rgb(248,248,248);border-top-left-radius:3px;border-top-right-radius:3px;border-bottom-right-radius:3px;border-bottom-left-radius:3px;display:inline">
barrnap --help</code> output seems to be out of date.</p>
<blockquote style="margin:1.2em 0px;border-left-width:4px;border-left-style:solid;border-left-color:rgb(221,221,221);padding:0px 1em;color:rgb(119,119,119);quotes:none">
<p style="margin:1.2em 0px!important">Barrnap predicts the location of ribosomal RNA genes in genomes. It supports bacteria (5S,23S,16S), archaea (5S,5.8S,23S,16S), mitochondria (12S,16S) and eukaryotes (5S,5.8S,28S,18S).</p>
</blockquote>
</div>
</blockquote>
<div>It does support eukaryota and mitochondria, I just forgot to push the documentation changes. This has been resolved now in the 0.4.2 release.</div>
</div>
<div><br>
</div>
<div> --kingdom [X] Kingdom: euk arc bac mito (default 'bac')<br>
</div>
<div><br>
</div>
<div>Next release 0.5 will have an 'accurate' mode which will fine tune the predictions using cmalign glocal alignment.<br>
</div>
<div><br>
</div>
<div>Thanks for your interest!</div>
<div><br>
</div>
-- <br>
<div dir="ltr"><font face="tahoma, sans-serif" size="1"><i>--Dr Torsten Seemann<br>
--Victorian Bioinformatics Consortium, Monash University, AUSTRALIA</i></font>
<div><font face="tahoma, sans-serif"><i><font size="1">--Life Sciences Computation Centre, VLSCI, Parkville, AUSTRALIA<br>
--<a href="http://www.bioinformatics.net.au/" target="_blank">http://www.bioinformatics.net.au/</a></font></i><br>
</font></div>
<div><br>
</div>
</div>
</div>
</div>
_______________________________________________<br>
maker-devel mailing list<br>
<a href="mailto:maker-devel@box290.bluehost.com">maker-devel@box290.bluehost.com</a><br>
http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org<br>
</blockquote>
</div>
<br>
</div>
</div>
</body>
</html>