<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On May 12, 2016, at 8:37 PM, Xabier Vázquez Campos <<a href="mailto:xvazquezc@gmail.com" class="">xvazquezc@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class=""><div class="">Can't you filter the file content with the 'grep' command? If you need to extract columns, use 'cut' too<br class=""></div></div></div><div class="gmail_extra"><br class=""><div class="gmail_quote">On 13 April 2016 at 13:05, Jenny Lee <span dir="ltr" class=""><<a href="mailto:h.lee12@uq.edu.au" target="_blank" class="">h.lee12@uq.edu.au</a>></span> wrote:<br class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr" style="font-size: 12pt; background-color: rgb(255, 255, 255); font-family: Calibri, Arial, Helvetica, sans-serif;" class=""><p class="">Hi all,<br class="">
</p><p class=""><br class="">
</p><p class="">I would like to update my maker gff3 file to only contain the genes I've decided to keep - all maker genes, a subset of abinitio genes (which have interproscan hits). I would like to also exclude the repeats information and only retain the CDS, gene, exon
and mRNA - like the format we usually see in published data.<br class="">
</p><p class=""><br class="">
</p><p class="">I've been trying to do this manually and it gets messy. Any ideas?<br class="">
</p><p class=""><br class="">
</p><p class="">Thanks a lot.<br class="">
</p><p class=""><br class="">
</p><p class="">Regards,<br class="">
</p><p class="">Jenny Lee<br class="">
</p><p class=""><br class="">
</p>
</div>
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<br class=""></blockquote></div><br class=""><br clear="all" class=""><br class="">-- <br class=""><div class="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class="">Xabier Vázquez-Campos, <i class="">PhD</i><br class=""><i class="">Research Associate</i><br class="">Water Research Centre<br class="">School of Civil and Environmental Engineering<br class="">
The University of New South Wales<br class="">Sydney NSW 2052 AUSTRALIA<br class=""></div></div></div></div></div></div></div>
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