Prokaryotic gene prediction from Contigs

mhadidi2002

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Join Date: Jun 2011

Posts: 24
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#1

Prokaryotic gene prediction from Contigs

04-07-2014, 06:23 AM

Dear All,

I have a multi-fasta file of millions of contigs of bacteria which I would like to run gene prediction on it. Which program do you recommend. I would like to get the output in fasta format..

Thanks in advance,
Mohamed
Tags: gene prediction
TiborNagy

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Join Date: Mar 2010

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#2

04-08-2014, 03:56 AM

I have used RAST server to annotate bacterial sequences.
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maubp

Peter (Biopython etc)

Join Date: Jul 2009

Posts: 1544
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#3

04-08-2014, 09:03 AM

Millions on contigs, for one bacteria

I would try Prokka http://www.vicbioinformatics.com/software.prokka.shtml
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