SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
How to do annotation after gene prediction? garethboy Bioinformatics 2 02-04-2014 01:45 PM
survery: what assembler, gene prediction and gene annotation softwares do you use? Gorbenzer Metagenomics 6 04-22-2013 01:25 AM
RNA-Seq: EDGE-pro: Estimated Degree of Gene Expression in Prokaryotic Genomes. Newsbot! Literature Watch 0 03-28-2013 02:00 AM
homology based gene prediction Mondow Bioinformatics 2 01-08-2013 09:38 AM
Prokaryotic gene prediction software sdhanda Bioinformatics 0 12-27-2012 10:31 PM

Reply
 
Thread Tools
Old 04-07-2014, 06:23 AM   #1
mhadidi2002
Member
 
Location: Germany

Join Date: Jun 2011
Posts: 24
Default Prokaryotic gene prediction from Contigs

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
mhadidi2002 is offline   Reply With Quote
Old 04-08-2014, 03:56 AM   #2
TiborNagy
Senior Member
 
Location: Budapest

Join Date: Mar 2010
Posts: 329
Default

I have used RAST server to annotate bacterial sequences.
TiborNagy is offline   Reply With Quote
Old 04-08-2014, 09:03 AM   #3
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543
Default

Millions on contigs, for one bacteria

I would try Prokka http://www.vicbioinformatics.com/software.prokka.shtml
maubp is offline   Reply With Quote
Reply

Tags
gene prediction

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 07:56 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO