Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Extract sequence from multi fasta file with PERL andreitudor Bioinformatics 27 07-07-2019 08:45 AM
Similarity programs for SNP files leofixings Bioinformatics 1 05-03-2011 09:03 AM
GeneMark: gene finding. How does it work? torbean Bioinformatics 0 04-30-2010 04:48 AM
Programs comparing gene sets 454andSolid Bioinformatics 0 03-16-2010 03:22 AM
Gene Prediction Combiner program or software sharing edge Bioinformatics 15 01-26-2010 12:34 AM

Thread Tools
Old 11-16-2010, 02:31 AM   #1
Location: Uppsala, Sweden

Join Date: Apr 2010
Posts: 29
Default Gene prediction programs that work with multi-fasta files

We have a draft genome of a fungus with around 4000 contigs. I have been using Genemark-ES on the multiple contig fasta file, but it finds genes that stretches over two contigs, and thus do not exist.

Are there gene finder programs (for eukaryotes) that work with multiple contig fasta files, or do I need to split my file into single contig files? Sounds like a real mess when you have over 4000 contigs...

Hobbe is offline   Reply With Quote

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 11:08 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO