Annotation Tool For Prokaryotic Genome

Heads up! This is a static archive of our support site. Please go to help.galaxyproject.org if you want to reach the Galaxy community. If you want to search this archive visit the Galaxy Hub search

Latest

Open

RNA-Seq

ChIP-Seq

SNP

Assembly

Forum

Planet

All »

Home

Welcome to Galaxy Biostar! User support for Galaxy! about • faq • rss

Community

Log In

Sign Up

Add New Post

Question: Annotation Tool For Prokaryotic Genome

6.1 years ago by

Bernardo Bello • 40

Bernardo Bello • 40 wrote:

Hello Galaxy community, I would like to know if there is any available tool in Galaxy for automated gene annotation. I need gene annotation in GTF or GFF3 format to run CuffDiff on a RNA-Seq project that we are. If not, do you recommend me any software or utility. We have the genome annotated in GenBank format, but searching in the web I've seen that is not possible to convert GenBank format to GTF or GFF3. I appreciate your opinions. Thank you, Bernardo -- *Bernardo Bello Ortí* Becario predoctoral FPI CReSA-IRTA Campus de Bellaterra-Universitat Autňnoma de Barcelona Edifici CReSA 08193 Bellaterra (Barcelona) Tel.: 647 42 52 63 *www.cresa.es * * *

gff • 905 views

ADD COMMENT • link •

modified 6.1 years ago by Björn Grüning • 350 • written 6.1 years ago by Bernardo Bello • 40

6.1 years ago by

Björn Grüning • 350

Björn Grüning • 350 wrote:

Hi Bernardo, We have a tool, that annotates your prokaryotic genome, through similarity searches and creates a genbank file afterwards ... Is that what you are searching for? I think its possible. I have a 'GenBank / embl converter to GFF' and vice versa converter here. I will try to pack it and send it tomorrow when im back at work. Cheers, Bjoern

ADD COMMENT • link written 6.1 years ago by Björn Grüning • 350

Please log in to add an answer.

Similar posts • Search »