Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Fungal genome annotation Fitoedu Bioinformatics 2 02-03-2015 10:12 PM
50Mbp fungal genome strategy bdbart General 5 11-30-2012 07:01 AM
annotation for viral genome honey Bioinformatics 3 10-07-2012 10:18 PM
Genome Annotation tips Ashu Bioinformatics 12 01-12-2012 04:35 AM
genome annotation john6015 Bioinformatics 3 01-14-2011 12:10 AM

Thread Tools
Old 11-04-2012, 07:49 PM   #1
Location: Sydney, Australia

Join Date: Nov 2011
Posts: 24
Default Fungal genome Annotation


I'm new to genome assembly.

I've got fungal genome, that I've assembled using Velvet and Soap denovo. I have used Genemark for gene calling. Now how do I annotate it?

Are there any webtools available for fungal genome assembly, or would I have to use a linux based software?

Any help would be soo sooo appreciated!


Bgansw is offline   Reply With Quote
Old 11-04-2012, 08:58 PM   #2
Junior Member
Location: oh

Join Date: Jan 2011
Posts: 9

You could download annotation from NCBI, if you just want to use it.
zhaowei is offline   Reply With Quote
Old 11-05-2012, 01:06 AM   #3
Location: Africa

Join Date: Apr 2011
Posts: 62


You could try out AUGUSTUS . It has been extensively tested on fungal sequences and there are quiet of good number of training sets from fungi in the package. It also enables you to use RNA-Seq data should you have one. The annotations as suggested by zhaowei such as related proteomes can also for used to constrain the prediction.


Apexy 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 09:42 AM.

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