SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
Calling SNPS following Tophat alignment of RNA-SEQ reads cormicp Bioinformatics 4 05-30-2012 10:17 AM
RNA-Seq: Comparative Analysis of RNA-Seq Alignment Algorithms and the RNA-Seq Unified Newsbot! Literature Watch 3 07-31-2011 08:08 PM
Gapped alignment with RNA-Seq agc RNA Sequencing 2 12-21-2010 09:03 PM
RNA-seq alignment to closely related genome wenhuang Bioinformatics 0 08-23-2010 09:33 AM
PubMed: Supersplat -- spliced RNA-seq alignment. Newsbot! Literature Watch 0 05-09-2010 08:00 PM

Reply
 
Thread Tools
Old 10-22-2010, 06:33 AM   #1
Shruti Madhiwalla
Junior Member
 
Location: MA

Join Date: Sep 2010
Posts: 4
Default RNA Seq alignment?

Hi,
This is the first time I am dealing with RNA Seq data (Illumina, GEO data) I wish to align it to the ref genome and was thinking of using Genome Quest. Has anyone tried this software? While preparing the reads, it ask if the format of sequence is Fastaq phred quality, FastaQv1.2 or FastaQv1.3, I am not sure which to choose or how to find out what format is your sequence.

If anyone can suggest a workflow that would be helpful.

Thanks
-Shruti
Shruti Madhiwalla is offline   Reply With Quote
Reply

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 07:07 PM.


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