SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
De Novo Assembly of a transcriptome Neil De novo discovery 82 02-28-2012 09:44 AM
de novo transcriptome assembly/RNA-seq samanta General 0 08-24-2011 12:07 PM
De Novo assembly of a plant transcriptome raonyguimaraes RNA Sequencing 7 07-05-2011 01:17 PM
De Novo Transcriptome Assembly QC Noremac General 0 05-19-2011 11:02 AM
de novo transcriptome assembly Niharika Introductions 8 02-07-2011 05:29 AM

Reply
 
Thread Tools
Old 12-06-2010, 09:37 PM   #1
chenjy
Member
 
Location: China

Join Date: Oct 2010
Posts: 22
Default de novo transcriptome assembly

has anybody done de novo transcriptome assembly? are there any tools to do this? which one is better?
chenjy is offline   Reply With Quote
Old 12-06-2010, 10:46 PM   #2
rwenang
Member
 
Location: Singapore

Join Date: Jan 2009
Posts: 31
Default

on top of my head, you can use trans-abyss.
rwenang is offline   Reply With Quote
Old 12-06-2010, 11:17 PM   #3
chenjy
Member
 
Location: China

Join Date: Oct 2010
Posts: 22
Default

thanks.
i have many RNA-seq data, and the reference is not very good, so i want to generate a new transcriptome assembly. can trans-abyss do this?
chenjy is offline   Reply With Quote
Old 12-06-2010, 11:47 PM   #4
rwenang
Member
 
Location: Singapore

Join Date: Jan 2009
Posts: 31
Default

yes they can, but i never use them though so i dont know about the quality. Read about it on their paper "De novo assembly and analysis of RNA-seq data".
rwenang is offline   Reply With Quote
Old 12-06-2010, 11:54 PM   #5
chenjy
Member
 
Location: China

Join Date: Oct 2010
Posts: 22
Default

you are so kind, thanks again.
chenjy 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 10:34 PM.


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