SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
On/off target rate for whole exome data chris Bioinformatics 5 01-21-2013 01:56 AM
How to integrate GeneMark.hmm results into Artemis? Caro241 Bioinformatics 1 11-06-2012 10:56 AM
How to integrate Trim Galore in Galaxy? sachitad RNA Sequencing 2 10-19-2012 03:54 AM
BAC sequencing with Illumina JuanLugo General 2 04-20-2011 07:34 AM
MIRA:454 scaffolds polishing by Illumina reads discussion Patrick 454 Pyrosequencing 0 10-16-2009 07:46 PM

Reply
 
Thread Tools
Old 11-19-2012, 08:29 AM   #1
wzhangvv
Member
 
Location: IL

Join Date: Oct 2012
Posts: 10
Default rate Ask for help! how to integrate BAC scaffolds and Illumina Data

Hi All,

This is my first time to do de novo genome assembly for a specific region. Now I have assembled BAC scaffolds and I also assembled illumina short reads to scaffolds using SGA assembler. Then I want to use scaffolds from the short reads to fill the gaps among BAC scaffolds. Do you guys have some idea to recommend a software for me?
Thank you so much!

Wei
wzhangvv is offline   Reply With Quote
Old 11-19-2012, 04:17 PM   #2
jimmybee
Senior Member
 
Location: Adelaide, Australia

Join Date: Sep 2010
Posts: 119
Default

You could use another assembler like Phred/Phrap. There should be a few threads on the site where people have used different programs for scaffolding. Have a bit of a dig around in the similar threads
jimmybee 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 09:09 AM.


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