SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Compare two files with Awk? DrD2009 Bioinformatics 15 02-08-2017 09:00 PM
Compare Genomes infrared1983 Bioinformatics 6 10-12-2011 12:29 PM
compare samples jgSoton Bioinformatics 2 10-03-2011 12:38 AM
compare a few sra files rafi bondi Bioinformatics 0 05-16-2011 03:49 AM
Compare SNPs bair Bioinformatics 5 01-27-2010 02:38 AM

Reply
 
Thread Tools
Old 03-24-2011, 02:53 AM   #1
NicoBxl
not just another member
 
Location: Belgium

Join Date: Aug 2010
Posts: 264
Default best way to compare two (or more) genoms

Hi,

I wondered what is the best way to align two genomes. My goal is to annotate a newly sequenced genome with an annotated one.

Thanks,

N.
NicoBxl is offline   Reply With Quote
Old 03-24-2011, 06:16 AM   #2
shandley
Member
 
Location: Saint Louis, MO

Join Date: Sep 2010
Posts: 58
Default

I am a big fan of MAUVE: http://gel.ahabs.wisc.edu/mauve/, but there are lots of other programs that do full genome alignment.

There is a presentation by Bill Pearson on the topic at: http://www.molecularevolution.org/mo..._galign_11.pdf

I have heard good things about MUGSY (http://mugsy.sourceforge.net/), but I am not sure that is the best option for your annotation needs. Plus it isn't as easy to install or work with as MAUVE.

Good luck!

SAH
shandley 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 10:20 AM.


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