SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Can OrthoMCL be used to cluster RNA sequences? maimaiti2008 Bioinformatics 2 10-13-2013 12:11 PM
complete gene sequences venkat.boffin Bioinformatics 1 08-05-2013 11:25 PM
How to cluster sequences based on GO terms pauboher Introductions 0 04-26-2013 01:25 AM
Cluster similar sequences shadow19c Bioinformatics 3 01-18-2013 05:38 AM

Reply
 
Thread Tools
Old 03-14-2016, 06:48 AM   #1
sequence_hard
Junior Member
 
Location: Sweden

Join Date: Feb 2016
Posts: 5
Default Cluster complete plasmid sequences

Hey all,
I have complete nucleotide sequences for 119 plasmids, with sizes ranging from 500 to 170000 base pairs. Is there a way to cluster those sequences such that I can sort out sequence redundancy? (for example, if a small sequence is covered to 100% in one of the bigger sequences, I want to recognize that in the cluster)

I have tried doing it in uclust, but I think it cannot manage the length of the sequences.
Can anyone recommend a good tool to do this?

Thank you!
sequence_hard is offline   Reply With Quote
Old 03-14-2016, 06:59 AM   #2
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,800
Default

For reference cross-posted: https://www.biostars.org/p/181585
GenoMax is offline   Reply With Quote
Reply

Tags
alignment, clustering, plasmid

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 04:15 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO