SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Introducing BBMerge: A paired-end read merger Brian Bushnell Bioinformatics 126 08-06-2018 03:16 PM
Questions concerning bbmerge finswimmer Bioinformatics 1 07-07-2017 03:42 AM
bbmerge mismatched danova Bioinformatics 3 02-23-2016 11:27 PM
bbmerge ratiomode ? danova Bioinformatics 2 02-16-2016 10:58 AM
Merging paired ends fastq files with BBMerge bi_maniac Illumina/Solexa 19 11-04-2015 01:43 AM

Reply
 
Thread Tools
Old 04-11-2018, 12:57 PM   #1
chloe1005
Junior Member
 
Location: knoxville

Join Date: Oct 2017
Posts: 7
Default BBDUK and BBMERGE, which goes first

Hi,

I am trying to use MetaPhlAn2 to get a glimpse of the taxonomy composition of the shotgun data.

However, I want to do some quality control for the data. BBDUK and BBMERGE are under my consideration. May I know shall I merge first of quality trimming and filtering first?

Thanks.
chloe1005 is offline   Reply With Quote
Old 04-12-2018, 03:43 AM   #2
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,784
Default

I am reasonably sure that @Brian recommends merging first and then doing any trimming with bbduk.
GenoMax 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 08:54 PM.


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