SEQanswers

Go Back   SEQanswers > Sequencing Technologies/Companies > Illumina/Solexa



Similar Threads
Thread Thread Starter Forum Replies Last Post
Interleaved mate pair fastq after quality filtering natstreet Bioinformatics 77 04-11-2015 05:24 PM
Mate-Pair sequencing versa Bioinformatics 0 02-10-2011 12:51 AM
Mate-Pair biotinylation djlarsen Sample Prep / Library Generation 11 01-27-2011 11:43 AM
file format headaches - producing interleaved fastq natstreet SOLiD 1 07-28-2010 02:04 AM
Difference between mate pair and pair end bassu General 2 06-19-2010 07:13 AM

Reply
 
Thread Tools
Old 07-28-2010, 02:08 AM   #1
natstreet
Member
 
Location: Sweden

Join Date: Nov 2009
Posts: 83
Default Interleaved mate pair fastq after quality filtering

I am looking for a script that can produce an interleaved fastq file and a file of orphaned [single end] reads from two input fastq files. The two read pairs have been quality filtered using fastx-toolkit 'fastq_quality_filter', which breaks the exact pairing that previously existed.

Has anyone come across a script to do this rather than just to interleave two perfectly paired sets of fastq files?
natstreet is offline   Reply With Quote
Old 08-10-2010, 04:19 AM   #2
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543
Default

There are some replies on the cross-post,
http://seqanswers.com/forums/showthread.php?p=23304
maubp 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 09:03 AM.


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