Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Extract subset of Fastq sequences based on a list of IDs pepperoni Bioinformatics 36 05-06-2013 01:38 AM
samtools mpileup and bcftools not reporting dbSNP ids dmb Bioinformatics 2 08-13-2012 10:18 PM
Extract snp ids seq_GA Bioinformatics 0 11-22-2011 05:09 PM
TSS ids in Cufflink/ Cuffdiff output mathew Bioinformatics 0 08-25-2011 04:47 PM
IDs, standard format? EGrassi Bioinformatics 2 02-28-2011 05:33 AM

Thread Tools
Old 06-11-2011, 07:36 AM   #1
Junior Member
Location: Missouri

Join Date: Apr 2010
Posts: 6
Default SGA preprocess error, read ids

SGA preprocess is giving me the following error:

Warning: Pair IDs do not match (expected format /1,/2 or /A,/B)
Read1 ID: HWUSI-EAS558R_0015:7:26:4067:7956#0/1
Read2 ID: HWUSI-EAS558R_0015:7:26:4067:7956#0/2

When I forgot and left the --phred64 tag off, it thought the ends of the pair ids were part of the quality scores.
My question, are the read ids too long for SGA? If so how would I change this? Or is this a problem with Bamtools, which SGA uses?

HerefordGuy is offline   Reply With Quote

bamtools, paired ends, read id, sga

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 01:15 PM.

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