Bug #188

showing wrong reference sequence for a split read

Added by Xin Zhou over 10 years ago. Updated over 10 years ago.

Status:Closed Start date:04/20/2014
Priority:Normal Due date:
Assignee:- % Done:

0%
Category:- Spent time: -
Target version:-

Description

This bam file was from RNA-seq experiment (75bp, single end) and lots of reads are split over exon boundaries.

http://epigenomegateway.wustl.edu/browser/?genome=hg19&gftk=refGene,full&coordinate=chr7:26708766-26710476&bam=xx,http://vizhub.wustl.edu/hubSample/hg19/wgEncodeCaltechRnaSeqGm12878R1x75dAlignsRep1V2.bam,full

Clicking on one such read and show the sequence alignment in tooltip, it showed lots of mismatches but in fact there's no mismatched. Wrong sequence is retrieved from the reference genome.

1.png (29.4 kB) Xin Zhou, 04/20/2014 03:52 pm

History

#2
Updated by Daofeng Li over 10 years ago

  • Status changed from Resolved to Closed

Also available in: Atom PDF