Bug #160
Custom PE BAM files unstable
Status: | Closed | Start date: | 02/13/2014 | |
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Priority: | Normal | Due date: | ||
Assignee: | Xin Zhou | % Done: | 0% |
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Category: | - | Spent time: | - | |
Target version: | - |
Description
BAM tracks of paired-end alignments appear unstable on the browser. Relocating or zooming in/out causes reads to "move" and change position.
Browser session app isn't working.... Load these 2 tracks:
1 PE: http://cgs.wustl.edu/~rlowdon/iPCR_Jan2013/sample1.sorted.mapped_only.bam
1 softclipped SE: http://cgs.wustl.edu/~rlowdon/iPCR_Jan2013/softclipped/sample1_bt2.mapped.bam
And jump to: chr4:32115941-32116000
Scroll left/right. Even just with scrolling, you can see that the PE BAM alignments appear to "move", it is unclear where exactly the read is aligned to.
In contrast, the single-end alignments don't change position along the chromosome (but they do appear to rearrange their order vertically along the y-axis of the track -- probably fine).
History
Updated by Xin Zhou almost 11 years ago
- Status changed from New to Resolved
Updated by Daofeng Li over 10 years ago
- Status changed from Resolved to Closed