Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: 8.5.3 Minor Release
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Labels:
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Story Points:0.5
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Sprint:Sprint 32
Description
There currently is no way to change the default behavior of only counting "single-mapping reads" - these are reads with NH attribute equal to "1"
In the older version of FindJunctions, you could set this.
Also, the parameter name "threshold" is a bit confusing.
1) In the FindJunctions window, change "threshold" parameter to "flank"
2) Change the default behavior to using all reads, not just the singly mapped (NH = 1) reads.
3) Ensure that if a user has a applied a filter to a track, only the reads that pass the filter get used as inputs to FindJunctions