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  1. IGB
  2. IGBF-1222

Check if IGB shows soft-clipped bases from read alignments correctly

    Details

    • Type: Task
    • Status: Closed (View Workflow)
    • Priority: Major
    • Resolution: Done
    • Affects Version/s: None
    • Fix Version/s: None
    • Labels:
    • Story Points:
      4
    • Sprint:
      B - Summer 2018

      Description

      SAM specification allows for read alignments to be represented where the ends are "soft-clipped", meaning: they are not reported in the alignment.

      An IGB user noticed that older versions of IGB omitted these bases from the view. Instead, they should be shown, with mis-matches. This may have been fixed, but we need to check.

      If IGB shows the soft-clipped bases, users can more easily detect re-arrangements and other issues critical to diagnosing genomic defects in clinical samples.

      To start, make sure the above description of "soft-clipping" is correct.

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              • Assignee:
                Unassigned
                Reporter:
                ann.loraine Ann Loraine
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