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  1. UGENE
  2. UGENE-4123

Create "Get unmapped reads" sample workflow

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    Details

    • Type: Task
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 1.16
    • Fix Version/s: 1.16.1
    • Component/s: Workflow
    • Labels:
    • Tests Type:
      Functional/Unit
    • Affect Type:
      Userdefined

      Description

      See http://ugene.unipro.ru/forum/YaBB.pl?num=1425320889/2#2

      It may be required to analyze unmapped reads:

      using unmatched reads I was able to perform de novo sequencing and I have some huge fragments of DNA (different set of plasmids, still analyse it)

      So, a separate workflow sample can be created for this.

      For example, "Filter BAM/SAM files using samtools view" may be used for this, i.e. not to filter reads by a flag, but filter all other reads that do not have the flag. An additional parameter must be added for the worker for doing this.

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            Assignee:
            vaskin Yura Vaskin
            Reporter:
            oigl Olga Golosova
            Assigned Tester:
            Denis Kandrov
            Watchers:
            2 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: