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  1. UGENE
  2. UGENE-5419

"Trim Reads by Quality" doesn't work with PHRED64 quality values

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: 1.23
    • Fix Version/s: 1.26
    • Component/s: NGS
    • Labels:
      None
    • Story Points:
      5
    • Sprint:
      DEV-25-2, DEV-26-2
    • Affect Type:
      Userdefined

      Description

      We have sample NGS data from illumina iDEA, that have PHRED+64 quality format. When you try to trim these reads by quality, you get wrongly trimmed reads.

      I think we should do following steps:

      • Add new parameter "Encoding format" to "Trim Reads by Quality" workflow element (GUI part)
        • Description of this parameter: "Phred quality score encoding format"
        • By default this parameter should have value "auto" (for autodetecting of encoding format)
        • Others values should be (more info):
          1. Phred+33
          2. Phred+64
          3. Solexa+64 (it may be not needed)
      • Add autodetection of encoding format for .fastq file (example see here)
      • Add trimming with Phred+64 quality values

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            People

            Assignee:
            dkandrov Denis Kandrov
            Reporter:
            dkandrov Denis Kandrov
            Assigned Tester:
            Kirill Rasputin
            Watchers:
            3 Start watching this issue

              Dates

              Created:
              Updated:
              Resolved: