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  1. IGB
  2. IGBF-3922

Add softclip and paired menu right-click menu options for CRAM

    Details

    • Type: Bug
    • Status: Closed (View Workflow)
    • Priority: Major
    • Resolution: Done
    • Affects Version/s: None
    • Fix Version/s: 10.1.0
    • Labels:
      None

      Description

      Situation: BAM/SAM files have additional right-click menu options "Show as Paired" and "Configure soft-clip" that should also be available for CRAM files, but are missing.

      Task: Enable the right-click menu options listed above for CRAM files.

      To reproduce the issue:

      1. Start IGB
      2. Add the smoke testing quickload as a new data provider.
      3. Select the human genome version H_Sapien_Dec_2013
      4. Add the cram and bam files (I don't think you need to load data, but see the file formats testing page for the location of where to load data in IGB if needed)
      5. Right-click on the track names and look for "Show as Paired" and "Configure soft-clip"

        Attachments

        1. bam.png
          bam.png
          36 kB
        2. CRAM_menu_options.png
          CRAM_menu_options.png
          216 kB
        3. cram.png
          cram.png
          25 kB

          Activity

            People

            • Assignee:
              jsirigin Jaya Sravani Sirigineedi
              Reporter:
              nfreese Nowlan Freese
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              Watchers:
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              Dates

              • Created:
                Updated:
                Resolved: