Uploaded image for project: 'IGB'
  1. IGB
  2. IGBF-1291

Show soft-clipped bases in BAM files

        Details

        • Story Points:
          10
        • Sprint:
          B - Summer 2018, Summer 2018 Part 2, Summer 2018 Part 3, Fall 2018 1, Fall 2018 Sprint 2, Fall 2018 Sprint 3, Fall 2018 Sprint 4

          Description

          IGB should show soft-clipped bases in BAM files.

            Attachments

            1. SoftClipped.png
              435 kB
              Ann Loraine
            2. softClipExample.png
              106 kB
              Nowlan Freese
            3. softclip_igv.png
              44 kB
              Kiran Korey
            4. Leaf1.small.aligned.sorted.softClipped.bam.bai
              33 kB
              Nowlan Freese
            5. Leaf1.small.aligned.sorted.softClipped.bam
              651 kB
              Nowlan Freese

              Issue Links

              relates to

              Bug - A problem which impairs or prevents the functions of the product. IGBF-1440 Fix soft-clipping glyph render

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Bug - A problem which impairs or prevents the functions of the product. IGBF-1441 Fix Depth Graph (Start) Soft-clip coordinates

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              New Feature - A new feature of the product, which has yet to be developed. IGBF-1443 Implement Depth Graph (Soft-clip)

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1422 Find example data sets where soft clipping reveals polymorphisms

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1442 Preserve soft-clip settings between sessions

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1447 Implement selectable deletion glyph

              • Major - Major loss of function.
              • To-Do

              Task - A task that needs to be done. IGBF-1222 Check if IGB shows soft-clipped bases from read alignments correctly

              • Major - Major loss of function.
              • Closed

                Activity

                  People

                  • Assignee:
                    nfreese Nowlan Freese
                    Reporter:
                    aloraine Ann Loraine
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    4 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: