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  1. IGB
  2. IGBF-2865

Investigate glyphs representing introns in older versions of IGB

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None
        • Story Points:
          2
        • Epic Link:
        • Sprint:
          Spring 5 2021 May 17 - May 28, Spring 6 2021 May 31 - June 11, Summer 1 2021 Jun 14 - Jun 25, Summer 2 2021 Jun 28 - Jul 9, Summer 3 2021 Jul 12 - Jul 23, Summer 4 2021 Aug 2 - Aug 13, Fall 1 2021 Aug 16 - Aug 27, Fall 2 2021 Aug 30 - Sep10

          Description

          Situation: Currently, in IGB, the introns are represented by a line glyph connecting exons with multiple arrows showing the direction of the read, making it look like barbed wire.

          Task: Create a glyph with a single arrow in the center, as shown in the image attached. Also, create the modified PointedGlyph as shown at the right end of the image (TAIR10 mRNA)

          Develop a prototype using GenoViz SDK.

            Attachments

            1. adaptive-direction-pointer-igb-6.7.3.png
              adaptive-direction-pointer-igb-6.7.3.png
              157 kB
            2. ArrowHeadGlyph.jpg
              ArrowHeadGlyph.jpg
              64 kB
            3. ArrowHeadGlyph Zoomed In.jpg
              ArrowHeadGlyph Zoomed In.jpg
              54 kB
            4. ArrowHeadGlyph Zoomed Out.jpg
              ArrowHeadGlyph Zoomed Out.jpg
              105 kB
            5. barbed-wire-pointer-igb-9.1.8.png
              barbed-wire-pointer-igb-9.1.8.png
              147 kB
            6. Bed File Zoomed In.jpg
              Bed File Zoomed In.jpg
              120 kB
            7. Bed File Zoomed In 2.jpg
              Bed File Zoomed In 2.jpg
              99 kB
            8. Bed File Zoomed Out.jpg
              Bed File Zoomed Out.jpg
              197 kB
            9. BothOrientationMap.jpg
              BothOrientationMap.jpg
              74 kB
            10. BothOrientationMap2.jpg
              BothOrientationMap2.jpg
              99 kB
            11. Current EfficientLabelledLineGlyph.jpg
              Current EfficientLabelledLineGlyph.jpg
              90 kB
            12. Gene Model Progress v1.jpg
              Gene Model Progress v1.jpg
              91 kB
            13. IGB Current representation.jpg
              IGB Current representation.jpg
              17 kB
            14. TAIR10 mRNA.jpg
              TAIR10 mRNA.jpg
              61 kB

              Issue Links

              is blocked by

              Task - A task that needs to be done. IGBF-2900 Create an intron glyph for genoviz-sdk (ArrowHeadGlyph)

              • Major - Major loss of function.
              • Closed

              Task - A task that needs to be done. IGBF-2901 Create bed file parser and demo class for genoviz-sdk

              • Major - Major loss of function.
              • Closed
              relates to

              Bug - A problem which impairs or prevents the functions of the product. BUG-120 Arrow on wrong end of bed feature - TopHat bed

              • Major - Major loss of function.
              • Closed

              Bug - A problem which impairs or prevents the functions of the product. BUG-199 gene models should be shown with strand set to "arrow"

              • Major - Major loss of function.
              • Closed

              Bug - A problem which impairs or prevents the functions of the product. IGBC-946 don't show arrow marks when gene models are compressed

              • Major - Major loss of function.
              • Closed

              Sub-task - The sub-task of the issue DB-117 Change barb wire to single arrow

              • Major - Major loss of function.
              • Open

              Improvement - An improvement or enhancement to an existing feature or task. IGBC-934 restore arrows to connector lines for "arrow" strand option

              • Critical - Crashes, loss of data, severe memory leak.
              • Closed

                Activity

                  People

                  • Assignee:
                    karthik Karthik Raveendran
                    Reporter:
                    karthik Karthik Raveendran
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    2 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: