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  1. IGB
  2. IGBF-4159

ComplexUpsetR from big table KelseyRun-unpol

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
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          Description

          Once we have big tables of our expressed genes (IGBF-4154), let's make complexUpsetR plots in various ways.

          Big one with all !

          4 X variety ones.

          3hrX8hrs
          25c x 37c

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              Task - A task that needs to be done. IGBF-4154 Kelsey run Get gene differentiation btw 25C and 37C-Unpollinated pistil study

              • Major - Major loss of function.
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                robofjoy Robert Reid added a comment -

                input4complexUpset.tsv

                This is the example dataset to test the bar graphs.

                ComplexUpsetR_example.R

                And example R script. Just need to point at correct file location.

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                robofjoy Robert Reid added a comment - input4complexUpset.tsv This is the example dataset to test the bar graphs. ComplexUpsetR_example.R And example R script. Just need to point at correct file location.
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                robofjoy Robert Reid added a comment -


                And then after repeat this again but leave Heinz out. Look at all genes that express in the 3 TMN varieties (but not in Heinz).

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                robofjoy Robert Reid added a comment - And then after repeat this again but leave Heinz out. Look at all genes that express in the 3 TMN varieties (but not in Heinz).
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                bbendick Brandon Bendickson added a comment -

                Note for Brandon:
                Make ven diagram of all genes in all 4 varieties at 3hr and 8hr. We want to visualize the "core" genes that are present in all varieties at 3hr and 8hr to see the overlap.

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                bbendick Brandon Bendickson added a comment - Note for Brandon: Make ven diagram of all genes in all 4 varieties at 3hr and 8hr. We want to visualize the "core" genes that are present in all varieties at 3hr and 8hr to see the overlap.

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                  • Assignee:
                    bbendick Brandon Bendickson
                    Reporter:
                    robofjoy Robert Reid
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                    • Created:
                      Updated:
                      Resolved: