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  1. IGB
  2. IGBF-3931

Summarizing de novo assembly numbers

        Details

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

          GOAL: Is to get table of our various assemblies and alignments across the 4 varieties so that we can showcase the differences.

          We need the following.

          Summary Numbers of our 4 de novo RNASpades assemblies
          Number of reads that go in
          Summary of the experiment SRA runs: Original data
          Total contigs
          Number > 100
          Largest one
          Number > 1000
          Number that align to SL5

          Mapping reads back to assemblies
          Total that align
          Total that align to SL5
          Break down by temp, time, tissue type, variety

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              robofjoy Robert Reid added a comment -

              Brandon has produced these tables.

              Need to find a location that is *eternal so we can get back to them.

              Google drive for anyone in GTTR to see.
              On the cluster as well.

              Show
              robofjoy Robert Reid added a comment - Brandon has produced these tables. Need to find a location that is *eternal so we can get back to them. Google drive for anyone in GTTR to see. On the cluster as well.
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              robofjoy Robert Reid added a comment -

              A good place to put tables will be in this location:

              https://drive.google.com/drive/folders/1yCTqt8nW_UjcDp17Z0gk0SCjkF06qPmJ?usp=drive_link

              Show
              robofjoy Robert Reid added a comment - A good place to put tables will be in this location: https://drive.google.com/drive/folders/1yCTqt8nW_UjcDp17Z0gk0SCjkF06qPmJ?usp=drive_link
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              bbendick Brandon Bendickson added a comment -

              Added tables to drive location.

              Show
              bbendick Brandon Bendickson added a comment - Added tables to drive location.

                People

                • Assignee:
                  bbendick Brandon Bendickson
                  Reporter:
                  robofjoy Robert Reid
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                  Dates

                  • Created:
                    Updated:
                    Resolved: