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  1. IGB
  2. IGBF-4220

Normalize Salmon Counts

        Details

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

          Description

          Normalize Kelsey's counts tables to TPM, but also add the kegg id for each soly id in the table. Kegg ID mapping comes from 4215.

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              Issue Links

              is blocked by

              Task - A task that needs to be done. IGBF-4223 Make table of Gene lengths

              • Major - Major loss of function.
              • Closed

                Activity

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                bbendick Brandon Bendickson created issue -
                bbendick Brandon Bendickson made changes -
                Field Original Value New Value
                Assignee Ann Loraine [ aloraine ] Brandon Bendickson [ bbendick ]
                bbendick Brandon Bendickson made changes -
                Epic Link IGBF-2993 [ 21429 ]
                bbendick Brandon Bendickson made changes -
                Sprint Summer 1 [ 218 ]
                bbendick Brandon Bendickson made changes -
                Description Normalize Kelsey's counts tables to TPM, but also add the kegg id for each soly id in the table. Normalize Kelsey's counts tables to TPM, but also add the kegg id for each soly id in the table. Kegg ID mapping comes from 4215.
                bbendick Brandon Bendickson made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                robofjoy Robert Reid made changes -
                Link This issue is blocked by IGBF-4223 [ IGBF-4223 ]
                bbendick Brandon Bendickson made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
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                bbendick Brandon Bendickson added a comment -

                normalized salmon counts to TPM. Uploaded the resulting file to the google drive here: https://drive.google.com/drive/u/0/folders/1Vp6US0ItacF0g9m9QR1FqOwXFQB9tf_S

                file name is "Kelsey_counts_tpm.tsv"

                Moving to first level review in case there is table needs modification.

                Show
                bbendick Brandon Bendickson added a comment - normalized salmon counts to TPM. Uploaded the resulting file to the google drive here: https://drive.google.com/drive/u/0/folders/1Vp6US0ItacF0g9m9QR1FqOwXFQB9tf_S file name is "Kelsey_counts_tpm.tsv" Moving to first level review in case there is table needs modification.
                bbendick Brandon Bendickson made changes -
                Assignee Brandon Bendickson [ bbendick ] Robert Reid [ robertreid ]
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                bbendick Brandon Bendickson added a comment -

                If all is well, we can close this one out!

                Show
                bbendick Brandon Bendickson added a comment - If all is well, we can close this one out!
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                robofjoy Robert Reid added a comment -

                Good for closing. It looks right. I'll try it with gage.

                Show
                robofjoy Robert Reid added a comment - Good for closing. It looks right. I'll try it with gage.
                robofjoy Robert Reid made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                robofjoy Robert Reid made changes -
                Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
                robofjoy Robert Reid made changes -
                Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
                robofjoy Robert Reid made changes -
                Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
                robofjoy Robert Reid made changes -
                Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
                robofjoy Robert Reid made changes -
                Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
                robofjoy Robert Reid made changes -
                Resolution Done [ 10000 ]
                Status Post-merge Testing In Progress [ 10003 ] Closed [ 6 ]

                  People

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

                    • Created:
                      Updated:
                      Resolved: