Uploaded image for project: 'IGB'
  1. IGB
  2. IGBF-3348

Create sample sheet with SRA names for mature pollen and seedling dataset

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None
        • Story Points:
          0.5
        • Epic Link:
        • Sprint:
          Summer 2 2023 May 29, Summer 3 2023 June 12, Summer 4 2023 June 26, Summer 5 2023 July 10, Summer 6 2023 July 24

          Description

          Now that our pollen and seedling data are submitted to SRA, we are planning to download and re-run our nf-core rnaseq pipeline on the data as it exists in the SRA. Then, we will deploy the newly re-run data to IGB Quickload for users to view and explore. To re-deploy the data we need a new sample sheet that uses SRA names instead of our project-specific names.

          For this task, create a new sample spreadsheet named for the project name which uses the new SRA names.

          See the linked ticket IGBF-3254 for a mapping between original fastq file names and new SRA names.

            Attachments

              Issue Links

              relates to

              Task - A task that needs to be done. IGBF-3254 Submit Johnson lab mature pollen and tomato seedling data to SRA

              • Major - Major loss of function.
              • Closed

                Activity

                No work has yet been logged on this issue.

                  People

                  • Assignee:
                    Mdavis4290 Molly Davis
                    Reporter:
                    ann.loraine Ann Loraine
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    2 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: