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  1. IGB
  2. IGBF-3448

Report edgeR and DESeq2 temperature-only DE genes from SL4 and SL5

        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

          For this task:

          • Complete Markdowns documenting / executing different temperature, same genotype and treatment duration DE analysis for SL5 annotations using edgeR and DESeq2
          • Do the same for SL4 annotations
          • Rename Markdowns (if necessary) to indicate both the method (edgeR or DESeq2) and the genome assembly annotations used (SL4 or SL5)
          • Make sure the data files written out for the SL5 analyses contain a column with SL4 gene names, if available
          • Migrate volcano plot code to Common.R and show padj cutoff on the y axis
          • Add volcano plots to edgeR and DESeq2 Markdowns to visualize DE results

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              Task - A task that needs to be done. IGBF-3455 Visualize log fold-changes and p values to compare edgeR and DESeq2 results

              • Major - Major loss of function.
              • Closed

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                  • Assignee:
                    ann.loraine Ann Loraine
                    Reporter:
                    ann.loraine Ann Loraine
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                    • Created:
                      Updated:
                      Resolved: