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specify output object with visualizations #18

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wolski opened this issue Dec 12, 2019 · 0 comments
Open

specify output object with visualizations #18

wolski opened this issue Dec 12, 2019 · 0 comments

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@wolski
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wolski commented Dec 12, 2019 •
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Inputs and outputs

What are the parameters and what are the return values common to all gsea and ora tools?

  • Input:
    list protein gene id list with scores (GSEA), sublists (ORA). Their lengths, organism.
    geneSets
  • return:
  • Gene Set Database.
  • Geneset ID.
  • Geneset Name,
  • proteins from geneset matched
  • proteins from geneset not matched, etc.
  • enrichments score,
  • p-value,
  • q-Value;

Default vizualisations

Rmarkdown report for ORA and GSEA.

How to compare outputs of various ora gsea tools?
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@wolski