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Gene Set Enrichment Analyses (GSEA)

You masteurize the ORA, now we propose to investigate with a second method of gene set annotation called "Gene Set Enrichment Analysis" and you can learn more about GSEA in the reference manual.

Do it yourself!

Render your RMD/QMD

To complete this week you'll need to :

  • 1. Retrieve the annotation table [TO DO]
  • 2. Perform the GSEA based on the database
  • 3. Visualise the result (top 3 per cluster), Describe the GSEA plots
  • 4. Create a dataframe with all results for every cluster
  • 5. How many gene sets are significantly associated with each cluster ?

IMPORTANT

Please note you must be explicative in your cutoff choices and provide detailed explanations for each step of your thought process In general, try to explain in your own words for each step of your analysis!

Add your RMD/QMD in your Trello card. You can also add the html version of your rapport.

Thank you for your attention and see you next week 👏 👏 👏