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reactome / ReactomeGSA

R client for the REACTOME Analysis Service for comparative multi-omics gene set analysis
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Obtaining features from `perform_reactome_analysis` function #74

Closed ejc043 closed 1 year ago

ejc043 commented 1 year ago

Hello Reactome GSA team! Thank you for the wonderful product. How would we be able to identify the actual features that contributed to pathway enrichment? Would we be able to make a new column from the pathways() output containing the genes that contributed to the enrichment?

jgriss commented 1 year ago

Hi @ejc043

Thanks a lot for your feedback! Is this question still relevant or was it resolved?

ejc043 commented 1 year ago

Hello! I think I saw on the discussion to click the link to the reactome webpage and click the excel spreadsheet. Unfortunately i didn’t find an excel spreadsheet downing option… would you be able to help me with that? I would I be able to find the features that contributed to the pathway enrichment?

jgriss commented 1 year ago

Hi,

Sorry about the delayed response!

This Excel report is only available when submitting the analysis through the web interface. We are still working on moving this feature to the R package as well.