Why the result of GSEA and ssGSEA is different?
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7 months ago
Raheleh ▴ 200

Hi all, I have microarray data of two conditions.

When I did GSEA using fgsea the signature/ geneset was significantly higher in group1 vs group2.

However, when I did ssGSEA and used boxplot to show and assess significancy, that signature it is not significantly enriched in group1?

Can anyone told me how it can be explained? When you would use either approach?

Many thanks!

ssgsea gsea • 230 views
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