I have TCGA data for RNA expression for breast cancer samples (log2 normalised fpkm values) and I want to perform GSEA on it to look which gene sets are enriched in cancer samples vs normal samples. Which is the best platform to perform GSEA with RNA-seq software? Which will better, the software by Broad Institute (http://software.broadinstitute.org/gsea/index.jsp) or the R package fgsea (https://bioconductor.org/packages/release/bioc/html/fgsea.html)?
Question: Gene Set Enrichment Analysis with RNA-seq data
14 months ago by
deepak18 • 10
deepak18 • 10 wrote:
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