GSEA.CollapseDataset: Maps user supplied identifiers to Gene Symbols

In GSEA-MSigDB/GSEA_R: Gene Set Enrichment Analysis (GSEA)

Description

'GSEA.CollapseDataset' applies a .CHIP file to the dataset to gene symbols using a specified collapse function

Usage

GSEA.CollapseDataset(dataplatform, gct, collapse.mode)

Arguments

dataplatform	Dataframe returned by 'GSEA.ReadCHIPFile'
gct	Dataframe returned by 'GSEA.Gct2Frame' after processing to remove unnecessary GCT header fields
collapse.mode	Method for collapsing the dataset, accepts "max", "median", "mean", "sum", (default: NOCOLLAPSE)

Details

Internal 'GSEA' function invoked if collapse.dataset == TRUE.

Value

Gene by sample matrix converted into the namespace specified by the applied CHIP file

GSEA-MSigDB/GSEA_R documentation built on Nov. 30, 2021, 4:50 a.m.