tmodLEA {tmod}

Leading Edge Analysis

Description

For each module, return a list of genes on the leading edge

Usage

tmodLEA(l, modules, mset = "all", nodups = TRUE, filter = FALSE)

Arguments

l

list of genes

modules

character vector of module IDs for which to run the LEA

mset

Which module set to use. Either a character vector ("LI", "DC" or "all", default: LI) or an object of class tmod

nodups

Remove duplicate gene names in l and corresponding rows from ranks

filter

Remove gene names which have no module assignments

Details

Given a vector of ordered gene identifiers and a vector of module IDs, for each module, return the genes which are on the up-slope of the GSEA-style evidence plot. That is, return the genes that are driving the enrichment.