scoreGsea: Gene Expression Signature Similarity based on GSEA

In zhilongjia/scorePage: Gene Expression Signature Similarity based on Parametric Analysis of Gene Set Enrichment

Description

Gene Expression Signature Similarity based on Gene Set Enrichment Analysis

Usage

scoreGsea(dat, top = 250, type = c("avg", "max"))

scoreGseam(dat, top = 250, type = c("avg", "max"), ncore = 2,
  verbose = FALSE)

Arguments

dat	gene rank matrix or data.frame
top	top genes selected
type	avg or max
ncore	the number of cores used
verbose	verbose

Examples

data(Psoriasis_Etanercept_LogFC)
Psoriasis_Etanercept_rank <- apply(-Psoriasis_Etanercept_LogFC, 2, rank)

sim <- scoreGsea(Psoriasis_Etanercept_rank, type="avg")
sim <- scoreGseam(Psoriasis_Etanercept_rank, type="avg", ncore=2)

zhilongjia/scorePage documentation built on May 4, 2019, 11:22 p.m.