PerformPSEA: Function to perform peak set enrichment analysis

In xia-lab/MetaboAnalystR: An R Package for Comprehensive Analysis of Metabolomics Data

Function to perform peak set enrichment analysis

Description

This is the main function that performs either the mummichog algorithm, GSEA, or both for peak set enrichment analysis.

Usage

PerformPSEA(mSetObj=NA, lib, libVersion, minLib, permNum = 100)

Arguments

mSetObj	Input the name of the created mSetObj object.
lib	Input the name of the organism library, default is hsa_mfn.
libVersion	Input the version of the KEGG pathway libraries ("current" or "old").
minLib	Numeric, input the minimum number of metabolites needed to consider the pathway or metabolite set.
permNum	Numeric, input the number of permutations to perform. Default is 100.

Author(s)

Jasmine Chong, Jeff Xia [e-mail] McGill University, Canada License: GNU GPL (>= 2)

xia-lab/MetaboAnalystR documentation built on Dec. 23, 2024, 3:44 p.m.