lilikoi.PDSfun: A PDSfun Function

Description Usage Arguments Value Examples

View source: R/lilikoi.PDSfun.r

Description

This function allows you to compute Pathway Desregulation Score deriving make sure that you have the below database for the metabolites and pathway list: meta_path.RData

Usage

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Arguments

qvec

This is the Metabolite_pathway_table from MetaTOpathway function. This table includes the metabolites ids and the its corssponding hmdb ids

Value

A large matrix of the pathway deregulation scores for each pathway in different samples.

Examples

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dt <- lilikoi.Loaddata(file=system.file("extdata",
  "plasma_breast_cancer.csv", package = "lilikoi"))
Metadata <- dt$Metadata
dataSet <- dt$dataSet
# convertResults=lilikoi.MetaTOpathway('name')
# Metabolite_pathway_table = convertResults$table
# PDSmatrix= lilikoi.PDSfun(Metabolite_pathway_table)

lilikoi documentation built on Jan. 15, 2021, 3:32 p.m.