PlotSubpathway: PlotSubpathway

In ICDS: Identification of Cancer Dysfunctional Subpathway with Omics Data

PlotSubpathway

Description

PlotSubpathway:plot a network graph when user input a list of gene

Usage

PlotSubpathway(
  subpID,
  pathway.name,
  zz,
  Pathway = "kegg",
  layout = layout.fruchterman.reingold
)

Arguments

subpID	gene list of a interested subpathway
pathway.name	name of the interested subpathway
zz	z-score of each gene
Pathway	the name of the pathway database
layout	The layout specification(layout_). It must be a call to a layout specification function.

Value

Network graph

Examples

require(graphite)

subpID<-unlist(strsplit("ACSS1/ALDH3B2/ADH1B/ADH1A/ALDH2/DLAT/ACSS2","/"))
pathway.name="Glycolysis / Gluconeogenesis"
zzz<- GetExampleData("zzz")
PlotSubpathway(subpID=subpID,pathway.name=pathway.name,zz=zzz)

ICDS documentation built on Sept. 11, 2024, 6:32 p.m.