exportCytoGML: Writes out an igraph graph to a Cytoscape readable GML file.

In RamiGO: AmiGO visualize R interface

Description

Takes the igraph object edited in adjM2gml() and writes it to a GML file that is readable by Cytoscape.

Usage

exportCytoGML(graph, filename)

Arguments

graph	igraph graph (for example from adjM2gml()).
filename	output filename.

Author(s)

Markus Schroeder <[e-mail]>

Benjamin Haibe-Kains <[e-mail]>

Examples

## set GO ID's and color
goIDs <- c("GO:0051130","GO:0019912","GO:0005783")
color <- c("lightblue","red","yellow")

dd <- getAmigoTree(goIDs=goIDs,color=color,
  filename="example",picType="dot",saveResult=FALSE)
tt <- readAmigoDot(object=dd)

## exportCytoGML is called inside adjM2gml
#adjM2gml(adjMatrix(tt),relations(tt)$color,
#  annot(tt)$fillcolor,annot(tt)$GO_ID,
#  annot(tt)$description,"example")

RamiGO documentation built on May 2, 2018, 3:30 a.m.