categoryCompare (version 1.16.2)

cytOutNodes-methods: Methods for Function cytOutNodes

Description

Allows export of currently selected nodes in the Cytoscape window for data export

Methods

signature(descStr = "character", cwObj = "CytoscapeWindowClass", saveObj = "list")

descStr is a string describing the nodes that are currently selected, cwObj is the CytoscapeWindow that the nodes are in, and then saveObj is a previously generated cytOutNodes list, and is optional.

Examples

## Not run: 
# hasCy <- (if (.Platform$OS.type %in% "windows") { (length(grep("Cytoscape", system("tasklist", intern=TRUE))) > 0)})
# 
# if hasCy {
# 	ccResults$BP <- breakEdges(ccResults$BP, 0.8)
# 	cwObj <- ccOutCyt(ccResults$BP,ccOpts)
# 	# user selects some nodes in Cytoscape
# 	RCytoscape::selectNodes(cwObj, c("GO:0007017", "GO:0000226", "GO:0007051", "GO:0007052"))
# 	savedNodes <- cytOutNodes("random1", cwObj) # save them
# 	# and selects some other nodes
# 	RCytoscape::selectNodes(cwObj, c("GO:0071103", "GO:0034728", "GO:0006323", "GO:0030261", "GO:0006334"), preserve.current.selection=FALSE)
# 	savedNodes <- cytOutNodes("random2", cwObj, savedNodes)
# 
# 	}
# ## End(Not run)