readHeinzTree: Convert HEINZ output to tree

In assaron/BioNet: Routines for the functional analysis of biological networks

Description

Converts the HEINZ output to a tree in graph format. If the output is in matrix form, it will create a list of graphs. The function needs the node and edge file and the original network from which the module is calculated.

Usage

readHeinzTree(node.file, edge.file, network, format=c("graphNEL", "igraph"))

Arguments

node.file	Heinz node output file.
edge.file	Heinz edge output file.
network	Original network from which Heinz input was created.
format	Output format of the graph, either igraph or graphNEL.

Value

A graph object.

Author(s)

Daniela Beisser

Examples

library(DLBCL)
data(interactome)
# precomputed Heinz output files
## Not run: lib <- file.path(.path.package("BioNet"), "extdata") 
module <- readHeinzTree(node.file=file.path(lib, "lymphoma_nodes_001.txt.0.hnz"), edge.file=file.path(lib, "lymphoma_edges_001.txt.0.hnz"), network=interactome, format="graphNEL");
plotModule(module);

## End(Not run)

assaron/BioNet documentation built on Sept. 18, 2020, 12:02 a.m.