createXGMML: createXGMML

In rsilvabioinfo/ProbMetab: Probabilistic annotation of LC-MS based metabolomics

Description

Creates a Cytoscape xgmml readable file.

Usage

  createXGMML(gr, node.label, cwName = "test",
    node.form = NULL, edge.form = NULL, attributes = NULL,
    path)

Arguments

gr	a graphNEL object generated by edge matrices provided by reac2cor.
node.label	a character vector containing the name of each node.
cwName	Cytoscape window name.
node.form	data.frame containing the names of the nodes in the first column, and TRUE/FALSE vectors for graph parameters in the additional columns. The column name should have the parameter type, color and shape and the value in the format "color.#FF0000".
edge.form	data.frame containing the names of the nodes in the first column, and TRUE/FALSE vectors for graph parameters in the additional columns. The column name should have the parameter type, color, width and style, and the value in the format "color.#FF0000".
attributes	classification table created by export.class.table function.
path	system path to save the file.

Value

Cytoscape xgmml readable file.

rsilvabioinfo/ProbMetab documentation built on May 28, 2019, 3:32 a.m.