create3Dnetwork {transomics2cytoscape} | R Documentation

## Create 3D network view for transomics visualization.

### Description

Import multiple KEGG pathways and integrate the pathways into Cy3D renderer

### Usage

    create3Dnetwork(networkDataDir, networkLayers, transomicEdges, stylexml)

### Arguments

`networkDataDir` | Path of a directory to put the network files of the second column of networkLayers TSV.
`networkLayers` | Path of a TSV file with the 3 columns (layer index, the network file name in networkDataDir, Z-height of the network).
`transomicEdges` | Path of a TSV file with the 5 columns (layer index of a source node, name or KEGG object ID that the source node should have, layer index of a target node, name or KEGG object ID that the target node should have, interaction type).
`stylexml` | Path of a XML file for Cytoscape style

### Value

A SUID of the 3D network.

### Author(s)

Kozo Nishida

### Examples

    ## Not run:
    networkDataDir <- tempfile(); dir.create(networkDataDir)
    sif <- system.file("extdata","galFiltered.sif",package="RCy3")
    file.copy(sif, networkDataDir)
    networkLayers <- system.file("extdata", "networkLayers.tsv",
        package = "transomics2cytoscape")
    transomicEdges <- system.file("extdata", "transomicEdges.tsv",
        package = "transomics2cytoscape")
    stylexml <- system.file("extdata", "transomics.xml",
        package = "transomics2cytoscape")
    create3Dnetwork(networkDataDir, networkLayers, transomicEdges, stylexml)

    ## End(Not run)

[Package transomics2cytoscape version 1.0.0 Index]