create3Dnetwork: Create 3D network view for transomics visualization.

In ecell/transomics2cytoscape: A tool set for 3D Trans-Omic network visualization with Cytoscape

Create 3D network view for transomics visualization.

Description

Import multiple KEGG pathways and integrate the pathways into Cy3D renderer

Usage

create3Dnetwork(networkDataDir, networkLayers, 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 4 columns (layer index, the network file name in networkDataDir, Z-height of the network, whether to interact not only with the nodes of each network layer but also with the edges).
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)
networkLayers <- system.file("extdata/usecase1", "yugi2014.tsv",
    package = "transomics2cytoscape")
stylexml <- system.file("extdata/usecase1", "yugi2014.xml",
    package = "transomics2cytoscape")
suid <- create3Dnetwork(networkDataDir, networkLayers, stylexml)

## End(Not run)

ecell/transomics2cytoscape documentation built on Nov. 3, 2024, 9:21 p.m.