generate_mappings: The 'boilerplate' for this package's desired graph style

In KEGGlincs: Visualize all edges within a KEGG pathway and overlay LINCS data

Description

Generates an object that can be converted to a JSON file and subsequently applied to the graph for the markup specified by this package and the layout mirroring KEGG. Intended for use within cyto_vis

Usage

generate_mappings(style_name, map_edge_width, edge_width_attribute,
  min_score, max_score)

Arguments

style_name	An argument to name style; when used inside of cyto_vis no name is needed
map_edge_width	A logical indicator; if FALSE no continuous mapping of edge width will be applied
edge_width_attribute	The attribute that will be used for edge width; if data is not added or the attribute is not part of the graphing information, the edge width will default to 1.
min_score	The minimum attribute value for the column used to map edge width
max_score	The maximum attribute value for the column used to map edge width

Value

A list that can be converted to a JSON file to apply desired style/layout in Cytoscape

Examples

style.name = "myKEGGstyle"
mappings <- generate_mappings(style.name, FALSE)

KEGGlincs documentation built on Nov. 8, 2020, 5:47 p.m.