integrinMediatedCellAdhesion {graph} | R Documentation

## KEGG Integrin Mediated Cell Adhesion graph

### Description

A graph representing the integrin-mediated cell adhesion pathway from KEGG, as well as a list of attributes for use in plotting the graph with `Rgraphviz`.

### Usage

    data(integrinMediatedCellAdhesion)

### Details

The `integrinMediatedCellAdhesion` data set contains two objects:

The first is `IMCAGraph`, which is an object of class `graph-NEL` and represents the hsa04510 graph from `KEGG`.

The second is `IMCAAttrs`, which is a list of four elements. The first element, `defAttrs` corresponds to the `attrs` arguments of `agopen` and `plot.graph`. The second element is `nodeAttrs` which corresponds to the `nodeAttrs` argument in the same two functions from `Rgraphviz`. The third element, `subGList` corresponds to the `subGList` argument in those functions. Lastly, the fourth element, `LocusLink` provides a named list where the names are the nodes and the values are vectors of LocusLink ID values which correspond to those nodes.

The values from `defAttrs`, `nodeAttrs` and `subGList` in the `IMCAAttrs` list are part of an ongoing attempt by Bioconductor to provide the set of options to most accurately recreate the actual visual image of the pathway from the KEGG site using `Rgraphviz`. Users may try out their own combination of attributes and settings for their own needs, but these represent our own efforts at as closely recreating the image as possible.

### Source

http://www.genome.ad.jp/kegg/pathway/hsa/hsa04510.html

### Examples

    data(integrinMediatedCellAdhesion)
    if (require("Rgraphviz") & interactive())
      plot(IMCAGraph, attrs=IMCAAttrs$defAttrs,
           nodeAttrs=IMCAAttrs$nodeAttrs, subGList=IMCAAttrs$subGList)

[Package graph version 1.58.2 Index]