Get STRINGdb PPI data

This function finds protein-protein interaction weights by consulting utilizing the STRINGdb database.

Usage

GetSTRINGdb.edges(gene.cccn.edges, gene.cccn.nodes)

Arguments

gene.cccn.edges

A dataframe showing interactions relationships between proteins using common PTM clusters derived from three distance metrics (Euclidean, Spearman, and Combined (SED))

gene.cccn.nodes

A list of nodes that are in the Gene CoCluster Correlation Network derived from common clusters between the three distance metrics (Euclidean, Spearman, and Combined (SED))

Value

Data frame of consisting of the network of interactions from the genes of study pulled from the STRINGdb database and a list of gene names

Details

The full example takes ~10 minutes to load, so it has been commented out and the results are displayed.

Examples

# GetSTRINGdb(ex.gene.cccn)
utils::head(ex.stringdb.edges)
#> Error: object 'ex.stringdb.edges' not found
utils::head(ex.nodenames)
#> Error: object 'ex.nodenames' not found