Build PPI Network — BuildPPINetwork • cccn.cfn.tools

Uses all inputted database information on protein-protein interactions in order to create a combined PPI-network usingall inputted data.

BuildPPINetwork(
  string.edges = NA,
  gm.network = NA,
  db.filepaths = c(),
  ppi.network.name = "ppi.network"
)

Arguments

gm.network: network produced by GeneMANIA if that was used; defaults to NA
db.filepaths: vector of filepaths to data from other databases; defaults to empty vector
ppi.network.name: desired name of the output ppi network; defaults to "ppi.network"
cccn.matrix: dataframe of dataframes that represent the common clusters from the three distance calculations' clusters

Value

A data frame of combined edges from STRINGdb and provided database entries

Examples

gmpath <- "genemania-interactions.txt"
pack <- "cccn.cfn.tools"
gmfile <- system.file("genemania", gmpath, package = pack, mustWork = TRUE)
cccn.cfn.tools:::ex.FindPPIEdges(ex.cccn.matrix, ppi.network.name = "ex.ppi.network")
#> [1] "ex.ppi.network"