import_network: Import network data for CandidateBacon package

In CandidateBacon: Provides a measure of the average connectedness among as set of candidate genes and a network-specific distribution of the connectedness of random gene pairs for an arbitrary network of pair wise interactions.

Description

An R data frame containing the network data is created from a file with at least two columns, i.e. all the pair wise interactions of the nodes in the network. The user specifies the two relevant columns and the information is extracted from the file.

Usage

import_network(infile, columns = c(1, 2))

Arguments

infile	file containing network data
columns	columns in the file with pairwise interactions

Details

A tab-delimited text file with the interactions is used as input. The data is extracted from the indicated columns where each line indicates a pairwise interaction between two nodes (Note: all other information in the file will be excluded and only the columns indicated will be used to construct the network). The data is formatted, and a matrix with the all interactions for each node is produced. Summary of the network features is provided.

Value

A matrix representing the network.

Examples

## Not run: 
network <- import_network("example_network_Cyt.txt")

## End(Not run)

CandidateBacon documentation built on May 2, 2019, 6:11 p.m.