drug_targets_example: Drug target nodes in combined network

In molnet-org/molnet: Predicting Differential Drug Response using Multi-Omics Networks

Description

Exemplary intermediate pipeline output: Drug targets detected in the combined graphs. A named list with elements 'drug_targets' and 'edgelist'. This was created from determine_drug_targets using the default settings given by molnet_settings. Drug-gene interactions to calculate this output were used from The Drug Gene Interaction Database.

Usage

drug_targets_example

Format

A named list with 2 items.

targets

A named list

target_nodes

data frame with column 'node_id' (unique node IDs in the graph targeted by drugs) and columns 'group1' and 'group2' (boolean values specifying whether the node is contained in the combined graph of the group)

drugs_to_target_nodes

Element 'drugs_to_target_nodes' contains a named list mapping drug names to a vector of their target node IDs.

edgelist

Contains elements 'group1' and 'group2' containing each a data frame of edges adjacent to drug target nodes each. Each edgelist data frame contains columns 'from', 'to' and 'weight'.

Source

The Drug Gene Interaction Database: https://www.dgidb.org/

molnet-org/molnet documentation built on Dec. 21, 2021, 8:59 p.m.