| drug_target_edges_example {DrDimont} | R Documentation |
Drug target nodes in combined network
Description
Exemplary intermediate pipeline output: Drug targets detected in the combined
graphs. A named list with elements 'targets' and 'edgelists'. This was created with
determine_drug_targets using the combined_graphs_example
and:
Usage
drug_target_edges_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 'groupA' and 'groupB' (bool 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.
- edgelists
Contains elements 'groupA' and 'groupB' containing each a data frame of edges adjacent to drug target nodes each. Each edgelist data frame contains columns 'from', 'to' and 'weight'.
Details
drug_target_interactions <- make_drug_target(target_molecules='protein',
interaction_table=drug_gene_interactions,
match_on='gene_name')
Drug-gene interactions to calculate this output were used from The Drug Gene Interaction Database.
Source
The Drug Gene Interaction Database: https://www.dgidb.org/