compute_drug_response_scores {DrDimont}

Calculate drug response score

Description

This function takes the differential graph (generated in generate_differential_score_graph), the a drug targets object (containing target node names and drugs and their targets; generated in determine_drug_targets) and the supplied drug-target interaction table (formatted in make_drug_target) to calculate the differential drug response score. The score is the mean or median of all differential scores of the edges adjacent to all drug target nodes of a particular drug.

Usage

compute_drug_response_scores(differential_graph, drug_targets, settings)

Arguments

differential_graph

iGraph graph object containing differential scores for all edges. (output of generate_differential_score_graph)

drug_targets

[list] Named list containing two elements ('target_nodes' and 'drugs_to_target_nodes'). 'targets' from output of determine_drug_targets. 'target_nodes' is a vector containing network node names of the nodes that are targeted by the available drugs. 'drugs_to_target_nodes' is a dictionary-like list that maps drugs to the nodes that they target.

settings

[list] A named list containing pipeline settings. The settings list has to be initialized by drdimont_settings. Items in the named list can be adjusted as desired.

Value

Data frame containing drug name and associated differential (integrated) drug response score

Examples

data(drug_target_edges_example)
data(differential_graph_example)

example_settings <- drdimont_settings()

example_drug_response_scores <- compute_drug_response_scores(
                                    differential_graph=differential_graph_example,
                                    drug_targets=drug_target_edges_example$targets,
                                    settings=example_settings)