check_performances: check_performances

In Shamir-Lab/PRODIGY: Personalized prioritization of driver genes

check_performances

Description

This function calculates mean precision, recall and F1 of the results provided by PRODIGY against a gold standard driver list

Usage

check_performances(ranked_genes_lists, snv_matrix, gold_standard_drivers)

Arguments

ranked_genes_lists	A named list of ranked drivers for each patient.
snv_matrix	A binary matrix with genes in rows and patients on columns. 1=mutation. All genes must be contained in the global PPI network.
gold_standard_drivers	A list of known driver genes to be used as gold standard for validation.

Examples

data(gold_standard_drivers)
check_performances(results,snv_matrix,gold_standard_drivers)

Shamir-Lab/PRODIGY documentation built on March 27, 2022, 5:29 p.m.