get_reverse_score: Compute sRGES

In AllenSpike/CPDR: Cancer Drug Personalized Recommendation (CDPR)

Compute sRGES

Description

Compute sRGES

Usage

get_reverse_score(
  dz_signature = NULL,
  max_gene_size = 500,
  LINCS_data = NULL,
  permutations = 10000
)

Arguments

dz_signature	disease signature. Make sure input data frame has a gene Symbol column, otherwise an error is produced. It must be an UPPERCASE gene symbol.
max_gene_size	maximum number of disease genes used for drug prediction. By default 50 for each side (up/down).
LINCS_data	LINCS data. By default set to NULL, which means use LINCS_978.
permutations	number of permutations, by default 10000.

Value

A data.frame containing scores and p.values for every instance. data.frame contains drug id in pert_iname collumn, n contains the number of instances for this drug, mean, median and sd of sRGES RGES sores.

AllenSpike/CPDR documentation built on April 18, 2022, 4:38 p.m.