list_cancer_types: List cancer types that are available

In ytakemon/GINIR: Genetic inteRaction and EssenTiality neTwork mApper

List cancer types that are available

Description

list_cancer_types() and list_cancer_subtypes() provide tools for identifying cancer (sub)types that are available in DepMap.

Usage

list_cancer_types(data_dir)

list_cancer_subtypes(input_disease, data_dir)

Arguments

data_dir	string Path to GINIR_data
input_disease	string A vector of unique with one or more cancer types listed in list_cancer_types()

Value

string A vector containing unique cancer types available

Functions

• list_cancer_subtypes(): List cancer subtypes that are available

Examples

gretta_data_dir <- './GRETTA_example/'
gretta_output_dir <- './GRETTA_example_output/'

if(!dir.exists(gretta_data_dir)){
  download_example_data(".")
}

list_cancer_types(data_dir = gretta_data_dir)

gretta_data_dir <- './GRETTA_example/'
gretta_output_dir <- './GRETTA_example_output/'

list_cancer_subtypes('Lung Cancer', data_dir = gretta_data_dir)

ytakemon/GINIR documentation built on Feb. 27, 2024, 1:33 p.m.