run_PARIS: Main function to run PARIS pipeline

In sbenfatto/PARIS: PAn-canceR Inferred Synthetic lethalities (PARIS), a machine learning-based approach to predict cancer vulnerabilities

Description

Main function to run PARIS pipeline

Usage

run_PARIS(
  imp.score = c("raw", "Gini", "Ginicorrected"),
  omic = c("mutation", "expression"),
  outdir,
  genelist_dep,
  genelist_feat
)

Arguments

imp.score	importance score methods; NB raw/Gini for Boruta; Ginicorrected RF
omic	Features data to use: Expression or Mutation
outdir	Write Boruta/Random Forest Feature selection models and selected gene paris in the outdir
genelist_dep	Gene names vector to use as response variables (dependency scores), ALL if NULL
genelist_feat	Gene names vector to use as features (Expression or Mutation), ALL if NULL

Value

Write Boruta/Random Forest Feature selection models and selected gene paris in the outdir

sbenfatto/PARIS documentation built on March 21, 2021, 4:39 a.m.