simulate_mutation_dataset: Simulate a mutation dataset with survival annotation

In cavei/houseOfClipUtility: Clip Legacy Functions

Description

To simulate a dataset we need a real pathway.

To simulate a dataset we need a real pathway.

Usage

makeTheMutationDataset(pathway, impacted_genes, patients_fractions, ann,
  omicName = "x", mutation_rate = 0.001, mut_cliques_genes = NULL)

makeUniformMutationsDataset(pathway, ann, omicName = "x",
  mutation_rate = 0.001)

Arguments

pathway	a Pathway
impacted_genes	the genes of a module with the aberrant signal chain
patients_fractions	the fraction of patients with n mutated genes
ann	survival annotations
omicName	the name of the omics to consider
mutation_rate	the basel mutation rate
mut_cliques_genes	genes that have low mutation rate

Value

list

exprs	expression
annotation	the survival annotation
graph	a graphNEL
chain	the chain of selectP

cavei/houseOfClipUtility documentation built on May 12, 2019, 5:23 p.m.