create_TDAmut_object: Creates object of class TDAmut to use throughout pipeline

In CamaraLab/TDA-TCGA: An R package for identification of relevant genetic alterations in cancer using topological data analysis

Description

Creates object of class TDAmut to use throughout pipeline

Usage

create_TDAmut_object(exp_table, mut_table, samples_to_exclude = NULL)

Arguments

exp_table	transcriptomic data from cohort with format samples x genes
mut_table	mutation data from cohort as a data.frame with columns Sample, Gene, Mutation, Type
samples_to_use	optional list of samples names to excluded from the analysis

Value

Creates a TDAmut object populated with expression data, mutation data, and data frames of nonsynonymous mutations, synonymous mutations, and mutational load of samples

CamaraLab/TDA-TCGA documentation built on Oct. 30, 2021, 5:14 p.m.