load_VCF_Canvas_Manta: Merged Canvas and Manta VCF parsing function

In caravagn/TINC: TINC - Tumour-in-Normal contamination assessment

Merged Canvas and Manta VCF parsing function

Description

Parse a VCF file merged from Canvas and Manta, which stores a list of segments with absolute CNA events, and tumour purity.

The obtained data, together with mutation calls (loaded elsewhere) can be used to call function autofit.

Usage

load_VCF_Canvas_Manta(file)

Arguments

file	VCF filename.

Value

A named list with the calls and tumour purity.

Examples

# not run
## Not run: 
 load_VCF_Canvas_Manta("Myfile.vcf")

## End(Not run)

caravagn/TINC documentation built on April 28, 2024, 7:42 a.m.