extract_labels: Extracts isolate names from VCF file

In gnrobinson/cloneR: Identifying clonal groups to aid clone correction in population-based studies

Extracts isolate names from VCF file

Description

This function calculates the euclidean distance from ancestry matrices (Q). It assigns isolates to groups using a pairwise distance of 0 (+/- 1 SD). These membership groups are then plotted (if plot = TRUE) as a network and output as a membership table at each specified K value.

Usage

extract_labels(file)

Arguments

file	Unzipped VCF file

Value

List of isolate names

Examples

extract_labels("example.vcf")

gnrobinson/cloneR documentation built on Feb. 8, 2024, 7:46 a.m.