distance: Calculate genetic distance from genealogy or VAF

In heavywatal/tumorr: R interface to tumopp, a tumor growth simulator in C++

Calculate genetic distance from genealogy or VAF

Description

Calculate genetic distance from genealogy or VAF

Usage

dist_genealogy(graph, cell_ids)

dist_vaf(vaf, ncell = Inf)

pairwise_distances(graph, regions)

Arguments

graph	igraph
cell_ids	id column of sampled regions
vaf	data.frame or matrix. e.g., output from make_vaf().
ncell	number of cells per specimen
regions	output of sample_uniform_regions()

Details

dist_genealogy summarizes branch lengths within/between regions.

dist_vaf summarizes diversity within/between regions.

pairwise_distances summarizes physical and genetic distances.

See Also

fst()

heavywatal/tumorr documentation built on April 2, 2024, 7:24 p.m.