fst: Calculate F_ST from matrix

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

Calculate F_ST from matrix

Description

Calculate F_ST from matrix

Usage

fst(m, sample_sizes = NULL)

gst(m, sample_sizes = NULL)

pairwise_fst(m, sample_sizes = NULL)

Arguments

m	matrix output from dist_genealogy() or dist_vaf()
sample_sizes	cell numbers of each region

Details

fst calculates Hudson's F_ST estimator.

• theta: Weir and Cockerham (1984); Weir and Hill (2002).

• N_ST: Lynch and Crease (1990).

• <F_ST>: Hudson, Slatkin, and Maddison (1992) Genetics.

gst calculates Nei's F_ST estimator.

• G_ST, gamma_ST: Nei (1973, 1977, 1982).

• K_ST: Hudson, Boos, and Kaplan (1992) MBE.

See Also

dist_genealogy()

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