dist_bray: Estimation of jaccard distance

In dyerlab/gstudio: Tools Related to the Spatial Analysis of Genetic Marker Data

Estimation of jaccard distance

Description

This function returns a measure of genetic distance based upon the AMOVA distance metric.

Usage

dist_bray(x, stratum = "Population")

Arguments

x	Either a data.frame with both stratum and locus objects in them (for strata distance) OR a vector of locus objects and this will calculate distance based upon individual genetic distances.
stratum	The name of the stratum variable in x

Value

A matrix of Jaccard distance

Author(s)

Rodney J. Dyer [e-mail]

Examples

 
AA <- locus( c("A","A") )
AB <- locus( c("A","B") )
AC <- locus( c("A","C") )
BB <- locus( c("B","B") )
BC <- locus( c("B","C") )
CC <- locus( c("C","C") )
loci <- c(AA,AA,AB,AA,BB,BC,CC,BB,BB,CC)
df <- data.frame( Population=c(rep("A",5),rep("B",5) ), TPI=loci )
D <- dist_bray(df)

dyerlab/gstudio documentation built on Feb. 2, 2024, 8:24 p.m.