gbs.diversity: GBS diversity.

In trife/gbs: Tools for Genotyping-By-Sequencing Data

Description

Calculates different measures of diveristy in a gbs object.

Usage

gbs.diversity(hap, popGroups = NULL, maf.thresh = 0.05, graph = F,
  het = "H", missing = "N")

Arguments

hap	The gbs object to manipulate.
popGroups	A data frame with two columns, where first column contain the names of individuals and second column contain the corresponding group (numeric) of population to which each individual belongs to.
graph	A logical option to graph the percent polymorphism.
het	The symbol(s) used for heterozygous calls.
missing	The symbol(s) used for missing calls.

Value

A list containing the Nei's genetic diversity and FST of the individuals

Author(s)

Narinder Singh, [e-mail]

Trevor Rife, [e-mail]

Examples

data(wheat)
gbs.diversity(hap,graph=T)

trife/gbs documentation built on May 31, 2019, 7:53 p.m.