summarizeLoci: Locus Summaries
In strataG: Summaries and Population Structure Analyses of Genetic Data

Description Usage Arguments Value Author(s) Examples

View source: R/summarizeLoci.R

Compile standard by-locus summaries.

1	summarizeLoci(g, by.strata = FALSE)

`g`	a gtypes object.
`by.strata`	logical. If `TRUE`, return a list of summary matrices for each stratum.

A matrix with rows for each locus and columns containing summaries of:

num.genotyped: The number of samples genotyped
prop.genotyped: The proportion of samples genotyped
num.alleles: The number of alleles in the locus
allelic.richness: The allelic richness of the locus
prop.unique.alleles: Proportion of alleles found in a single sample
expt.heterozygosity: Expected heterozygosity
obsvd.heterozygosity: Observed heterozygosity

Eric Archer eric.archer@noaa.gov

data(msats.g)
msats.g <- stratify(msats.g, "fine")

summarizeLoci(msats.g)

strataG documentation built on Feb. 28, 2020, 9:07 a.m.

strataG index

Package overview README.md Creating and Manipulating gtypes Objects Genotype and sequence summaries Installing External Programs Tests of population structure Working With Sequences

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