inst/doc/opt51.md

In genepop: Population Genetic Data Analysis Using Genepop

Sub-option 1: Allele and genotype frequencies

This option provides basic information on the data set. The output file is saved in the file yourdata.INF. For each locus in each sample, several variables are calculated:

• allele frequencies.

• observed and expected genotype proportions.

• $F_\mathrm{IS}$ estimates for each allele following @WeirC84.

• global estimate of $F_\mathrm{IS}$ over alleles according to @WeirC84 (W&C) and @RobertsonH84 (R&H).

• observed and “expected” numbers of homozygotes and heterozygotes. “Expected” here means the expected numbers, conditional on observed allelic counts, under HW equilibrium; the difference from naive products of observed allele frequencies is sometimes called Levene’s correction, after\index{Levene's correction} @Levene49.

• the genotypic matrix.

A table of allele frequencies for each locus and for each sample is also computed.

genepop documentation built on Jan. 22, 2023, 1:07 a.m.