Estimate Kinship and FST under Arbitrary Population Structure


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Documentation for package ‘popkin’ version 1.1.2

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popkin-package A package for estimating kinship and FST under arbitrary population structure
fst Extract FST from a population-level kinship matrix or vector of inbreeding coefficients
inbr Extract inbreeding coefficients from a kinship matrix
inbrDiag Replace kinship diagonal with inbreeding coefficients
neff Calculates the effective sample size of the data
plotPopkin Visualize one or more kinship matrices
popkin Estimate kinship from a genotype matrix and subpopulation assignments
pwfst Estimate the individual-level pairwise FST matrix
rescalePopkin Rescale kinship matrix to set a given kinship value to zero.
weightsSubpops Get weights for individuals that balance subpopulations
_PACKAGE A package for estimating kinship and FST under arbitrary population structure