P_likelihood: Compute likelihoods for populations of origin

Description Usage Arguments Value

View source: R/RcppExports.R

Description

Compute likelihoods for populations of origin

Usage

1
P_likelihood(snp_zeroes, snp_ones, genos, lambda)

Arguments

snp_zeroes

Matrix of counts of the "zero" allele at L SNPs in P populations. This is an L x P integer matrix where L is the number of SNP loci and P is the number of populations in the baseline. The observed number of 0 alleles at locus j in population p is snp_zeroes[j,p]

snp_ones

Same as above, but for the 1 allele at each SNP.

genos

Matrix of the genotypes of N individuals at each of the L loci. Genotypes are represented as the number of "1" alleles. This is an L x N integer matrix. The genotype of the ith individual at the locus j is genos(j,i).

lambda

The parameter of the beta distribution for the frequency of the "1" allele.

Value

Returns a P x N numeric matrix which contains the the probabilities the individuals originate from certain populations. The probability that the ith originated from population p is ouput(p,i).


eriqande/SNPcontam documentation built on May 13, 2017, 8:20 p.m.