An article published in GenomeBiology presents KIN: a tool to estimate relatedness of a pair of individuals from low coverage ancient DNA samples, incorporating additional models to adjust for contamination and improve classification accuracy.
For our simulations of background diversity, we form a population with constant effective size of 10,000 and sample eight diploid individuals from 2500 generations ago . For each individual, we simulate 22 chromosomes with lengthper base pair per generation. We introduce mutations using an infinite sites model with rateFor the pedigree simulations, we first simulate a recombined set of chromosomes for either parent, and combine them to create the progeny.
), by simulating regions of homozygosity in unrelated individuals with a Markov chain using the transition matrix:
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