Performance Testing on Real Population Data:
1000G phase 3 from data was used to test ROHMM ’s inference
capabilities on real population data. ROHMM was run with
parameters used to test the simulated data performance. Inferred
homozygosity within subpopulations were compared against the inbreeding
coefficient calculated via the method of moments estimator usingPLINK het and in-house script. Meta analysis of inferences also
included comparison of different ROH categories among different sub and
super populations as indicated by others (Keller, Visscher, & Goddard,
2011; Magi et al., 2014; Narasimhan et al., 2016; Pemberton et al.,
2012). Inferred ROHs were also compared against the heterozygosity
measure as mentioned by Samuels and colleagues (Samuels et al., 2016).