Heterozygote calling in significantly inbred populations

Abstract

1. Introduction 1. Introduction 2. Model 3. Implementation 4. Example References Realising the potential of large genetic resources requires the ability to perform genotyping efficiently. In populations with tens or hundreds of thousands of SNP markers, it is infeasible to assign genotypes manually; this must be done automatically. This problem is generally solved by the application of mixture models [Xiao et al., 2007, Teo et al., 2007].\n\nWe describe a marker calling method able to correctly identify marker heterozygotes, in large populations generated according to some experimental design; e.g. the Collaborative Cross [Threadgill and Churchill, 2012] or MAGIC [Huang et al., 2015]. Identifying marker heterozygotes is of substantial value in these populations, which are substant ...