Technical note: anomaly detection for breed purity analysis in pigs using a single breed genotype panel

Recent advancements in genotyping technologies have revolutionized our ability to estimate breed composition in pigs. The classical compositional regression used for this purpose requires a multibreed panel to detect crossbreeding and its application is limited to breeds in the panel. Some breed entities may not have access to the multibreed panel but may have access to a single breed panel. We present crossbreeding detection methods based on semi-supervised anomaly detection techniques that use a single-breed genotype panel from purebred animals of interest. By utilizing these methods, we identified and assessed breed outliers within large pig genotype panels.