Evaluation of the accuracy of imputed sequence variant genotypes and their utility for causal variant detection in cattle

Table 2 Cross-validation imputation accuracy in Fleckvieh and Holstein cattle

Breed	Within-breed reference populations			Multi-breed reference populations
Breed	Fimpute	Minimac _BG	Minimac _DOS	Fimpute	Minimac _BG	Minimac _DOS
Fleckvieh	0.898 (0.674)	0.908 (0.735)	0.934 (0.771)	0.921 (0.774)	0.916 (0.812)	0.939 (0.838)
Holstein	0.912 (0.681)	0.929 (0.772)	0.951 (0.798)	0.926 (0.732)	0.928 (0.797)	0.948 (0.820)

The values represent the correlation between true and imputed genotypes. The correlation between true and imputed genotypes for sequence variants with a minor allele frequency lower than 10% is given in parentheses. BG best-guess, DOS allele dosage

ISSN: 1297-9686