Accuracy of whole-genome sequence imputation using hybrid peeling in large pedigreed livestock populations

Table 3 Factors that affect individual-wise imputation accuracy on the real data

Factor	p-value
Population size	< 0.001
Individual data
Genotyping status	< 0.001
Connectedness to the rest of population	0.031
Number of relatives genotyped with marker array
Grandparents at LD	0.707
Grandparents at HD	0.016
Parents at LD	0.059
Parents at HD	< 0.001
Progeny at LD	0.062
Progeny at HD	0.553
Grandprogeny at LD	0.926
Grandprogeny at HD	0.996
Number of relatives sequenced
Grandparents	0.003
Parents	< 0.001
Progeny	0.002
Grandprogeny	0.016
Cumulative sequencing coverage of relatives
Grandparents	0.456
Parents	0.245
Progeny	0.100
Grandprogeny	0.044

ISSN: 1297-9686