Skip to main content

Table 6 Parameters tested for genotype calling and imputation from an HD array

From: Fast imputation using medium or low-coverage sequence data

Dataset Sequenced population Array genotypes
SNVs Population size Sequence read depth Error rate (%) HD information included SNPs/SNVs Population size
Bovine (simulated) 1,000,000 250 1×, 2×, 4×, 8×, 16× 0, 1, 4, 16 No 20,000 250
Yes 20,000 250
500 1×, 2×, 4×, 8×, 16× 0, 1, 4, 16 Yes 20,000 250
1000 1×, 2×, 4×, 8×, 16× 0, 1, 4, 16 Yes 20,000 250
10,000 1×, 2× 1 Yes 20,000 250
1000 1 Yes 3333 250
1000 1 Yes 1× sequence 250
2× sequence 250
Human (chromosome 22) 394,724 884 1×, 2×, 4×, 8×, 16× 0, 1, 4, 16 Yes 39,440 218