From: Strategies for genotype imputation in composite beef cattle
Scenariosa | LD panel | FImpute | BEAGLE | ||
---|---|---|---|---|---|
CR%b | R2c | CR%b | R2c | ||
S1 | 3K | 75.70 | 0.59 | 66.27 | 0.44 |
6K | 87.72 | 0.79 | 80.79 | 0.68 | |
GGP9K | 88.64 | 0.81 | 82.19 | 0.70 | |
GGP20Ki | 92.43 | 0.87 | 87.50 | 0.71 | |
50K | 95.20 | 0.92 | 92.14 | 0.87 | |
GGP75Ki | 96.68 | 0.94 | 95.03 | 0.92 | |
GGP80K | 96.96 | 0.95 | 95.26 | 0.92 | |
S2 | 3K | 62.86 | 0.37 | 59.73 | 0.33 |
6K | 76.17 | 0.58 | 72.23 | 0.58 | |
GGP9K | 77.54 | 0.61 | 73.78 | 0.55 | |
GGP20Ki | 83.61 | 0.71 | 79.75 | 0.65 | |
50K | 89.55 | 0.82 | 86.66 | 0.77 | |
GGP75Ki | 92.48 | 0.87 | 90.85 | 0.84 | |
GGP80K | 93.24 | 0.88 | 91.51 | 0.85 | |
S3 | 3K | 60.21 | 0.33 | 54.83 | 0.25 |
6K | 71.46 | 0.51 | 63.00 | 0.38 | |
GGP9K | 72.93 | 0.54 | 64.15 | 0.40 | |
GGP20Ki | 79.19 | 0.65 | 69.91 | 0.49 | |
50K | 85.92 | 0.76 | 79.95 | 0.66 | |
GGP75Ki | 89.54 | 0.82 | 85.79 | 0.76 | |
GGP80K | 90.60 | 0.84 | 87.35 | 0.79 | |
S4 | 3K | 72.75 | 0.53 | 64.55 | 0.40 |
6K | 85.17 | 0.74 | 79.32 | 0.65 | |
GGP9K | 86.12 | 0.76 | 80.85 | 0.67 | |
GGP20Ki | 90.60 | 0.84 | 86.55 | 0.77 | |
50K | 94.12 | 0.90 | 91.24 | 0.85 | |
GGP75Ki | 95.94 | 0.93 | 94.36 | 0.90 | |
GGP80K | 96.28 | 0.93 | 94.53 | 0.91 | |
S5 | 3K | 77.74 | 0.62 | 68.57 | 0.47 |
6K | 89.84 | 0.83 | 83.86 | 0.73 | |
GGP9K | 90.67 | 0.84 | 85.23 | 0.75 | |
GGP20Ki | 94.15 | 0.94 | 90.23 | 0.84 | |
50K | 96.36 | 0.90 | 93.90 | 0.90 | |
GGP75Ki | 97.55 | 0.96 | 96.10 | 0.94 | |
GGP80K | 97.74 | 0.96 | 96.30 | 0.94 | |
S6 | 3K | 76.52 | 0.60 | 65.80 | 0.43 |
6K | 88.71 | 0.81 | 80.35 | 0.67 | |
GGP9K | 89.56 | 0.82 | 81.71 | 0.70 | |
GGP20Ki | 93.13 | 0.88 | 87.33 | 0.80 | |
50K | 95.60 | 0.93 | 92.23 | 0.87 | |
GGP75Ki | 96.98 | 0.95 | 95.25 | 0.92 | |
GGP80K | 97.19 | 0.95 | 95.40 | 0.92 | |
S7 | 3K | 78.69 | 0.64 | 69.06 | 0.48 |
6K | 89.98 | 0.83 | 84.16 | 0.73 | |
GGP9K | 90.76 | 0.85 | 85.42 | 0.76 | |
GGP20Ki | 94.06 | 0.90 | 90.20 | 0.84 | |
50K | 96.27 | 0.94 | 93.82 | 0.90 | |
GGP75Ki | 97.47 | 0.96 | 96.04 | 0.93 | |
GGP80K | 97.66 | 0.96 | 96.20 | 0.94 |