Haplotyping level | GBS | MACE | WGS | |
---|---|---|---|---|
RMSE | SNP level | – | 0.07 | 0.15 |
GH level | 0.11 | 0.04 | 0.03 | |
MH level | 0.06 | 0.04 | 0.03 | |
Contig level | 0.03 | 0.04 | 0.03 | |
Stat test negative binomial level | SNP level | – | 0.67 | 0.02 |
GH level | 0.35 | 0.99 | 0.57 | |
MH level | 0.47 | 0.94 | 0.39 | |
Contig level | 0.59 | 0.28 | 0.46 | |
Stat test zero inflated level | SNP level | – | 0.68 | 0.09 |
GH level | 0.15 | 0.64 | 0.64 | |
MH level | 0.62 | 0.67 | 0.63 | |
Contig level | 0.44 | 0.62 | 0.53 | |
Pearson Residual width | SNP level | – | 3.85% | 3.37% |
GH level | 3.78% | 3.70% | 3.49% | |
MH level | 3.77% | 3.89% | 3.40% | |
Contig level | 3.60% | 3.92% | 3.95% | |
Pearson correlation | SNP level | – | 0.79 | 0.93 |
GH level | 0 | 0.9 | 0.97 | |
MH level | 0.83 | 0.93 | 0.96 | |
Contig level | 0.94 | 0.88 | 0.95 | |
Median read coverage of haplotypes in pool sample per KASP marker | SNP level | 41 | 51 | 7 |
GH level | 51 | 82 | 607 | |
MH level | 575 | 158 | 7749 | |
Contig level | 10,122 | 917 | 81,186 | |
Count of matched KASP markers to pool seq | SNP level | 1 | 19 | 11 |
GH level | 15 | 16 | 15 | |
MH level | 17 | 17 | 17 | |
Contig level | 19 | 19 | 19 |