Table 2.
Description of total genotyped animals with a mixture of different density SNP arrays before and after the quality control (QC) procedure
| Raw Data1 | QC Data2 | ||||
|---|---|---|---|---|---|
| # Animals | # SNP | # Animals | #Animals_HPS3 | # SNP | |
| 50K SNP array | 64 | 54,166 | 88 | 0 | 42,264 |
| 24 | 54,209 | ||||
| 27K SNP array | 380 | 25,856 | 790 | 1 | 8,126 |
| 14 | 25,948 | ||||
| 96 | 25,890 | ||||
| 326 | 25,887 | ||||
| 20K SNP array | 396 | 19,642 | 379 | 0 | 7,945 |
| 9K SNP array | 391 | 8,727 | 909 | 226 | 6,754 |
| 185 | 8,781 | ||||
| 344 | 8,777 | ||||
| 3K SNP array | 1,944 | 2,866 | 1,739 | 925 | 2,727 |
| 197 | 2,877 | ||||
| 96 | 2,882 | ||||
1
Total number of genotyped animals (4,457) before the QC procedure.
2
Final number of genotyped animals (3,902) after the QC procedure.
3
Number of animals with HPS records genotyped with the different arrays after QC procedure.