Table 1 Number and percentage of SNPs excluded in quality control
From: Genome-wide association analysis of feed intake and residual feed intake in Nellore cattle
Criterion | HD (SNPs) | HD (%) | 50 k (SNPs) | 50 k (%) |
|---|---|---|---|---|
Location* | 42,669 | 5.5 | 1,723 | 3.2 |
Call rate | 104,602 | 13.4 | 9,253 | 16.9 |
MAF | 173,564 | 22.3 | 13,728 | 25.1 |
HWE | 20,529 | 2.6 | 16,740 | 3.1 |
Total | 341,374 | 43.9 | 26,378 | 48.3 |