Table 6 |
||||
| Logistic regression model of polymorphism of SNPs (true-positive and false-positive) and several related SNP filtering criteria: log (p/(1-p)) = b0 + b1*X1 + b2*X2 + b3*X3, where p is the probability of an SNP belonging to a false-positive | ||||
| Term | Estimates of coefficients | Std error | χ2 | Prob > χ2 |
| Intercept | 10.3976899 (b0) | 0.7025 | 219.05 | <0.0001*** |
| MQS (X1) | −0.3077982 (b1) | 0.0197 | 244.83 | <0.0001*** |
| RMD (X2) | 0.07896269 (b2) | 0.003 | 699.67 | <0.0001*** |
| FVF (X3) | −5.2585503 (b3) | 0.3871 | 184.57 | <0.0001*** |
MQS: SNP mapping quality score; RMD: read mapping depth; FVF: folded variant frequency. *** represents statistical significance at a 0.001 probability level.
You et al. BMC Genomics 2012 13:354 doi:10.1186/1471-2164-13-354
