Table 5 Comparison of hapConstructor and logistic regression characteristics in multilocus modeling
Characteristic | hapConstructor software | Standard logistic regression procedure | Stepwise logistic regression procedure |
|---|---|---|---|
Integrated phase estimation and building of haplotypes from genotype data | Yes | No; specialized software required | No; specialized software required |
Systematically model all 2 to n-locus haplotypes within a gene | Yes | Yes, with additional programming | Yes, with additional programming |
Systematically model mode of inheritance (dominant, recessive, additive) | Yes | Yes, with additional programming | Yes, with additional programming |
Systematically model all SNP combinations across genes | Yes | No | No |
User-specified significance levels | Yes; can vary for single locus to n loci | Yes | Yes |
Model simultaneous covariates | No | Yes | Yes |
Multiple testing correction | Yes (FDR) | Yes (add-on procedure) | Yes (add-on procedure) |
Runtime (excluding additional operator programming time) | Slow to adequate | Fast | Fast |