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For binary traits, however, LMM is a misspecified model and can lead to deteriorated performance.
For binary traits, the variance explained is computed based on the liability threshold model.
For binary traits, we used unconditional logistic regression, adjusted for the same covariates.
The dependent model can adopt four states, one for each combination of the two binary traits.
Binary traits were treated as continuous in our correlation analyses and results should be interpreted as relative proportions.
LOCate accurately estimated LOD curves for individual simulated pedigrees with binary traits (Figure S2) and trichotomous traits (Figure 4).
Though a quantitative trait linkage method, this model is also applicable for binary traits such as TB and PTST-.
DISCRETE tests for correlated evolution between two binary traits by comparing the fit of two continuous-time Markov models.
The GMDR analysis was carried out only for the binary traits, as GMDR analysis is not applicable to ordinal traits.
We notice that a similar method of Zhu et al. [30] can also perform association tests for binary traits in combined samples.
The proposed "multiple-trait case-control study" employing several binary traits is analogous to traditional cohort studies in which the incidence of multiple quantitative traits are ascertained.
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