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The model included sequence, period, and treatment as fixed effects.
Factors incorporated in the model included sequence, period, and treatment as fixed effects, and subject (sequence) as a random effect.
The ANCOVA model included sequence, treatment, and period as fixed effects, and subject nested within sequence as a random effect.
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Both the test and null model included sequencing platform to discount changes introduced by library construction.
The neighborhood information used in our model includes sequence profile, secondary structure, and solvent accessibility, in a window of size 11.
Then we propose an SVM model including sequence and structural information; the results show the method significantly outperforms the existing methods based on pure geometry or only combining evolutionary conservation.
Key features of the model include sequence-dependent changeovers and flexible intermediate storage requirements typically arising in industrial manufacturing problems.
RIP dominance [ 20] was calculated using a variety of comparative models including: sequence of highest G C content; alignment majority consensus and; consensus sequence predicted by deRIP (Additional file 5).
More complex models, including sequence-specific or site-specific error rates, can readily be derived by the same approach.
Efficacy parameters were analyzed using an analysis of variance (ANOVA) model that included sequence, period, and treatment as fixed factors and patient within sequence as a random factor.
The model employed for this study included sequence, period, and treatment as fixed effects and subjects (nested within sequence) as the random effects.
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