Toe nail data. Binary probit models featuring fixed interceptsα, treatment effects β1, time effects β2, and time-treatment interactions β3are compared. Random intercept (RI) and random intercept/random slope (RI + RS) models were estimated by the Laplace (L) and Adaptive Gauss-Hermite Quadrature (AGQ) approximations to the likelihood (implemented in packages lme4and glmmTMB). In addition, the exact discrete log-likelihood (2.6) was used for model fitting and evaluation (the in-sample log-likelihood (2.6) for all models and timings of all procedures are given in the last two lines)
| . | RI . | . | RI + RS . | ||||
|---|---|---|---|---|---|---|---|
| . | glmer . | glmer . | glmmTMB . | . | glmer . | glmmTMB . | . |
| L | AGQ | L | (2.6) | L | L | (2.6) | |
| α | –3.39 | –0.91 | –1.10 | 0.91 | –4.30 | –4.30 | 1.58 |
| β1 | –0.03 | –0.11 | –0.17 | –0.11 | 0.05 | 0.05 | 0.27 |
| β2 | –0.22 | –0.19 | –0.19 | –0.19 | –0.07 | –0.07 | –0.53 |
| β3 | –0.07 | –0.06 | –0.06 | –0.06 | –0.23 | –0.23 | –0.18 |
| γ1 | 4.57 | 2.12 | 2.10 | 2.11 | 10.88 | 11.01 | 5.22 |
| γ2 | 0.00 | 0.00 | 0.00 | 0.00 | –1.64 | –1.68 | –0.37 |
| γ3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.79 | 0.83 | 0.53 |
| LogLik | –675.22 | –637.34 | –638.54 | –637.34 | –628.12 | –630.65 | –545.12 |
| Time (s) | 3.83 | 2.40 | 2.04 | 2.20 | 7.53 | 3.44 | 8.08 |
| . | RI . | . | RI + RS . | ||||
|---|---|---|---|---|---|---|---|
| . | glmer . | glmer . | glmmTMB . | . | glmer . | glmmTMB . | . |
| L | AGQ | L | (2.6) | L | L | (2.6) | |
| α | –3.39 | –0.91 | –1.10 | 0.91 | –4.30 | –4.30 | 1.58 |
| β1 | –0.03 | –0.11 | –0.17 | –0.11 | 0.05 | 0.05 | 0.27 |
| β2 | –0.22 | –0.19 | –0.19 | –0.19 | –0.07 | –0.07 | –0.53 |
| β3 | –0.07 | –0.06 | –0.06 | –0.06 | –0.23 | –0.23 | –0.18 |
| γ1 | 4.57 | 2.12 | 2.10 | 2.11 | 10.88 | 11.01 | 5.22 |
| γ2 | 0.00 | 0.00 | 0.00 | 0.00 | –1.64 | –1.68 | –0.37 |
| γ3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.79 | 0.83 | 0.53 |
| LogLik | –675.22 | –637.34 | –638.54 | –637.34 | –628.12 | –630.65 | –545.12 |
| Time (s) | 3.83 | 2.40 | 2.04 | 2.20 | 7.53 | 3.44 | 8.08 |
Toe nail data. Binary probit models featuring fixed interceptsα, treatment effects β1, time effects β2, and time-treatment interactions β3are compared. Random intercept (RI) and random intercept/random slope (RI + RS) models were estimated by the Laplace (L) and Adaptive Gauss-Hermite Quadrature (AGQ) approximations to the likelihood (implemented in packages lme4and glmmTMB). In addition, the exact discrete log-likelihood (2.6) was used for model fitting and evaluation (the in-sample log-likelihood (2.6) for all models and timings of all procedures are given in the last two lines)
| . | RI . | . | RI + RS . | ||||
|---|---|---|---|---|---|---|---|
| . | glmer . | glmer . | glmmTMB . | . | glmer . | glmmTMB . | . |
| L | AGQ | L | (2.6) | L | L | (2.6) | |
| α | –3.39 | –0.91 | –1.10 | 0.91 | –4.30 | –4.30 | 1.58 |
| β1 | –0.03 | –0.11 | –0.17 | –0.11 | 0.05 | 0.05 | 0.27 |
| β2 | –0.22 | –0.19 | –0.19 | –0.19 | –0.07 | –0.07 | –0.53 |
| β3 | –0.07 | –0.06 | –0.06 | –0.06 | –0.23 | –0.23 | –0.18 |
| γ1 | 4.57 | 2.12 | 2.10 | 2.11 | 10.88 | 11.01 | 5.22 |
| γ2 | 0.00 | 0.00 | 0.00 | 0.00 | –1.64 | –1.68 | –0.37 |
| γ3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.79 | 0.83 | 0.53 |
| LogLik | –675.22 | –637.34 | –638.54 | –637.34 | –628.12 | –630.65 | –545.12 |
| Time (s) | 3.83 | 2.40 | 2.04 | 2.20 | 7.53 | 3.44 | 8.08 |
| . | RI . | . | RI + RS . | ||||
|---|---|---|---|---|---|---|---|
| . | glmer . | glmer . | glmmTMB . | . | glmer . | glmmTMB . | . |
| L | AGQ | L | (2.6) | L | L | (2.6) | |
| α | –3.39 | –0.91 | –1.10 | 0.91 | –4.30 | –4.30 | 1.58 |
| β1 | –0.03 | –0.11 | –0.17 | –0.11 | 0.05 | 0.05 | 0.27 |
| β2 | –0.22 | –0.19 | –0.19 | –0.19 | –0.07 | –0.07 | –0.53 |
| β3 | –0.07 | –0.06 | –0.06 | –0.06 | –0.23 | –0.23 | –0.18 |
| γ1 | 4.57 | 2.12 | 2.10 | 2.11 | 10.88 | 11.01 | 5.22 |
| γ2 | 0.00 | 0.00 | 0.00 | 0.00 | –1.64 | –1.68 | –0.37 |
| γ3 | 0.00 | 0.00 | 0.00 | 0.00 | 0.79 | 0.83 | 0.53 |
| LogLik | –675.22 | –637.34 | –638.54 | –637.34 | –628.12 | –630.65 | –545.12 |
| Time (s) | 3.83 | 2.40 | 2.04 | 2.20 | 7.53 | 3.44 | 8.08 |
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