tests/testthat/_snaps/glmmTMB.md
In easystats/parameters: Processing of Model Parameters
print-model_parameters glmmTMB
Code
out[-5]
Output
[1] "# Fixed Effects"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "----------------------------------------------------------------"
[5] "child | -1.09 | 0.10 | [-1.28, -0.90] | -11.09 | < .001"
[6] "camper [1] | 0.27 | 0.10 | [ 0.07, 0.47] | 2.70 | 0.007 "
print-model_parameters glmmTMB digits
Code
out[-c(5, 14)]
Output
[1] "# Fixed Effects (Count Model)"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "--------------------------------------------------------------------------"
[5] "child | -1.0875 | 0.0981 | [-1.27967, -0.89528] | -11.0901 | < .001"
[6] "camper [1] | 0.2723 | 0.1009 | [ 0.07461, 0.46999] | 2.6997 | 0.007 "
[7] ""
[8] "# Fixed Effects (Zero-Inflation Component)"
[9] ""
[10] "Parameter | Log-Odds | SE | 95% CI | z | p"
[11] "-----------------------------------------------------------------------"
[12] "(Intercept) | 1.8896 | 0.6642 | [ 0.58780, 3.19147] | 2.8449 | 0.004"
[13] "camper [1] | -0.1701 | 0.3869 | [-0.92836, 0.58822] | -0.4396 | 0.660"
[14] ""
[15] "# Random Effects Variances"
[16] ""
[17] "Parameter | Coefficient | 95% CI"
[18] "---------------------------------------------------------------"
[19] "SD (Intercept: persons) | 3.4056 | [ 1.64567, 7.04777]"
[20] "SD (xb: persons) | 1.2132 | [ 0.59190, 2.48650]"
[21] "Cor (Intercept~xb: persons) | -1.0000 | [-1.00000, 1.00000]"
[22] ""
[23] "# Random Effects (Zero-Inflation Component)"
[24] ""
[25] "Parameter | Coefficient | 95% CI"
[26] "---------------------------------------------------------------"
[27] "SD (Intercept: persons) | 2.7358 | [ 1.16329, 6.43414]"
[28] "SD (zg: persons) | 1.5683 | [ 0.64246, 3.82852]"
[29] "Cor (Intercept~zg: persons) | 1.0000 | [-1.00000, 1.00000]"
Code
out[-c(5, 14)]
Output
[1] "# Fixed Effects (Count Model)"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "--------------------------------------------------------------------------"
[5] "child | -1.0875 | 0.0981 | [-1.27967, -0.89528] | -11.0901 | < .001"
[6] "camper [1] | 0.2723 | 0.1009 | [ 0.07461, 0.46999] | 2.6997 | 0.007 "
[7] ""
[8] "# Fixed Effects (Zero-Inflation Component)"
[9] ""
[10] "Parameter | Log-Odds | SE | 95% CI | z | p"
[11] "-----------------------------------------------------------------------"
[12] "(Intercept) | 1.8896 | 0.6642 | [ 0.58780, 3.19147] | 2.8449 | 0.004"
[13] "camper [1] | -0.1701 | 0.3869 | [-0.92836, 0.58822] | -0.4396 | 0.660"
[14] ""
[15] "# Random Effects Variances"
[16] ""
[17] "Parameter | Coefficient | 95% CI"
[18] "---------------------------------------------------------------"
[19] "SD (Intercept: persons) | 3.4056 | [ 1.64567, 7.04777]"
[20] "SD (xb: persons) | 1.2132 | [ 0.59190, 2.48650]"
[21] "Cor (Intercept~xb: persons) | -1.0000 | [-1.00000, 1.00000]"
[22] ""
[23] "# Random Effects (Zero-Inflation Component)"
[24] ""
[25] "Parameter | Coefficient | 95% CI"
[26] "---------------------------------------------------------------"
[27] "SD (Intercept: persons) | 2.7358 | [ 1.16329, 6.43414]"
[28] "SD (zg: persons) | 1.5683 | [ 0.64246, 3.82852]"
[29] "Cor (Intercept~zg: persons) | 1.0000 | [-1.00000, 1.00000]"
print-model_parameters glmmTMB CI alignment
Code
print(mp)
Output
# Random Effects: conditional
Parameter | Coefficient | 95% CI
----------------------------------------------------------------
SD (Intercept: Session:Participant) | 0.27 | [0.08, 0.87]
SD (Intercept: Participant) | 0.38 | [0.16, 0.92]
# Random Effects: zero_inflated
Parameter | Coefficient | 95% CI
----------------------------------------------------------------
SD (Intercept: Session:Participant) | 0.69 | [0.40, 1.19]
SD (Intercept: Participant) | 2.39 | [1.25, 4.57]
Message
Uncertainty intervals for random effect variances computed using a
Wald z-distribution approximation.
Code
print(mp)
Output
# Fixed Effects
Parameter | Log-Mean | SE | 95% CI | z | p
---------------------------------------------------------------------
(Intercept) | 2.12 | 0.30 | [ 1.53, 2.71] | 7.05 | < .001
Surface [Lingual] | 0.01 | 0.29 | [-0.56, 0.58] | 0.04 | 0.971
Surface [Occlusal] | 0.54 | 0.22 | [ 0.10, 0.98] | 2.43 | 0.015
Side [Anterior] | 0.04 | 0.32 | [-0.58, 0.66] | 0.14 | 0.889
Side [Left] | -0.04 | 0.20 | [-0.44, 0.37] | -0.17 | 0.862
Jaw [Maxillar] | -0.10 | 0.21 | [-0.51, 0.30] | -0.51 | 0.612
# Zero-Inflation
Parameter | Log-Odds | SE | 95% CI | z | p
----------------------------------------------------------------------
(Intercept) | 4.87 | 0.93 | [ 3.04, 6.69] | 5.23 | < .001
Surface [Lingual] | 0.93 | 0.34 | [ 0.27, 1.60] | 2.75 | 0.006
Surface [Occlusal] | -1.01 | 0.29 | [-1.59, -0.44] | -3.45 | < .001
Side [Anterior] | -0.20 | 0.37 | [-0.93, 0.52] | -0.55 | 0.583
Side [Left] | -0.38 | 0.27 | [-0.91, 0.14] | -1.44 | 0.151
Jaw [Maxillar] | 0.59 | 0.24 | [ 0.11, 1.07] | 2.42 | 0.016
# Dispersion
Parameter | Coefficient | 95% CI
----------------------------------------
(Intercept) | 2.06 | [1.30, 3.27]
Message
Uncertainty intervals (equal-tailed) and p-values (two-tailed) computed
using a Wald z-distribution approximation.
print-model_parameters
Code
mp
Output
# Fixed Effects
Parameter | Log-Mean | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 1.26 | 0.48 | [ 0.33, 2.19] | 2.66 | 0.008
child | -1.14 | 0.09 | [-1.32, -0.96] | -12.27 | < .001
camper [1] | 0.73 | 0.09 | [ 0.55, 0.92] | 7.85 | < .001
# Zero-Inflation
Parameter | Log-Odds | SE | 95% CI | z | p
---------------------------------------------------------------
(Intercept) | -0.39 | 0.65 | [-1.67, 0.89] | -0.60 | 0.551
child | 2.05 | 0.31 | [ 1.45, 2.66] | 6.63 | < .001
camper [1] | -1.01 | 0.32 | [-1.64, -0.37] | -3.12 | 0.002
Code
mp
Output
# Fixed Effects
Parameter | IRR | SE | 95% CI | z | p
----------------------------------------------------------
(Intercept) | 3.54 | 1.68 | [1.39, 8.98] | 2.66 | 0.008
child | 0.32 | 0.03 | [0.27, 0.38] | -12.27 | < .001
camper [1] | 2.08 | 0.19 | [1.73, 2.50] | 7.85 | < .001
# Zero-Inflation
Parameter | Odds Ratio | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 0.68 | 0.44 | [0.19, 2.43] | -0.60 | 0.551
child | 7.80 | 2.42 | [4.25, 14.32] | 6.63 | < .001
camper [1] | 0.36 | 0.12 | [0.19, 0.69] | -3.12 | 0.002
Code
mp
Output
# Fixed Effects (Count Model)
Parameter | Log-Mean | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 1.26 | 0.48 | [ 0.33, 2.19] | 2.66 | 0.008
child | -1.14 | 0.09 | [-1.32, -0.96] | -12.27 | < .001
camper [1] | 0.73 | 0.09 | [ 0.55, 0.92] | 7.85 | < .001
# Fixed Effects (Zero-Inflation Component)
Parameter | Log-Odds | SE | 95% CI | z | p
---------------------------------------------------------------
(Intercept) | -0.39 | 0.65 | [-1.67, 0.89] | -0.60 | 0.551
child | 2.05 | 0.31 | [ 1.45, 2.66] | 6.63 | < .001
camper [1] | -1.01 | 0.32 | [-1.64, -0.37] | -3.12 | 0.002
# Random Effects Variances
Parameter | Coefficient | 95% CI
----------------------------------------------------
SD (Intercept: persons) | 0.93 | [0.46, 1.89]
# Random Effects (Zero-Inflation Component)
Parameter | Coefficient | 95% CI
----------------------------------------------------
SD (Intercept: persons) | 1.17 | [0.54, 2.57]
easystats/parameters documentation built on April 27, 2024, 7:28 p.m.
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print-model_parameters glmmTMB
Code
out[-5]
Output
[1] "# Fixed Effects"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "----------------------------------------------------------------"
[5] "child | -1.09 | 0.10 | [-1.28, -0.90] | -11.09 | < .001"
[6] "camper [1] | 0.27 | 0.10 | [ 0.07, 0.47] | 2.70 | 0.007 "
print-model_parameters glmmTMB digits
Code
out[-c(5, 14)]
Output
[1] "# Fixed Effects (Count Model)"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "--------------------------------------------------------------------------"
[5] "child | -1.0875 | 0.0981 | [-1.27967, -0.89528] | -11.0901 | < .001"
[6] "camper [1] | 0.2723 | 0.1009 | [ 0.07461, 0.46999] | 2.6997 | 0.007 "
[7] ""
[8] "# Fixed Effects (Zero-Inflation Component)"
[9] ""
[10] "Parameter | Log-Odds | SE | 95% CI | z | p"
[11] "-----------------------------------------------------------------------"
[12] "(Intercept) | 1.8896 | 0.6642 | [ 0.58780, 3.19147] | 2.8449 | 0.004"
[13] "camper [1] | -0.1701 | 0.3869 | [-0.92836, 0.58822] | -0.4396 | 0.660"
[14] ""
[15] "# Random Effects Variances"
[16] ""
[17] "Parameter | Coefficient | 95% CI"
[18] "---------------------------------------------------------------"
[19] "SD (Intercept: persons) | 3.4056 | [ 1.64567, 7.04777]"
[20] "SD (xb: persons) | 1.2132 | [ 0.59190, 2.48650]"
[21] "Cor (Intercept~xb: persons) | -1.0000 | [-1.00000, 1.00000]"
[22] ""
[23] "# Random Effects (Zero-Inflation Component)"
[24] ""
[25] "Parameter | Coefficient | 95% CI"
[26] "---------------------------------------------------------------"
[27] "SD (Intercept: persons) | 2.7358 | [ 1.16329, 6.43414]"
[28] "SD (zg: persons) | 1.5683 | [ 0.64246, 3.82852]"
[29] "Cor (Intercept~zg: persons) | 1.0000 | [-1.00000, 1.00000]"
Code
out[-c(5, 14)]
Output
[1] "# Fixed Effects (Count Model)"
[2] ""
[3] "Parameter | Log-Mean | SE | 95% CI | z | p"
[4] "--------------------------------------------------------------------------"
[5] "child | -1.0875 | 0.0981 | [-1.27967, -0.89528] | -11.0901 | < .001"
[6] "camper [1] | 0.2723 | 0.1009 | [ 0.07461, 0.46999] | 2.6997 | 0.007 "
[7] ""
[8] "# Fixed Effects (Zero-Inflation Component)"
[9] ""
[10] "Parameter | Log-Odds | SE | 95% CI | z | p"
[11] "-----------------------------------------------------------------------"
[12] "(Intercept) | 1.8896 | 0.6642 | [ 0.58780, 3.19147] | 2.8449 | 0.004"
[13] "camper [1] | -0.1701 | 0.3869 | [-0.92836, 0.58822] | -0.4396 | 0.660"
[14] ""
[15] "# Random Effects Variances"
[16] ""
[17] "Parameter | Coefficient | 95% CI"
[18] "---------------------------------------------------------------"
[19] "SD (Intercept: persons) | 3.4056 | [ 1.64567, 7.04777]"
[20] "SD (xb: persons) | 1.2132 | [ 0.59190, 2.48650]"
[21] "Cor (Intercept~xb: persons) | -1.0000 | [-1.00000, 1.00000]"
[22] ""
[23] "# Random Effects (Zero-Inflation Component)"
[24] ""
[25] "Parameter | Coefficient | 95% CI"
[26] "---------------------------------------------------------------"
[27] "SD (Intercept: persons) | 2.7358 | [ 1.16329, 6.43414]"
[28] "SD (zg: persons) | 1.5683 | [ 0.64246, 3.82852]"
[29] "Cor (Intercept~zg: persons) | 1.0000 | [-1.00000, 1.00000]"
print-model_parameters glmmTMB CI alignment
Code
print(mp)
Output
# Random Effects: conditional
Parameter | Coefficient | 95% CI
----------------------------------------------------------------
SD (Intercept: Session:Participant) | 0.27 | [0.08, 0.87]
SD (Intercept: Participant) | 0.38 | [0.16, 0.92]
# Random Effects: zero_inflated
Parameter | Coefficient | 95% CI
----------------------------------------------------------------
SD (Intercept: Session:Participant) | 0.69 | [0.40, 1.19]
SD (Intercept: Participant) | 2.39 | [1.25, 4.57]
Message
Uncertainty intervals for random effect variances computed using a
Wald z-distribution approximation.
Code
print(mp)
Output
# Fixed Effects
Parameter | Log-Mean | SE | 95% CI | z | p
---------------------------------------------------------------------
(Intercept) | 2.12 | 0.30 | [ 1.53, 2.71] | 7.05 | < .001
Surface [Lingual] | 0.01 | 0.29 | [-0.56, 0.58] | 0.04 | 0.971
Surface [Occlusal] | 0.54 | 0.22 | [ 0.10, 0.98] | 2.43 | 0.015
Side [Anterior] | 0.04 | 0.32 | [-0.58, 0.66] | 0.14 | 0.889
Side [Left] | -0.04 | 0.20 | [-0.44, 0.37] | -0.17 | 0.862
Jaw [Maxillar] | -0.10 | 0.21 | [-0.51, 0.30] | -0.51 | 0.612
# Zero-Inflation
Parameter | Log-Odds | SE | 95% CI | z | p
----------------------------------------------------------------------
(Intercept) | 4.87 | 0.93 | [ 3.04, 6.69] | 5.23 | < .001
Surface [Lingual] | 0.93 | 0.34 | [ 0.27, 1.60] | 2.75 | 0.006
Surface [Occlusal] | -1.01 | 0.29 | [-1.59, -0.44] | -3.45 | < .001
Side [Anterior] | -0.20 | 0.37 | [-0.93, 0.52] | -0.55 | 0.583
Side [Left] | -0.38 | 0.27 | [-0.91, 0.14] | -1.44 | 0.151
Jaw [Maxillar] | 0.59 | 0.24 | [ 0.11, 1.07] | 2.42 | 0.016
# Dispersion
Parameter | Coefficient | 95% CI
----------------------------------------
(Intercept) | 2.06 | [1.30, 3.27]
Message
Uncertainty intervals (equal-tailed) and p-values (two-tailed) computed
using a Wald z-distribution approximation.
print-model_parameters
Code
mp
Output
# Fixed Effects
Parameter | Log-Mean | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 1.26 | 0.48 | [ 0.33, 2.19] | 2.66 | 0.008
child | -1.14 | 0.09 | [-1.32, -0.96] | -12.27 | < .001
camper [1] | 0.73 | 0.09 | [ 0.55, 0.92] | 7.85 | < .001
# Zero-Inflation
Parameter | Log-Odds | SE | 95% CI | z | p
---------------------------------------------------------------
(Intercept) | -0.39 | 0.65 | [-1.67, 0.89] | -0.60 | 0.551
child | 2.05 | 0.31 | [ 1.45, 2.66] | 6.63 | < .001
camper [1] | -1.01 | 0.32 | [-1.64, -0.37] | -3.12 | 0.002
Code
mp
Output
# Fixed Effects
Parameter | IRR | SE | 95% CI | z | p
----------------------------------------------------------
(Intercept) | 3.54 | 1.68 | [1.39, 8.98] | 2.66 | 0.008
child | 0.32 | 0.03 | [0.27, 0.38] | -12.27 | < .001
camper [1] | 2.08 | 0.19 | [1.73, 2.50] | 7.85 | < .001
# Zero-Inflation
Parameter | Odds Ratio | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 0.68 | 0.44 | [0.19, 2.43] | -0.60 | 0.551
child | 7.80 | 2.42 | [4.25, 14.32] | 6.63 | < .001
camper [1] | 0.36 | 0.12 | [0.19, 0.69] | -3.12 | 0.002
Code
mp
Output
# Fixed Effects (Count Model)
Parameter | Log-Mean | SE | 95% CI | z | p
----------------------------------------------------------------
(Intercept) | 1.26 | 0.48 | [ 0.33, 2.19] | 2.66 | 0.008
child | -1.14 | 0.09 | [-1.32, -0.96] | -12.27 | < .001
camper [1] | 0.73 | 0.09 | [ 0.55, 0.92] | 7.85 | < .001
# Fixed Effects (Zero-Inflation Component)
Parameter | Log-Odds | SE | 95% CI | z | p
---------------------------------------------------------------
(Intercept) | -0.39 | 0.65 | [-1.67, 0.89] | -0.60 | 0.551
child | 2.05 | 0.31 | [ 1.45, 2.66] | 6.63 | < .001
camper [1] | -1.01 | 0.32 | [-1.64, -0.37] | -3.12 | 0.002
# Random Effects Variances
Parameter | Coefficient | 95% CI
----------------------------------------------------
SD (Intercept: persons) | 0.93 | [0.46, 1.89]
# Random Effects (Zero-Inflation Component)
Parameter | Coefficient | 95% CI
----------------------------------------------------
SD (Intercept: persons) | 1.17 | [0.54, 2.57]
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