Comments (4)
Removing the nested term lets me specify the formula
BoundsError: attempt to access 20683×1109 Matrix{Float64} at index
Hi! It seems that your data have missing values. The last version of Metida does not work with missing data yet. Try to filter your data and try without missing values.
from metida.jl.
This is the full model I want to specify
"/" syntax not implemented yet. You can use 2 random factors for this: (1 | Subject ) + (1 | Subject & Protein)
You can see that it equal:
MixedModels
julia> fm4a = fit(MixedModel, @formula(strength ~ 1 + (1|batch/cask)), pastes, REML = true)
Linear mixed model fit by REML
strength ~ 1 + (1 | batch) + (1 | batch & cask)
REML criterion at convergence: 246.99074585344238
Variance components:
Column Variance Std.Dev.
batch & cask (Intercept) 8.433665 2.904077
batch (Intercept) 1.657311 1.287366
Residual 0.678000 0.823408
Number of obs: 60; levels of grouping factors: 30, 10
Fixed-effects parameters:
─────────────────────────────────────────────────
Coef. Std. Error z Pr(>|z|)
─────────────────────────────────────────────────
(Intercept) 60.0533 0.67687 88.72 <1e-99
─────────────────────────────────────────────────
Metida
lmm = Metida.LMM(@formula(strength~1), pastes;
random = [Metida.VarEffect(Metida.@covstr(1|batch), Metida.SI),
Metida.VarEffect(Metida.@covstr(1|batch&cask), Metida.SI)]
)
Metida.fit!(lmm)
Linear Mixed Model: strength ~ 1
Random 1:
Model: 1|batch
Type: SI (1), Subjects: 10
Random 2:
Model: 1|batch & cask
Type: SI (1), Subjects: 30
Repeated:
Model: 1|1
Type: SI (1)
Blocks: 10, Maximum block size: 6
Status: converged (No Errors)
-2 logREML: 246.991 BIC: 259.223
Fixed-effects parameters:
Name Estimate SE z Pr(>|z|)
(Intercept) 60.0533 0.67687 88.7221 0.0
Variance components:
θ vector: [1.28736, 2.90408, 0.823408]
Random 1 σ² var 1.6573
Random 2 σ² var 8.43368
Residual σ² var 0.678001
from metida.jl.
Ultimately I want to obtain pairwise contrasts from my model.
To get estimates you can use estimate(lmm, l::AbstractVector; level = 0.95, name = "Estimate")
, this function availabe in version 0.11 on master brunch now, not released yet.
L vector you should make manually.
from metida.jl.
I closed this issue. Don't hesitate to ask any questions. Try version 0.11 :)
from metida.jl.
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from metida.jl.