Generate data for brms models to be passed to Stan
make_standata(
formula,
data,
family = gaussian(),
prior = NULL,
data2 = NULL,
autocor = NULL,
cov_ranef = NULL,
sample_prior = c("no", "yes", "only"),
stanvars = NULL,
knots = NULL,
check_response = TRUE,
only_response = FALSE,
control = list(),
...
)An object of class formula,
brmsformula, or mvbrmsformula (or one that can
be coerced to that classes): A symbolic description of the model to be
fitted. The details of model specification are explained in
brmsformula.
An object of class data.frame (or one that can be coerced
to that class) containing data of all variables used in the model.
A description of the response distribution and link function to
be used in the model. This can be a family function, a call to a family
function or a character string naming the family. Every family function has
a link argument allowing to specify the link function to be applied
on the response variable. If not specified, default links are used. For
details of supported families see brmsfamily. By default, a
linear gaussian model is applied. In multivariate models,
family might also be a list of families.
A named list of objects containing data, which
cannot be passed via argument data. Required for some objects
used in autocorrelation structures to specify dependency structures.
(Deprecated) An optional cor_brms object
describing the correlation structure within the response variable (i.e.,
the 'autocorrelation'). See the documentation of cor_brms for
a description of the available correlation structures. Defaults to
NULL, corresponding to no correlations. In multivariate models,
autocor might also be a list of autocorrelation structures.
It is now recommend to specify autocorrelation terms directly
within formula. See brmsformula for more details.
A list of matrices that are proportional to the (within)
covariance structure of the group-level effects. The names of the matrices
should correspond to columns in data that are used as grouping
factors. All levels of the grouping factor should appear as rownames of the
corresponding matrix. This argument can be used, among others to model
pedigrees and phylogenetic effects. See
vignette("brms_phylogenetics") for more details.
Indicate if samples from priors should be drawn
additionally to the posterior samples (defaults to "no"). Among
others, these samples can be used to calculate Bayes factors for point
hypotheses via hypothesis. Please note that improper priors
are not sampled, including the default improper priors used by brm.
See set_prior on how to set (proper) priors. Please also note
that prior samples for the overall intercept are not obtained by default for
technical reasons. See brmsformula how to obtain prior samples
for the intercept. If sample_prior is set to "only", samples
are drawn solely from the priors ignoring the likelihood, which allows among
others to generate samples from the prior predictive distribution. In this
case, all parameters must have proper priors.
An optional stanvars object generated by function
stanvar to define additional variables for use in
Stan's program blocks.
Optional list containing user specified knot values to be used
for basis construction of smoothing terms. See
gamm for more details.
Logical; check validity of the response?
Logical; extract data related to the response only?
A named list currently for internal usage only
Other potential arguments
A named list of objects containing the required data to fit a brms model with Stan.
# NOT RUN {
data1 <- make_standata(rating ~ treat + period + carry + (1|subject),
data = inhaler, family = "cumulative")
names(data1)
data2 <- make_standata(count ~ zAge + zBase * Trt + (1|patient),
data = epilepsy, family = "poisson")
names(data2)
# }
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