Description Modeling functions See Also
Modeling functions available in rstanarm
The model estimating functions are described in greater detail in their individual help pages and vignettes. Here we provide a very brief overview:
stan_lm
, stan_aov
, stan_biglm
Similar to lm
or aov
but with
novel regularizing priors on the model parameters that are driven by prior
beliefs about R^2, the proportion of variance in the outcome
attributable to the predictors in a linear model.
stan_glm
, stan_glm.nb
Similar to glm
but with various possible prior
distributions for the coefficients and, if applicable, a prior distribution
for any auxiliary parameter in a Generalized Linear Model (GLM) that is
characterized by a family
object (e.g. the shape
parameter in Gamma models). It is also possible to estimate a negative
binomial model in a similar way to the glm.nb
function
in the MASS package.
stan_glmer
, stan_glmer.nb
, stan_lmer
Similar to the glmer
, glmer.nb
and
lmer
functions in the lme4 package in that GLMs
are augmented to have group-specific terms that deviate from the common
coefficients according to a mean-zero multivariate normal distribution with
a highly-structured but unknown covariance matrix (for which rstanarm
introduces an innovative prior distribution). MCMC provides more
appropriate estimates of uncertainty for models that consist of a mix of
common and group-specific parameters.
stan_nlmer
Similar to nlmer
in the lme4 package for
nonlinear "mixed-effects" models, but the group-specific coefficients
have flexible priors on their unknown covariance matrices.
stan_gamm4
Similar to gamm4
in the gamm4 package, which
augments a GLM (possibly with group-specific terms) with nonlinear smooth
functions of the predictors to form a Generalized Additive Mixed Model
(GAMM). Rather than calling glmer
like
gamm4
does, stan_gamm4
essentially calls
stan_glmer
, which avoids the optimization issues that often
crop up with GAMMs and provides better estimates for the uncertainty of the
parameter estimates.
stan_polr
Similar to polr
in the MASS package in that it
models an ordinal response, but the Bayesian model also implies a prior
distribution on the unknown cutpoints. Can also be used to model binary
outcomes, possibly while estimating an unknown exponent governing the
probability of success.
stan_betareg
Similar to betareg
in that it models an outcome that
is a rate (proportion) but, rather than performing maximum likelihood
estimation, full Bayesian estimation is performed by default, with
customizable prior distributions for all parameters.
stan_clogit
Similar to clogit
in that it models an binary outcome
where the number of successes and failures is fixed within each stratum by
the research design. There are some minor syntactical differences relative
to clogit
that allow stan_clogit
to accept
group-specific terms as in stan_glmer
.
stan_mvmer
A multivariate form of stan_glmer
, whereby the user can
specify one or more submodels each consisting of a GLM with group-specific
terms. If more than one submodel is specified (i.e. there is more than one
outcome variable) then a dependence is induced by assuming that the
group-specific terms for each grouping factor are correlated across submodels.
stan_jm
Estimates shared parameter joint models for longitudinal and time-to-event (i.e. survival) data. The joint model can be univariate (i.e. one longitudinal outcome) or multivariate (i.e. more than one longitudinal outcome). A variety of parameterisations are available for linking the longitudinal and event processes (i.e. a variety of association structures).
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