more doc cleaning

Author: jgabry

R/extract_log_lik.R

@@ -1,7 +1,9 @@
 #' Extract pointwise log-likelihood from a Stan model
 #'
 #' Convenience function for extracting the pointwise log-likelihood
-#' matrix or array from a fitted Stan model.
+#' matrix or array from a `stanfit` object from the \pkg{rstan} package.
+#' Note: recent versions of \pkg{rstan} now include a `loo()` method for
+#' `stanfit` objects that handles this internally.
 #'
 #' @export
 #' @param stanfit A `stanfit` object (\pkg{rstan} package).

R/loo.R

@@ -109,14 +109,6 @@
 #' loo(LLmat, r_eff = rel_n_eff, cores = 2)
 #'
 #'
-#' \dontrun{
-#' ### Usage with stanfit objects
-#' # see ?extract_log_lik
-#' log_lik1 <- extract_log_lik(stanfit1, merge_chains = FALSE)
-#' rel_n_eff <- relative_eff(exp(log_lik1))
-#' loo(log_lik1, r_eff = rel_n_eff, cores = 2)
-#' }
-#'
 #' ### Using log-likelihood function instead of array or matrix
 #' set.seed(124)
 #'