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Diffstat (limited to 'R/lrtest.mkinfit.R')
-rw-r--r-- | R/lrtest.mkinfit.R | 57 |
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diff --git a/R/lrtest.mkinfit.R b/R/lrtest.mkinfit.R new file mode 100644 index 00000000..9c0a9039 --- /dev/null +++ b/R/lrtest.mkinfit.R @@ -0,0 +1,57 @@ +#' @importFrom lmtest lrtest +#' @export +lmtest::lrtest + +#' Likelihood ratio test for mkinfit models +#' +#' Compare two mkinfit models based on their likelihood. If two fitted +#' mkinfit objects are given as arguments, it is checked if they have been +#' fitted to the same data. It is the responsibility of the user to make sure +#' that the models are nested, i.e. one of them has less degrees of freedom +#' and can be expressed by fixing the parameters of the other. +#' +#' Alternatively, an argument to mkinfit can be given which is then passed +#' to \code{\link{update.mkinfit}} to obtain the alternative model. +#' +#' The comparison is then made by the \code{\link[lmtest]{lrtest.default}} +#' method from the lmtest package. The model with the higher number of fitted +#' parameters (alternative hypothesis) is listed first, then the model with the +#' lower number of fitted parameters (null hypothesis). +#' +#' @importFrom stats logLik update +#' @param object An \code{\link{mkinfit}} object +#' @param object_2 Optionally, another mkinfit object fitted to the same data. +#' @param \dots Argument to \code{\link{mkinfit}}, passed to +#' \code{\link{update.mkinfit}} for creating the alternative fitted object. +#' @examples +#' \dontrun{ +#' test_data <- subset(synthetic_data_for_UBA_2014[[12]]$data, name == "parent") +#' sfo_fit <- mkinfit("SFO", test_data, quiet = TRUE) +#' dfop_fit <- mkinfit("DFOP", test_data, quiet = TRUE) +#' lrtest(dfop_fit, sfo_fit) +#' lrtest(sfo_fit, dfop_fit) +#' lrtest(dfop_fit, error_model = "tc") +#' lrtest(dfop_fit, fixed_parms = c(k2 = 0)) +#' } +#' @export +lrtest.mkinfit <- function(object, object_2 = NULL, ...) { + + name_function <- function(x) { + paste(x$mkinmod$name, "with error model", x$err_mod) + } + + if (is.null(object_2)) { + object_2 <- update(object, ...) + } else { + data_object <- object$data[c("time", "variable", "observed")] + data_object_2 <- object_2$data[c("time", "variable", "observed")] + if (!identical(data_object, data_object_2)) { + stop("It seems that the mkinfit objects have not been fitted to the same data") + } + } + if (attr(logLik(object), "df") > attr(logLik(object_2), "df")) { + lmtest::lrtest.default(object, object_2, name = name_function) + } else { + lmtest::lrtest.default(object_2, object, name = name_function) + } +} |