From f606838c5310f365eea1c0d6421f5c3636a4dc79 Mon Sep 17 00:00:00 2001
From: Johannes Ranke <jranke@uni-bremen.de>
Date: Tue, 8 Dec 2020 22:08:38 +0100
Subject: mixed.mmkin and test coverage

---
 man/mixed.Rd | 69 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 69 insertions(+)
 create mode 100644 man/mixed.Rd

(limited to 'man/mixed.Rd')

diff --git a/man/mixed.Rd b/man/mixed.Rd
new file mode 100644
index 00000000..8b00382d
--- /dev/null
+++ b/man/mixed.Rd
@@ -0,0 +1,69 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/mixed.mmkin.R
+\name{mixed}
+\alias{mixed}
+\alias{mixed.mmkin}
+\alias{print.mixed.mmkin}
+\title{Create a mixed effects model from an mmkin row object}
+\usage{
+mixed(object, ...)
+
+\method{mixed}{mmkin}(object, method = c("none"), ...)
+
+\method{print}{mixed.mmkin}(x, digits = max(3, getOption("digits") - 3), ...)
+}
+\arguments{
+\item{object}{An \link{mmkin} row object}
+
+\item{\dots}{Currently not used}
+
+\item{method}{The method to be used}
+
+\item{x}{A mixed.mmkin object to print}
+
+\item{digits}{Number of digits to use for printing.}
+}
+\description{
+Create a mixed effects model from an mmkin row object
+}
+\examples{
+sampling_times = c(0, 1, 3, 7, 14, 28, 60, 90, 120)
+n_biphasic <- 8
+err_1 = list(const = 1, prop = 0.07)
+
+DFOP_SFO <- mkinmod(
+  parent = mkinsub("DFOP", "m1"),
+  m1 = mkinsub("SFO"),
+  quiet = TRUE)
+
+set.seed(123456)
+log_sd <- 0.3
+syn_biphasic_parms <- as.matrix(data.frame(
+  k1 = rlnorm(n_biphasic, log(0.05), log_sd),
+  k2 = rlnorm(n_biphasic, log(0.01), log_sd),
+  g = plogis(rnorm(n_biphasic, 0, log_sd)),
+  f_parent_to_m1 = plogis(rnorm(n_biphasic, 0, log_sd)),
+  k_m1 = rlnorm(n_biphasic, log(0.002), log_sd)))
+
+ds_biphasic_mean <- lapply(1:n_biphasic,
+  function(i) {
+    mkinpredict(DFOP_SFO, syn_biphasic_parms[i, ],
+      c(parent = 100, m1 = 0), sampling_times)
+  }
+)
+
+set.seed(123456L)
+ds_biphasic <- lapply(ds_biphasic_mean, function(ds) {
+  add_err(ds,
+    sdfunc = function(value) sqrt(err_1$const^2 + value^2 * err_1$prop^2),
+    n = 1, secondary = "m1")[[1]]
+})
+
+\dontrun{
+f_mmkin <- mmkin(list("DFOP-SFO" = DFOP_SFO), ds_biphasic, error_model = "tc", quiet = TRUE)
+
+f_mixed <- mixed(f_mmkin)
+print(f_mixed)
+plot(f_mixed)
+}
+}
-- 
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