From 91a5834dd701211f929fd25419dc34561ce3b4e7 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Fri, 14 Feb 2025 09:15:20 +0100 Subject: Initialize dev docs --- docs/dev/reference/parplot.html | 161 ++++++++++++++++++++++++++++++++++++++++ 1 file changed, 161 insertions(+) create mode 100644 docs/dev/reference/parplot.html (limited to 'docs/dev/reference/parplot.html') diff --git a/docs/dev/reference/parplot.html b/docs/dev/reference/parplot.html new file mode 100644 index 00000000..4a11710f --- /dev/null +++ b/docs/dev/reference/parplot.html @@ -0,0 +1,161 @@ + +Plot parameter variability of multistart objects — parplot • mkin + Skip to contents + + +
+
+
+ +

Plot parameter variability of multistart objects

+ Source: R/parplot.R +
parplot.Rd
+
+ +
+

Produces a boxplot with all parameters from the multiple runs, scaled +either by the parameters of the run with the highest likelihood, +or by their medians as proposed in the paper by Duchesne et al. (2021).

+
+ +
+

Usage

+ 
parplot(object, ...)
+
+# S3 method for class 'multistart.saem.mmkin'
+parplot(
+  object,
+  llmin = -Inf,
+  llquant = NA,
+  scale = c("best", "median"),
+  lpos = "bottomleft",
+  main = "",
+  ...
+)
+
+ +
+

Arguments

+ + +
object
+

The multistart object

+ + +
...
+

Passed to boxplot

+ + +
llmin
+

The minimum likelihood of objects to be shown

+ + +
llquant
+

Fractional value for selecting only the fits with higher +likelihoods. Overrides 'llmin'.

+ + +
scale
+

By default, scale parameters using the best +available fit. +If 'median', parameters are scaled using the median parameters from all fits.

+ + +
lpos
+

Positioning of the legend.

+ + +
main
+

Title of the plot

+ +
+
+

Details

+

Starting values of degradation model parameters and error model parameters +are shown as green circles. The results obtained in the original run +are shown as red circles.

+
+
+

References

+

Duchesne R, Guillemin A, Gandrillon O, Crauste F. Practical +identifiability in the frame of nonlinear mixed effects models: the example +of the in vitro erythropoiesis. BMC Bioinformatics. 2021 Oct 4;22(1):478. +doi: 10.1186/s12859-021-04373-4.

+
+
+

See also

+

multistart

+
+ +
+ + +
+ + + + + + + -- cgit v1.2.1