From f39815aa87272849f8e0c808099c4cee780c2a81 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Thu, 3 Nov 2016 14:33:05 +0100 Subject: Static documentation rebuilt by pkgdown::build_site() Using pkgdown with PR hadley/pkgdown#212 --- docs/reference/mkinfit.html | 40 +++++++++++++++++++--------------------- 1 file changed, 19 insertions(+), 21 deletions(-) (limited to 'docs/reference/mkinfit.html') diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 6bfb9352..867fb9ff 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -61,7 +61,12 @@ @@ -251,7 +256,7 @@ to do transformations. If TRUE, the g parameter of the DFOP and HS models are also transformed, as they can also be seen as compositional data. The transformation used for these transformations is the - ilr transformation. + ilr transformation.
plot
@@ -327,11 +332,11 @@

Value

A list with "mkinfit" and "modFit" in the class attribute. - A summary can be obtained by summary.mkinfit.

+ A summary can be obtained by summary.mkinfit.

See also

-

Plotting methods plot.mkinfit and +

Plotting methods plot.mkinfit and mkinparplot.

Fitting of several models to several datasets in a single call to mmkin.

@@ -351,23 +356,20 @@ internal rate transformation.

-

- - Examples -

+

Examples

# Use shorthand notation for parent only degradation
 fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE)
 summary(fit)
#> mkin version:    0.9.44.9000 
-#> R version:       3.3.1 
-#> Date of fit:     Wed Oct 26 23:50:42 2016 
-#> Date of summary: Wed Oct 26 23:50:42 2016 
+#> R version:       3.3.2 
+#> Date of fit:     Thu Nov  3 17:46:27 2016 
+#> Date of summary: Thu Nov  3 17:46:27 2016 
 #> 
 #> Equations:
 #> d_parent = - (alpha/beta) * 1/((time/beta) + 1) * parent
 #> 
 #> Model predictions using solution type analytical 
 #> 
-#> Fitted with method Port using 64 model solutions performed in 0.168 s
+#> Fitted with method Port using 64 model solutions performed in 0.147 s
 #> 
 #> Weighting: none
 #> 
@@ -428,19 +430,16 @@
 #>    28   parent      6.6     4.754   1.8460
 #>    63   parent      4.0     2.102   1.8977
 #>    91   parent      3.9     1.441   2.4590
-#>   119   parent      0.6     1.092  -0.4919
-#> 

+#>   119   parent      0.6     1.092  -0.4919

 # One parent compound, one metabolite, both single first order.
 # Use mkinsub for convenience in model formulation. Pathway to sink included per default.
 SFO_SFO <- mkinmod(
   parent = mkinsub("SFO", "m1"),
-  m1 = mkinsub("SFO"))
Successfully compiled differential equation model from auto-generated C code.
# Fit the model to the FOCUS example dataset D using defaults
+  m1 = mkinsub("SFO"))
#> Successfully compiled differential equation model from auto-generated C code.
# Fit the model to the FOCUS example dataset D using defaults
 print(system.time(fit <- mkinfit(SFO_SFO, FOCUS_2006_D,
                            solution_type = "eigen", quiet = TRUE)))
#>    user  system elapsed 
-#>   1.272   1.204   0.943 
-#> 
coef(fit)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
-#>          99.59848          -3.03822          -2.98030          -5.24750 
-#> 
endpoints(fit)
#> $ff
+#>   1.204   1.244   0.932 
coef(fit)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>          99.59848          -3.03822          -2.98030          -5.24750 
endpoints(fit)
#> $ff
 #> parent_sink   parent_m1     m1_sink 
 #>    0.485524    0.514476    1.000000 
 #> 
@@ -451,7 +450,6 @@
 #>              DT50      DT90
 #> parent   7.022929  23.32967
 #> m1     131.760712 437.69961
-#> 
 #> 
## Not run: ------------------------------------
 # # deSolve is slower when no C compiler (gcc) was available during model generation
 # print(system.time(fit.deSolve <- mkinfit(SFO_SFO, FOCUS_2006_D, 
@@ -535,7 +533,7 @@