From 675a733fa2acc08daabb9b8b571c7d658f281f73 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Tue, 26 May 2020 18:38:51 +0200 Subject: Use all cores per default, confint tolerance Also, use more intelligent starting values for the variance of the random effects for saemix. While this does not appear to speed up the convergence, it shows where this variance is greatly reduced by using mixed-effects models as opposed to the separate independent fits. --- vignettes/FOCUS_D.html | 10 +- vignettes/FOCUS_L.html | 453 ++++++++++++++++++++++++++----------------------- vignettes/mkin.html | 4 +- vignettes/twa.html | 19 ++- 4 files changed, 259 insertions(+), 227 deletions(-) (limited to 'vignettes') diff --git a/vignettes/FOCUS_D.html b/vignettes/FOCUS_D.html index 38c597b0..16bc2084 100644 --- a/vignettes/FOCUS_D.html +++ b/vignettes/FOCUS_D.html @@ -11,7 +11,7 @@ - + Example evaluation of FOCUS Example Dataset D @@ -365,7 +365,7 @@ summary {

Example evaluation of FOCUS Example Dataset D

Johannes Ranke

-

2020-05-11

+

2020-05-26

@@ -439,10 +439,10 @@ print(FOCUS_2006_D)

A comprehensive report of the results is obtained using the summary method for mkinfit objects.

summary(fit)
-
## mkin version used for fitting:    0.9.50 
+
## mkin version used for fitting:    0.9.50.3 
 ## R version used for fitting:       4.0.0 
-## Date of fit:     Mon May 11 04:41:12 2020 
-## Date of summary: Mon May 11 04:41:12 2020 
+## Date of fit:     Tue May 26 17:01:07 2020 
+## Date of summary: Tue May 26 17:01:07 2020 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
diff --git a/vignettes/FOCUS_L.html b/vignettes/FOCUS_L.html
index 968ebf0c..7573ef58 100644
--- a/vignettes/FOCUS_L.html
+++ b/vignettes/FOCUS_L.html
@@ -1,17 +1,17 @@
 
 
-
+
 
 
 
 
-
 
+
 
 
 
 
-
+
 
 Example evaluation of FOCUS Laboratory Data L1 to L3
 
@@ -69,8 +69,6 @@ overflow: auto;
 margin-left: 2%;
 position: fixed;
 border: 1px solid #ccc;
-webkit-border-radius: 6px;
-moz-border-radius: 6px;
 border-radius: 6px;
 }
 
@@ -98,10 +96,15 @@ font-size: 12px;
 .tocify-subheader .tocify-subheader {
 text-indent: 30px;
 }
-
 .tocify-subheader .tocify-subheader .tocify-subheader {
 text-indent: 40px;
 }
+.tocify-subheader .tocify-subheader .tocify-subheader .tocify-subheader {
+text-indent: 50px;
+}
+.tocify-subheader .tocify-subheader .tocify-subheader .tocify-subheader .tocify-subheader {
+text-indent: 60px;
+}
 
 .tocify .tocify-item > a, .tocify .nav-list .nav-header {
 margin: 0px;
@@ -504,13 +507,13 @@ float: none;
 
           item.append($("", {
 
-            "text": self.text()
+            "html": self.html()
 
           }));
 
         } else {
 
-          item.text(self.text());
+          item.html(self.html());
 
         }
 
@@ -1341,7 +1344,6 @@ code {
 }
 img {
   max-width:100%;
-  height: auto;
 }
 .tabbed-pane {
   padding-top: 12px;
@@ -1403,6 +1405,7 @@ summary {
   border: none;
   display: inline-block;
   border-radius: 4px;
+  background-color: transparent;
 }
 
 .tabset-dropdown > .nav-tabs.nav-tabs-open > li {
@@ -1415,49 +1418,10 @@ summary {
 }
 
 
-
-
 
 
 
 
-
-
 
 
 
@@ -217,7 +215,7 @@ code > span.fu { color: #900; font-weight: bold; }  code > span.er { color: #a61
 
 
Calculation of time weighted average concentrations with mkin

 
Johannes Ranke

-
2019-09-18

+
2020-05-26

 
 
 
@@ -261,6 +259,9 @@ code > span.fu { color: #900; font-weight: bold; }  code > span.er { color: #a61
 
 
 
+
+
+