README.utf8.md

@@ -67,22 +75,26 @@ +

Static documentation of this R package can be found at https://pkgdown.jrwb.de/chemCal

+ +

+ diff --git a/docs/news/index.html b/docs/news/index.html index 1976391..4fc042b 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -8,21 +8,29 @@ Changelog • chemCal + - + - - + + + + + + + - + + - + - - + + + @@ -30,10 +38,12 @@ + + @@ -44,9 +54,10 @@ + - +

@@ -92,17 +107,18 @@

@@ -110,7 +126,7 @@

@@ -123,7 +139,7 @@

@@ -131,7 +147,7 @@

@@ -141,33 +157,31 @@

- +

+ + diff --git a/docs/pkgdown.css b/docs/pkgdown.css index c03fb08..c01e592 100644 --- a/docs/pkgdown.css +++ b/docs/pkgdown.css @@ -17,12 +17,14 @@ html, body { height: 100%; } +body { + position: relative; +} + body > .container { display: flex; height: 100%; flex-direction: column; - - padding-top: 60px; } body > .container .row { @@ -69,6 +71,10 @@ summary { margin-top: calc(-60px + 1em); } +dd { + margin-left: 3em; +} + /* Section anchors ---------------------------------*/ a.anchor { @@ -102,37 +108,135 @@ a.anchor { margin-top: -40px; } -/* Static header placement on mobile devices */ -@media (max-width: 767px) { - .navbar-fixed-top { - position: absolute; - } - .navbar { - padding: 0; - } +/* Navbar submenu --------------------------*/ + +.dropdown-submenu { + position: relative; } +.dropdown-submenu>.dropdown-menu { + top: 0; + left: 100%; + margin-top: -6px; + margin-left: -1px; + border-radius: 0 6px 6px 6px; +} + +.dropdown-submenu:hover>.dropdown-menu { + display: block; +} + +.dropdown-submenu>a:after { + display: block; + content: " "; + float: right; + width: 0; + height: 0; + border-color: transparent; + border-style: solid; + border-width: 5px 0 5px 5px; + border-left-color: #cccccc; + margin-top: 5px; + margin-right: -10px; +} + +.dropdown-submenu:hover>a:after { + border-left-color: #ffffff; +} + +.dropdown-submenu.pull-left { + float: none; +} + +.dropdown-submenu.pull-left>.dropdown-menu { + left: -100%; + margin-left: 10px; + border-radius: 6px 0 6px 6px; +} /* Sidebar --------------------------*/ -#sidebar { +#pkgdown-sidebar { margin-top: 30px; + position: -webkit-sticky; + position: sticky; + top: 70px; } -#sidebar h2 { + +#pkgdown-sidebar h2 { font-size: 1.5em; margin-top: 1em; } -#sidebar h2:first-child { +#pkgdown-sidebar h2:first-child { margin-top: 0; } -#sidebar .list-unstyled li { +#pkgdown-sidebar .list-unstyled li { margin-bottom: 0.5em; } +/* bootstrap-toc tweaks ------------------------------------------------------*/ + +/* All levels of nav */ + +nav[data-toggle='toc'] .nav > li > a { + padding: 4px 20px 4px 6px; + font-size: 1.5rem; + font-weight: 400; + color: inherit; +} + +nav[data-toggle='toc'] .nav > li > a:hover, +nav[data-toggle='toc'] .nav > li > a:focus { + padding-left: 5px; + color: inherit; + border-left: 1px solid #878787; +} + +nav[data-toggle='toc'] .nav > .active > a, +nav[data-toggle='toc'] .nav > .active:hover > a, +nav[data-toggle='toc'] .nav > .active:focus > a { + padding-left: 5px; + font-size: 1.5rem; + font-weight: 400; + color: inherit; + border-left: 2px solid #878787; +} + +/* Nav: second level (shown on .active) */ + +nav[data-toggle='toc'] .nav .nav { + display: none; /* Hide by default, but at >768px, show it */ + padding-bottom: 10px; +} + +nav[data-toggle='toc'] .nav .nav > li > a { + padding-left: 16px; + font-size: 1.35rem; +} + +nav[data-toggle='toc'] .nav .nav > li > a:hover, +nav[data-toggle='toc'] .nav .nav > li > a:focus { + padding-left: 15px; +} + +nav[data-toggle='toc'] .nav .nav > .active > a, +nav[data-toggle='toc'] .nav .nav > .active:hover > a, +nav[data-toggle='toc'] .nav .nav > .active:focus > a { + padding-left: 15px; + font-weight: 500; + font-size: 1.35rem; +} + +/* orcid ------------------------------------------------------------------- */ + .orcid { - height: 16px; + font-size: 16px; + color: #A6CE39; + /* margins are required by official ORCID trademark and display guidelines */ + margin-left:4px; + margin-right:4px; vertical-align: middle; } @@ -222,6 +326,19 @@ a.sourceLine:hover { visibility: visible; } +/* headroom.js ------------------------ */ + +.headroom { + will-change: transform; + transition: transform 200ms linear; +} +.headroom--pinned { + transform: translateY(0%); +} +.headroom--unpinned { + transform: translateY(-100%); +} + /* mark.js ----------------------------*/ mark { @@ -234,3 +351,17 @@ mark { .html-widget { margin-bottom: 10px; } + +/* fontawesome ------------------------ */ + +.fab { + font-family: "Font Awesome 5 Brands" !important; +} + +/* don't display links in code chunks when printing */ +/* source: https://stackoverflow.com/a/10781533 */ +@media print { + code a:link:after, code a:visited:after { + content: ""; + } +} diff --git a/docs/pkgdown.js b/docs/pkgdown.js index eb7e83d..7e7048f 100644 --- a/docs/pkgdown.js +++ b/docs/pkgdown.js @@ -2,18 +2,11 @@ (function($) { $(function() { - $("#sidebar") - .stick_in_parent({offset_top: 40}) - .on('sticky_kit:bottom', function(e) { - $(this).parent().css('position', 'static'); - }) - .on('sticky_kit:unbottom', function(e) { - $(this).parent().css('position', 'relative'); - }); + $('.navbar-fixed-top').headroom(); - $('body').scrollspy({ - target: '#sidebar', - offset: 60 + $('body').css('padding-top', $('.navbar').height() + 10); + $(window).resize(function(){ + $('body').css('padding-top', $('.navbar').height() + 10); }); $('[data-toggle="tooltip"]').tooltip(); diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 8d2bc22..ece837b 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -1,6 +1,7 @@ pandoc: 2.2.1 -pkgdown: 1.3.0 +pkgdown: 1.5.1 pkgdown_sha: ~ articles: chemCal: chemCal.html +last_built: 2020-05-20T06:44Z diff --git a/docs/reference/calplot.lm-1.png b/docs/reference/calplot.lm-1.png index aa0286d..4d620ee 100644 Binary files a/docs/reference/calplot.lm-1.png and b/docs/reference/calplot.lm-1.png differ diff --git a/docs/reference/calplot.lm.html b/docs/reference/calplot.lm.html index 18ce82f..7822b7e 100644 --- a/docs/reference/calplot.lm.html +++ b/docs/reference/calplot.lm.html @@ -8,21 +8,29 @@ Plot calibration graphs from univariate linear models — calplot • chemCal + - + - - + + + + + + + - + + - + - - + + + @@ -30,11 +38,11 @@ - + - + @@ -48,9 +56,10 @@ + - +

@@ -96,6 +109,7 @@

@@ -107,22 +121,20 @@

Produce graphics of calibration data, the fitted model as well as confidence, and, for unweighted regression, prediction bands.

calplot(object, xlim = c("auto", "auto"), ylim = c("auto", "auto"),
+    calplot(object, xlim = c("auto", "auto"), ylim = c("auto", "auto"),
     xlab = "Concentration", ylab = "Response", alpha=0.05, varfunc = NULL)
-    
+
     Arguments
     
-      
@@ -153,61 +165,52 @@
     Currently, this argument is ignored (see note below).

     
     
       object A univariate model object of class lm or 
-    rlm 
+      A univariate model object of class lm or 
+    rlm 
     with model formula y ~ x or y ~ x - 1.
     
     
     
     
-    
+
     Value
 
     A plot of the calibration data, of your fitted model as well as lines showing
   the confidence limits. Prediction limits are only shown for models from
   unweighted regression.
-    
     Note
 
     Prediction bands for models from weighted linear regression require weights
   for the data, for which responses should be predicted. Prediction intervals
   using weights e.g. from a variance function are currently not supported by
-  the internally used function predict.lm, therefore,
+  the internally used function predict.lm, therefore,
   calplot does not draw prediction bands for such models.  
 It is possible to compare the calplot prediction bands with the
   lod values if the lod() alpha and beta parameters are
   half the value of the calplot() alpha parameter.
-    
 
     Examples
-    data(massart97ex3)
-m <- lm(y ~ x, data = massart97ex3)
+    data(massart97ex3)
+m <- lm(y ~ x, data = massart97ex3)
 calplot(m)

   
-  
-    Contents
-    
-      Arguments
-      
-      Value
-
-      Note
-      
-      Examples
-    
-
-    Author
-    Johannes Ranke 
-  jranke@uni-bremen.de
+  
+    
+      Contents
+    
   
 
 
+
       
       
   Developed by Johannes Ranke.
 
 
 
-  Site built with pkgdown 1.3.0.
+  Site built with pkgdown 1.5.1.
 
+

object	A univariate model object of class `lm` or - `rlm` +	A univariate model object of class `lm` or + `rlm` with model formula `y ~ x` or `y ~ x - 1`.

+ + diff --git a/docs/reference/din32645-1.png b/docs/reference/din32645-1.png index 9dc7295..cee27e9 100644 Binary files a/docs/reference/din32645-1.png and b/docs/reference/din32645-1.png differ diff --git a/docs/reference/din32645.html b/docs/reference/din32645.html index 8d46c24..6af5152 100644 --- a/docs/reference/din32645.html +++ b/docs/reference/din32645.html @@ -8,21 +8,29 @@ Calibration data from DIN 32645 — din32645 • chemCal + - + - - + + + + + + + - + + - + - - + + + @@ -30,10 +38,10 @@ - + - + @@ -47,9 +55,10 @@ + - +

@@ -95,6 +108,7 @@

@@ -106,17 +120,15 @@

Sample dataset to test the package.

data(din32645)

- +

data(din32645)

+ +

Format

A dataframe containing 10 rows of x and y values.

References

DIN 32645 (equivalent to ISO 11843), Beuth Verlag, Berlin, 1994

@@ -126,66 +138,62 @@

Currie, L. A. (1997) Nomenclature in evaluation of analytical methods including detection and quantification capabilities (IUPAC Recommendations 1995). Analytica Chimica Acta 391, 105 - 126.

Examples

m <- lm(y ~ x, data = din32645)
+    m <- lm(y ~ x, data = din32645)
 calplot(m)

 ## Prediction of x with confidence interval
 prediction <- inverse.predict(m, 3500, alpha = 0.01)
 
 # This should give 0.07434 according to test data from Dintest, which 
 # was collected from Procontrol 3.1 (isomehr GmbH) in this case
-round(prediction$Confidence, 5)
#> [1] 0.07434

+round(prediction$Confidence, 5)
#> [1] 0.07434

 ## Critical value:
 crit <- lod(m, alpha = 0.01, beta = 0.5)
 
 # According to DIN 32645, we should get 0.07 for the critical value
 # (decision limit, "Nachweisgrenze")
-round(crit$x, 2)
#> [1] 0.07
# and according to Dintest test data, we should get 0.0698 from
-round(crit$x, 4)
#> [1] 0.0698

+round(crit$x, 2)
#> [1] 0.07
# and according to Dintest test data, we should get 0.0698 from
+round(crit$x, 4)
#> [1] 0.0698

 ## Limit of detection (smallest detectable value given alpha and beta)
 # In German, the smallest detectable value is the "Erfassungsgrenze", and we
 # should get 0.14 according to DIN, which we achieve by using the method 
 # described in it:
 lod.din <- lod(m, alpha = 0.01, beta = 0.01, method = "din")
-round(lod.din$x, 2)
#> [1] 0.14

+round(lod.din$x, 2)
#> [1] 0.14

 ## Limit of quantification
 # This accords to the test data coming with the test data from Dintest again, 
 # except for the last digits of the value cited for Procontrol 3.1 (0.2121)
 loq <- loq(m, alpha = 0.01)
-round(loq$x, 4)
#> [1] 0.212

+round(loq$x, 4)
#> [1] 0.212

 # A similar value is obtained using the approximation 
 # LQ = 3.04 * LC (Currie 1999, p. 120)
 3.04 * lod(m, alpha = 0.01, beta = 0.5)$x
#> [1] 0.2122306
   
-  
-    Contents
-    
-      
-      Format
-
-      References
-      
-      Examples
-    
-
+  
+    
+      Contents
+    
   
 
 
+
       
       
   Developed by Johannes Ranke.
 
 
 
-  Site built with pkgdown 1.3.0.
+  Site built with pkgdown 1.5.1.
 
+

object	A univariate model object of class `lm` or - `rlm` +	A univariate model object of class `lm` or + `rlm` with model formula `y ~ x` or `y ~ x - 1`.
A vector of observed y values for one sample.
…	...	Placeholder for further arguments that might be needed by future implementations.

object	A univariate model object of class `lm` or - `rlm` +	A univariate model object of class `lm` or + `rlm` with model formula `y ~ x` or `y ~ x - 1`, optionally from a weighted regression.
…	...	Placeholder for further arguments that might be needed by future implementations.

object	A univariate model object of class `lm` or - `rlm` +	A univariate model object of class `lm` or + `rlm` with model formula `y ~ x` or `y ~ x - 1`, optionally from a weighted regression. If weights are specified in the model, either `w.loq` or `var.loq` have to @@ -143,7 +155,7 @@	The error tolerance for the prediction of x values in the calculation.
…	...	Placeholder for further arguments that might be needed by future implementations.

chemCal - Calibration functions for analytical chemistry

Page not found (404)

Introduction to chemCal

Introduction to chemCal

Johannes Ranke

2019-02-21

2020-05-20

-Contents

All vignettes

`, then `

`, etc.) that has more than one element. Defaults to 1 (for `

chemCal - Calibration functions for analytical chemistry

Links

Developers

Dev status

Changelog

Changelog

+

chemCal 0.2.2 Unreleased

+

chemCal 0.2.1 2018-07-17

+

chemCal 0.1-37 2015-10-08

+

chemCal 0.1-34 2014-04-25

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