update online manual

Author: acp29

docs/copying.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />

docs/description.json

@@ -1,7 +1,7 @@
 {
   "generator": "generate_html",
   "generator_version": "0.3.3",
-  "date_generated": "2026-07-07",
+  "date_generated": "2026-07-08",
   "package": 
   {
     "name": "statistics-resampling",

docs/function/boot.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />
@@ -118,15 +118,15 @@ <h3><a name="1">Demonstration 1</a></h3>
 
  Columns 1 through 12:
 
-            3            3            2            2            1            1            3            1            3            1            1            1
-            3            3            1            3            1            2            1            2            2            3            1            2
-            2            1            2            3            3            2            1            2            2            1            2            2
+            3            3            2            1            1            3            2            3            1            1            3            2
+            2            3            1            3            3            1            2            2            1            3            3            2
+            2            1            3            2            3            1            2            1            2            1            3            3
 
  Columns 13 through 20:
 
-            2            3            3            3            3            2            2            2
-            2            3            1            3            1            1            2            1
-            3            2            1            3            3            3            1            1</pre>
+            3            2            3            3            1            1            1            3
+            1            2            1            1            2            2            2            2
+            2            2            3            3            1            1            2            1</pre>
 </div>
 
 <h3><a name="2">Demonstration 2</a></h3>
@@ -141,15 +141,15 @@ <h3><a name="2">Demonstration 2</a></h3>
 
  Columns 1 through 12:
 
-            3            1            2            2            1            1            3            1            2            2            1            1
-            3            1            2            3            1            1            2            1            2            2            3            1
-            3            3            2            3            3            2            2            1            2            3            3            2
+            3            1            1            3            1            2            3            1            2            3            3            2
+            3            1            2            2            1            2            3            3            2            3            3            2
+            2            3            1            3            3            1            2            3            2            2            1            2
 
  Columns 13 through 20:
 
-            3            3            1            3            1            2            1            2
-            2            3            1            2            3            1            2            2
-            3            1            1            3            3            2            1            3</pre>
+            2            3            1            3            1            2            1            3
+            2            1            1            2            1            1            2            3
+            2            1            1            2            1            1            3            3</pre>
 </div>
 
 <h3><a name="3">Demonstration 3</a></h3>
@@ -194,15 +194,15 @@ <h3><a name="3">Demonstration 3</a></h3>
 
  Columns 1 through 12:
 
-            2            1            3            1            1            1            1            2            3            3            2            3
-            3            1            2            2            1            3            3            1            2            1            1            2
-            2            2            1            2            2            1            1            2            1            1            3            2
+            2            1            1            1            1            1            1            3            1            1            3            1
+            2            3            2            3            1            2            3            1            3            2            1            2
+            3            3            1            2            2            2            2            2            3            2            2            3
 
  Columns 13 through 20:
 
-            1            2            3            1            3            2            2            3
-            2            1            3            3            3            1            2            3
-            3            2            3            1            2            3            3            3</pre>
+            3            1            1            2            3            3            3            1
+            3            1            2            3            3            2            2            3
+            1            3            1            1            3            2            2            2</pre>
 </div>
 
 <h3><a name="4">Demonstration 4</a></h3>
@@ -249,21 +249,21 @@ <h3><a name="5">Demonstration 5</a></h3>
 
 ans =
 
+            5
+            6
             4
             4
-            3
-            5
-            3
+            6
             4
 
 ans =
 
-            6
-            6
+            4
+            4
+            4
             1
-            3
             4
-            5</pre>
+            6</pre>
 </div>
 
 <p>Package: <a href="../index.html">statistics-resampling</a></p>

docs/function/boot1way.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />
@@ -201,7 +201,7 @@ <h3><a name="1">Demonstration 1</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          1 |          2 |     +10.80 |      +1.20 |     .269 |
+|          1 |          1 |          2 |     +10.80 |      +1.20 |     .262 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -256,7 +256,7 @@ <h3><a name="2">Demonstration 2</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          1 |          2 |     +8.721 |      +0.77 |     .435 |
+|          1 |          1 |          2 |     +8.721 |      +0.77 |     .449 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -306,12 +306,12 @@ <h3><a name="3">Demonstration 3</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |     -9.480 |      -0.93 |     .861 |
-|          2 |          3 |          1 |     -24.90 |      -2.43 |     .099 |
-|          3 |          4 |          1 |     -33.24 |      -3.24 |     .017 |*
-|          4 |          5 |          1 |     -13.50 |      -1.32 |     .602 |
-|          5 |          6 |          1 |     -20.70 |      -2.02 |     .213 |
-|          6 |          7 |          1 |     -31.14 |      -3.04 |     .026 |*
+|          1 |          2 |          1 |     -9.480 |      -0.93 |     .857 |
+|          2 |          3 |          1 |     -24.90 |      -2.43 |     .096 |
+|          3 |          4 |          1 |     -33.24 |      -3.24 |     .020 |*
+|          4 |          5 |          1 |     -13.50 |      -1.32 |     .600 |
+|          5 |          6 |          1 |     -20.70 |      -2.02 |     .207 |
+|          6 |          7 |          1 |     -31.14 |      -3.04 |     .030 |*
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -366,12 +366,12 @@ <h3><a name="4">Demonstration 4</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |     -6.664 |      -0.82 |     .905 |
-|          2 |          3 |          1 |     -30.18 |      -3.73 |     .017 |*
-|          3 |          4 |          1 |     -35.63 |      -4.40 |     .006 |**
-|          4 |          5 |          1 |     -16.21 |      -2.00 |     .272 |
-|          5 |          6 |          1 |     -19.95 |      -2.46 |     .130 |
-|          6 |          7 |          1 |     -34.86 |      -4.30 |     .007 |**
+|          1 |          2 |          1 |     -6.664 |      -0.82 |     .917 |
+|          2 |          3 |          1 |     -30.18 |      -3.73 |     .016 |*
+|          3 |          4 |          1 |     -35.63 |      -4.40 |     .005 |**
+|          4 |          5 |          1 |     -16.21 |      -2.00 |     .280 |
+|          5 |          6 |          1 |     -19.95 |      -2.46 |     .132 |
+|          6 |          7 |          1 |     -34.86 |      -4.30 |     .006 |**
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -430,7 +430,7 @@ <h3><a name="5">Demonstration 5</a></h3>
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
 |          1 |          2 |          1 |     +38.33 |      +6.17 |    <.001 |***
-|          2 |          3 |          1 |     +3.500 |      +0.59 |     .821 |
+|          2 |          3 |          1 |     +3.500 |      +0.59 |     .837 |
 |          3 |          3 |          2 |     -34.83 |      -5.60 |    <.001 |***
 
 -----------------------------------------------------------------------------
@@ -483,9 +483,9 @@ <h3><a name="6">Demonstration 6</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |     +1.207 |      +0.25 |     .958 |
-|          2 |          3 |          1 |     -5.356 |      -1.17 |     .541 |
-|          3 |          3 |          2 |     -6.563 |      -1.37 |     .453 |
+|          1 |          2 |          1 |     +1.207 |      +0.27 |     .952 |
+|          2 |          3 |          1 |     -5.356 |      -1.24 |     .516 |
+|          3 |          3 |          2 |     -6.563 |      -1.44 |     .436 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -529,7 +529,7 @@ <h3><a name="7">Demonstration 7</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |   +0.03748 |      +0.08 |     .938 |
+|          1 |          2 |          1 |   +0.03748 |      +0.08 |     .929 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |
@@ -574,7 +574,7 @@ <h3><a name="8">Demonstration 8</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |    +0.3870 |      +0.83 |     .229 |
+|          1 |          2 |          1 |    +0.3870 |      +0.81 |     .275 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |

docs/function/bootbayes.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />
@@ -318,7 +318,7 @@ <h3><a name="3">Demonstration 3</a></h3>
 Running bootbayes with 500 bootstrap resamples...
 
 --- Performance Results ---
-Runtime: 69.04 seconds
+Runtime: 52.77 seconds
 Total parameters estimated: 30000
 Correlation of estimates for Gene 1744: 0.9999
 Number of outcome cells in stats.stdev: 2000

docs/function/bootcdf.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />

docs/function/bootci.html

@@ -3,7 +3,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en">
   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2026-07-07"/>
+  <meta name="date" content="2026-07-08"/>
   <meta name="generator" content="generate_html 0.3.3" />
   <meta name="author" content="Andrew Penn" />
   <meta name="description" content="A package for statistical analysis using resampling methods." />
@@ -188,8 +188,8 @@ <h3><a name="1">Demonstration 1</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       23.809
-       34.433</pre>
+       23.709
+        34.66</pre>
 </div>
 
 <h3><a name="2">Demonstration 2</a></h3>
@@ -208,8 +208,8 @@ <h3><a name="2">Demonstration 2</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       23.734
-       34.517</pre>
+       23.519
+       34.375</pre>
 </div>
 
 <h3><a name="3">Demonstration 3</a></h3>
@@ -229,8 +229,8 @@ <h3><a name="3">Demonstration 3</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-        24.42
-       36.695</pre>
+       24.635
+       37.156</pre>
 </div>
 
 <h3><a name="4">Demonstration 4</a></h3>
@@ -249,8 +249,8 @@ <h3><a name="4">Demonstration 4</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       95.794
-       235.47</pre>
+       96.966
+       236.33</pre>
 </div>
 
 <h3><a name="5">Demonstration 5</a></h3>
@@ -269,8 +269,8 @@ <h3><a name="5">Demonstration 5</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       118.06
-       259.32</pre>
+       117.68
+       263.15</pre>
 </div>
 
 <h3><a name="6">Demonstration 6</a></h3>
@@ -290,8 +290,8 @@ <h3><a name="6">Demonstration 6</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       112.89
-       287.67</pre>
+       108.25
+       309.99</pre>
 </div>
 
 <h3><a name="7">Demonstration 7</a></h3>
@@ -311,8 +311,8 @@ <h3><a name="7">Demonstration 7</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-       111.22
-       281.98</pre>
+       117.84
+       275.71</pre>
 </div>
 
 <h3><a name="8">Demonstration 8</a></h3>
@@ -333,8 +333,8 @@ <h3><a name="8">Demonstration 8</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-      0.50011
-      0.85987</pre>
+       0.5134
+      0.85189</pre>
 </div>
 
 <h3><a name="9">Demonstration 9</a></h3>
@@ -441,13 +441,13 @@ <h3><a name="9">Demonstration 9</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ans =
 
-       -16.69       -20.42      -12.289
-      -11.721      -15.104      -7.9081
-      -8.0606      -11.298      -4.4177
-      0.10476    -0.085946      0.27555
-     0.010336   -0.0024827     0.023285
-      0.06452      0.03197     0.099405
-    0.0016638   0.00013586     0.003006</pre>
+       -16.69      -20.417       -12.38
+      -11.721      -15.087      -7.9885
+      -8.0606      -11.321      -4.5122
+      0.10476    -0.082557      0.28502
+     0.010336   -0.0020766     0.023623
+      0.06452     0.033637     0.097231
+    0.0016638   0.00015581    0.0031024</pre>
 </div>
 
 <h3><a name="10">Demonstration 10</a></h3>
@@ -468,8 +468,8 @@ <h3><a name="10">Demonstration 10</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-     -0.99669     -0.42315
-      -0.1524      0.79023</pre>
+     -0.19715     -0.73076
+      0.47042      0.35126</pre>
 </div>
 
 <h3><a name="11">Demonstration 11</a></h3>