updated matlab toolbox and online manual

acpennlab · May 25, 2024 · 84d0fa4 · 84d0fa4
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diff --git a/docs/copying.html b/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="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />

diff --git a/docs/description.json b/docs/description.json
@@ -1,14 +1,14 @@
 {
   "generator": "generate_html",
   "generator_version": "0.3.3",
-  "date_generated": "2024-05-24",
+  "date_generated": "2024-05-25",
   "package": 
   {
     "name": "statistics-resampling",
-    "version": "5.5.16",
+    "version": "5.5.17",
     "description": "The statistics-resampling package is an Octave  package and Matlab toolbox that can be used to perform a wide  variety of statistics tasks using non-parametric resampling  methods. In particular, the functions included can be used to  estimate bias, uncertainty (standard errors and confidence  intervals), prediction error, and calculate p-values for null  hypothesis significance tests. Variations of the resampling  methods are included that improve the accuracy of the  statistics for small samples and samples with complex  dependence structures.",
     "shortdescription": "The statistics-resampling package is an Octave  package and Matlab toolbox that can be used to perform a wide  variety of statistics tasks using non-parametric resampling  methods",
-    "date": "2024-05-24",
+    "date": "2024-05-25",
     "title": "A statistics package with a variety of resampling tools",
     "author": "Andrew Penn <[email protected]>",
     "maintainer": "Andrew Penn <[email protected]>",

diff --git a/docs/function/boot.html b/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="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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            1            3            1            1            1            3            3            3            1            3            2
-            3            1            3            2            1            1            2            3            1            2            3            1
-            3            2            2            2            1            3            2            3            2            1            3            2
+            2            3            3            2            2            2            1            1            3            1            3            3
+            3            1            3            1            2            3            2            2            2            1            2            1
+            2            1            3            3            2            1            2            3            1            2            1            2
 
  Columns 13 through 20:
 
-            2            2            2            3            1            1            2            1
-            2            2            1            1            3            3            2            2
-            3            2            1            3            3            1            1            2</pre>
+            2            1            2            2            3            3            1            1
+            2            2            3            3            1            1            3            3
+            3            1            1            1            2            3            3            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:
 
-            2            3            1            2            1            2            3            1            2            3            1            1
-            3            1            2            2            1            2            3            1            1            3            1            2
-            3            3            1            3            1            2            3            3            2            2            1            2
+            2            3            2            2            3            1            3            1            2            2            1            2
+            2            1            1            2            3            2            2            1            1            3            3            1
+            3            3            1            2            3            1            3            1            2            2            3            2
 
  Columns 13 through 20:
 
-            3            3            2            2            1            2            2            2
-            2            3            2            3            1            1            3            1
-            3            1            1            3            1            2            3            3</pre>
+            2            3            1            2            1            2            3            3
+            3            3            1            2            1            1            1            2
+            3            1            1            3            3            1            3            2</pre>
 </div>
 
 <h3><a name="3">Demonstration 3</a></h3>

diff --git a/docs/function/boot1way.html b/docs/function/boot1way.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -529,7 +529,7 @@ <h3><a name="7">Demonstration 7</a></h3>
 -----------------------------------------------------------------------------
 | Comparison |     Test # |      Ref # | Difference |          t |        p |
 |------------|------------|------------|------------|------------|----------|
-|          1 |          2 |          1 |    +0.3886 |      +0.79 |     .424 |
+|          1 |          2 |          1 |    +0.1903 |      +0.44 |     .632 |
 
 -----------------------------------------------------------------------------
 |    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 |    -0.3233 |      -0.70 |     .280 |
+|          1 |          2 |          1 |    -0.4930 |      -0.52 |     .544 |
 
 -----------------------------------------------------------------------------
 |    GROUP # |                                       GROUP label |        N |

diff --git a/docs/function/bootbayes.html b/docs/function/bootbayes.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -191,7 +191,7 @@ <h3><a name="1">Demonstration 1</a></h3>
 
 Posterior Statistics: 
  original     bias         median       stdev       CI_lower      CI_upper
- +184.5       +0.01497     +184.5       1.289       +181.9        +187.0</pre>
+ +184.5       +0.01413     +184.5       1.320       +181.9        +187.1</pre>
 </div>
 
 <h3><a name="2">Demonstration 2</a></h3>
@@ -228,8 +228,8 @@ <h3><a name="2">Demonstration 2</a></h3>
 
 Posterior Statistics: 
  original     bias         median       stdev       CI_lower      CI_upper
- +175.5       +0.01508     +175.5       2.372       +171.2        +180.1    
- +0.1904      -0.0006274   +0.1905      0.07826     +0.04002      +0.3438</pre>
+ +175.5       +0.01690     +175.5       2.396       +171.1        +180.4    
+ +0.1904      -0.0008083   +0.1919      0.08086     +0.02622      +0.3426</pre>
 </div>
 
 <p>Package: <a href="../index.html">statistics-resampling</a></p>

diff --git a/docs/function/bootcdf.html b/docs/function/bootcdf.html
@@ -3,7 +3,7 @@
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   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />

diff --git a/docs/function/bootci.html b/docs/function/bootci.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -468,8 +468,8 @@ <h3><a name="10">Demonstration 10</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ci =
 
-     -0.65399     -0.99282
-      0.24451      0.40299</pre>
+     -0.71623     -0.10519
+     -0.12332      0.52037</pre>
 </div>
 
 <h3><a name="11">Demonstration 11</a></h3>

diff --git a/docs/function/bootclust.html b/docs/function/bootclust.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -376,8 +376,8 @@ <h3><a name="7">Demonstration 7</a></h3>
 
 Bootstrap Statistics: 
  original     bias         std_error    CI_lower     CI_upper  
- -0.1799      -0.007339    +0.2585      -0.6067      +0.2508    
- -0.1218      -0.02885     +0.2777      -0.6030      +0.2821</pre>
+ -0.6909      -0.02814     +0.1604      -0.9216      -0.4016    
+ -0.4504      +0.01723     +0.2143      -0.7994      -0.08897</pre>
 </div>
 
 <h3><a name="8">Demonstration 8</a></h3>
@@ -406,8 +406,8 @@ <h3><a name="8">Demonstration 8</a></h3>
 
 Bootstrap Statistics: 
  original     bias         std_error    CI_lower     CI_upper  
- -0.1460      +0.03458     +0.1694      -0.3947      +0.1270    
- -0.1339      +0.005021    +0.2194      -0.5363      +0.1780</pre>
+ +0.4799      +0.07198     +0.3503      -0.1275      +0.9202    
+ +0.5496      +0.05655     +0.2954      +0.09608     +0.9342</pre>
 </div>
 
 <h3><a name="9">Demonstration 9</a></h3>

diff --git a/docs/function/bootint.html b/docs/function/bootint.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />

diff --git a/docs/function/bootknife.html b/docs/function/bootknife.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -442,8 +442,8 @@ <h3><a name="8">Demonstration 8</a></h3>
 
 Bootstrap Statistics: 
  original     bias         std_error    CI_lower     CI_upper  
- -0.01258     +0.03757     +0.2620      -0.5191      +0.3663    
- +0.1489      -0.06760     +0.2996      -0.3410      +0.6202</pre>
+ -0.2026      -0.01473     +0.2551      -0.5796      +0.2677    
+ -0.2233      +0.01254     +0.3051      -0.7585      +0.2527</pre>
 </div>
 
 <h3><a name="9">Demonstration 9</a></h3>

diff --git a/docs/function/bootlm.html b/docs/function/bootlm.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="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -395,10 +395,11 @@ <h2>bootlm</h2>
           bootstrap statistics for the comparisons are converted to estimates
           of Cohen's d standardized effect sizes. Cohen's d here is calculated
           from the residual standard deviation, which is estimated from the
-          bootstrap standard errors and the sample sizes. As such, the effect
-          sizes calculated exclude variability attributed to other predictors
-          in the model. To avoid small sample bias inflating effect sizes for
-          posthoc comparisons, use the 'bayesian' method with an 'auto' prior.
+          standard errors and the sample sizes. As such, the effect sizes
+          calculated exclude variability attributed to other predictors in
+          the model. To avoid small sample bias inflating effect sizes for
+          posthoc comparisons when use the 'bayesian' method, use the 'auto'
+          setting for the prior.
 
      '[...] = bootlm (Y, GROUP, ..., 'seed', SEED)' initialises the Mersenne
      Twister random number generator using an integer SEED value so that

diff --git a/docs/function/bootmode.html b/docs/function/bootmode.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -149,9 +149,9 @@ <h3><a name="1">Demonstration 1</a></h3>
 <p>Produces the following output</p>
 <pre class="example">ans = Summary of results:
 
-ans = H1 is 1 with p = 0.0005 so reject the null hypothesisthat there is 1 mode
+ans = H1 is 1 with p = 0.001 so reject the null hypothesisthat there is 1 mode
 
-ans = H2 is 0 with p = 0.33 so accept the null hypothesis that there are 2 modes</pre>
+ans = H2 is 0 with p = 0.324 so accept the null hypothesis that there are 2 modes</pre>
 </div>
 
 <p>Package: <a href="../index.html">statistics-resampling</a></p>

diff --git a/docs/function/bootstrp.html b/docs/function/bootstrp.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />

diff --git a/docs/function/bootwild.html b/docs/function/bootwild.html
@@ -3,7 +3,7 @@
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   <head>
   <meta http-equiv="content-type" content="text/html; charset=utf-8" />
-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />
@@ -42,7 +42,7 @@ <h2>bootwild</h2>
      confidence intervals and p-values [1-4]. The following statistics are
      printed to the standard output:
         - original: the mean of the data vector y
-        - std_err: heteroscedasticity-consistent standard error(s) (HC0)
+        - std_err: heteroscedasticity-consistent standard error(s) (HC1)
         - CI_lower: lower bound(s) of the 95% bootstrap-t confidence interval
         - CI_upper: upper bound(s) of the 95% bootstrap-t confidence interval
         - tstat: Student's t-statistic
@@ -173,14 +173,14 @@ <h3><a name="1">Demonstration 1</a></h3>
  Function: pinv (X) * y
  Resampling method: Wild bootstrap-t
  Number of resamples: 1999 
- Standard error calculations: Heteroscedasticity-Consistent (HC0)
+ Standard error calculations: Heteroscedasticity-Consistent (HC1)
  Confidence interval (CI) type: Symmetric bootstrap-t interval
  Nominal central coverage: 95%
  Null value (H0) used for hypothesis testing (p-values): 0 
 
 Test Statistics: 
  original     std_err      CI_lower     CI_upper     t-stat      p-val     FPR
- +184.5       +1.243       +181.6       +187.4       +148.       <.001    .010</pre>
+ +184.5       +1.310       +181.6       +187.4       +141.       <.001    .010</pre>
 </div>
 
 <h3><a name="2">Demonstration 2</a></h3>
@@ -211,15 +211,15 @@ <h3><a name="2">Demonstration 2</a></h3>
  Function: pinv (X) * y
  Resampling method: Wild bootstrap-t
  Number of resamples: 1999 
- Standard error calculations: Heteroscedasticity-Consistent (HC0)
+ Standard error calculations: Heteroscedasticity-Consistent (HC1)
  Confidence interval (CI) type: Symmetric bootstrap-t interval
  Nominal central coverage: 95%
  Null value (H0) used for hypothesis testing (p-values): 0 
 
 Test Statistics: 
  original     std_err      CI_lower     CI_upper     t-stat      p-val     FPR
- +175.5       +2.502       +169.9       +181.1       +70.1       <.001    .010
- +0.1904      +0.08261     +0.005723    +0.3751      +2.31        .046    .277</pre>
+ +175.5       +2.563       +169.8       +181.2       +68.5       <.001    .010
+ +0.1904      +0.08460     +0.003534    +0.3773      +2.25        .047    .280</pre>
 </div>
 
 <p>Package: <a href="../index.html">statistics-resampling</a></p>

diff --git a/docs/function/cor.html b/docs/function/cor.html
@@ -3,7 +3,7 @@
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-  <meta name="date" content="2024-05-24"/>
+  <meta name="date" content="2024-05-25"/>
   <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." />

diff --git a/docs/function/credint.html b/docs/function/credint.html
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+  <meta name="date" content="2024-05-25"/>
   <meta name="generator" content="generate_html 0.3.3" />
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   <meta name="description" content="A package for statistical analysis using resampling methods." />

diff --git a/docs/function/deffcalc.html b/docs/function/deffcalc.html
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   <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." />

diff --git a/docs/function/images/boot1way_701.png b/docs/function/images/boot1way_701.png
diff --git a/docs/function/images/boot1way_801.png b/docs/function/images/boot1way_801.png