diff --git a/docs/404.html b/docs/404.html index b7b4f49..379ce99 100644 --- a/docs/404.html +++ b/docs/404.html @@ -112,7 +112,7 @@

Page not found (404)

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/CONTRIBUTE.html b/docs/CONTRIBUTE.html index 9a53c55..bd16911 100644 --- a/docs/CONTRIBUTE.html +++ b/docs/CONTRIBUTE.html @@ -100,7 +100,7 @@

Some notes -

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/CONTRIBUTORS.html b/docs/CONTRIBUTORS.html index b5acfac..4fdcdb5 100644 --- a/docs/CONTRIBUTORS.html +++ b/docs/CONTRIBUTORS.html @@ -88,7 +88,7 @@

NA

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/LICENSE.html b/docs/LICENSE.html index 23b5d15..8de4495 100644 --- a/docs/LICENSE.html +++ b/docs/LICENSE.html @@ -280,7 +280,7 @@

How to Apply These Terms
-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/constraints.html b/docs/articles/constraints.html index c7fe343..7fa85f9 100644 --- a/docs/articles/constraints.html +++ b/docs/articles/constraints.html @@ -94,7 +94,7 @@

Constraints in semtree

Andreas M. Brandmaier

-

2024-03-25

+

2024-04-15

Source: vignettes/constraints.Rmd @@ -200,68 +200,61 @@

Global Invariance
tree.gc <- semtree(model.cfa, data=cfa.sim, constraints=
                    semtree.constraints(global.invariance = 
                                          c("F__x1","F__x2","F__x3","F__x4")))
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
-Fit attempt 0, fit=1259.86964139476, new current best! (was 23573.1076511312)
+Fit attempt 0, fit=1245.04605304561, new current best! (was 23512.9380282892)
                                                                              
-> Global Constraints:
+❯ Global Constraints:
 #> F__x1 F__x2 F__x3 F__x4
-#> > Freely Estimated Parameters:
+#> ❯ Freely Estimated Parameters:
 #> VAR_x1 VAR_x2 VAR_x3 VAR_x4 const__x2 const__x3 const__x4 const__F
 #> 
 Beginning initial fit attempt
-                             
-
-Beginning initial fit attempt
-Fit attempt 0, fit=626.987092715913, new current best! (was 868.957879718916)
-                                                                             
-
-Beginning initial fit attempt
-Fit attempt 0, fit=21.8133858849526, new current best! (was 297.189240590628)
-Beginning fit attempt 1 of at maximum 10 extra tries                         
-Fit attempt 1, fit=21.8133858848553, new current best! (was 21.8133858849526)
-Beginning fit attempt 2 of at maximum 10 extra tries                         
-Beginning fit attempt 3 of at maximum 10 extra tries
-Beginning fit attempt 4 of at maximum 10 extra tries
-Beginning fit attempt 5 of at maximum 10 extra tries
-Beginning fit attempt 6 of at maximum 10 extra tries
-Beginning fit attempt 7 of at maximum 10 extra tries
-Beginning fit attempt 8 of at maximum 10 extra tries
-Beginning fit attempt 9 of at maximum 10 extra tries
-Beginning fit attempt 10 of at maximum 10 extra tries
-                                                     
-
-Beginning initial fit attempt
-Fit attempt 0, fit=20.4870677058905, new current best! (was 329.797852125334)
-Beginning fit attempt 1 of at maximum 10 extra tries                         
-Beginning fit attempt 2 of at maximum 10 extra tries
-Beginning fit attempt 3 of at maximum 10 extra tries
-Beginning fit attempt 4 of at maximum 10 extra tries
-Beginning fit attempt 5 of at maximum 10 extra tries
-Beginning fit attempt 6 of at maximum 10 extra tries
-Beginning fit attempt 7 of at maximum 10 extra tries
-Beginning fit attempt 8 of at maximum 10 extra tries
-Beginning fit attempt 9 of at maximum 10 extra tries
-Beginning fit attempt 10 of at maximum 10 extra tries
-                                                     
-
-Beginning initial fit attempt
-Fit attempt 0, fit=140.391476915093, new current best! (was 390.911761675748)
-Beginning fit attempt 1 of at maximum 10 extra tries                         
-Fit attempt 1, fit=140.391476914989, new current best! (was 140.391476915093)
-Beginning fit attempt 2 of at maximum 10 extra tries                         
-Fit attempt 2, fit=140.391476914986, new current best! (was 140.391476914989)
-Beginning fit attempt 3 of at maximum 10 extra tries                         
-Beginning fit attempt 4 of at maximum 10 extra tries
-Beginning fit attempt 5 of at maximum 10 extra tries
-Beginning fit attempt 6 of at maximum 10 extra tries
-Beginning fit attempt 7 of at maximum 10 extra tries
-Beginning fit attempt 8 of at maximum 10 extra tries
-Beginning fit attempt 9 of at maximum 10 extra tries
-Beginning fit attempt 10 of at maximum 10 extra tries
-                                                     
-
[32m✔
[39m Tree construction finished [took 6s].
+Fit attempt 0, fit=1245.0460530455, new current best! (was 1245.04605304558) + + +Beginning initial fit attempt +Fit attempt 0, fit=700.981679486895, new current best! (was 935.197549062569) + + +Beginning initial fit attempt +Fit attempt 0, fit=82.3725219274684, new current best! (was 404.027616923408) +Beginning fit attempt 1 of at maximum 10 extra tries +Fit attempt 1, fit=82.3725219274052, new current best! (was 82.3725219274684) + + +Beginning initial fit attempt +Fit attempt 0, fit=-12.8178155443534, new current best! (was 296.954062563265) +Beginning fit attempt 1 of at maximum 10 extra tries +Fit attempt 1, fit=-12.8178155443725, new current best! (was -12.8178155443534) +Beginning fit attempt 2 of at maximum 10 extra tries +Beginning fit attempt 3 of at maximum 10 extra tries +Beginning fit attempt 4 of at maximum 10 extra tries +Beginning fit attempt 5 of at maximum 10 extra tries +Beginning fit attempt 6 of at maximum 10 extra tries +Beginning fit attempt 7 of at maximum 10 extra tries +Beginning fit attempt 8 of at maximum 10 extra tries +Beginning fit attempt 9 of at maximum 10 extra tries +Beginning fit attempt 10 of at maximum 10 extra tries + + +Beginning initial fit attempt +Fit attempt 0, fit=41.8996556241436, new current best! (was 309.848503983403) +Beginning fit attempt 1 of at maximum 10 extra tries +Fit attempt 1, fit=41.8996556240704, new current best! (was 41.8996556241436) +Beginning fit attempt 2 of at maximum 10 extra tries +Fit attempt 2, fit=41.8996556240695, new current best! (was 41.8996556240704) +Beginning fit attempt 3 of at maximum 10 extra tries +Beginning fit attempt 4 of at maximum 10 extra tries +Beginning fit attempt 5 of at maximum 10 extra tries +Beginning fit attempt 6 of at maximum 10 extra tries +Beginning fit attempt 7 of at maximum 10 extra tries +Beginning fit attempt 8 of at maximum 10 extra tries +Beginning fit attempt 9 of at maximum 10 extra tries +Beginning fit attempt 10 of at maximum 10 extra tries + +
[32m✔
[39m Tree construction finished [took less than a second]. 
 plot(tree.gc)

@@ -289,35 +282,36 @@

Local Invariance
tree.lc <- semtree(model.cfa, data=cfa.sim, constraints=
                    semtree.constraints(
                      local.invariance= c("F__x1","F__x2","F__x3","F__x4")))
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
-Fit attempt 0, fit=1259.86964139476, new current best! (was 23573.1076511312)
+Fit attempt 0, fit=1245.04605304561, new current best! (was 23512.9380282892)
                                                                              
-> No Invariance alpha selected. alpha.invariance set to:0.05
+❯ No Invariance alpha selected. alpha.invariance set to:0.05
 #> 
 Beginning initial fit attempt
-                             
-
-Beginning initial fit attempt
-Fit attempt 0, fit=594.224449688255, new current best! (was 868.957879718916)
-                                                                             
-
-Beginning initial fit attempt
-Fit attempt 0, fit=118.828548931502, new current best! (was 390.911761675748)
-Beginning fit attempt 1 of at maximum 10 extra tries                         
-Fit attempt 1, fit=118.828548931421, new current best! (was 118.828548931502)
-Beginning fit attempt 2 of at maximum 10 extra tries                         
-Beginning fit attempt 3 of at maximum 10 extra tries
-Beginning fit attempt 4 of at maximum 10 extra tries
-Beginning fit attempt 5 of at maximum 10 extra tries
-Beginning fit attempt 6 of at maximum 10 extra tries
-Beginning fit attempt 7 of at maximum 10 extra tries
-Beginning fit attempt 8 of at maximum 10 extra tries
-Beginning fit attempt 9 of at maximum 10 extra tries
-Beginning fit attempt 10 of at maximum 10 extra tries
-                                                     
-
[32m✔
[39m Tree construction finished [took 5s].
+Fit attempt 0, fit=1245.04605304549, new current best! (was 1245.04605304561) + + +Beginning initial fit attempt +Fit attempt 0, fit=674.376601044165, new current best! (was 935.197546229974) + + +Beginning initial fit attempt +Fit attempt 0, fit=14.8502289550343, new current best! (was 309.84850681597) +Beginning fit attempt 1 of at maximum 10 extra tries +Fit attempt 1, fit=14.8502289550283, new current best! (was 14.8502289550343) +Beginning fit attempt 2 of at maximum 10 extra tries +Beginning fit attempt 3 of at maximum 10 extra tries +Beginning fit attempt 4 of at maximum 10 extra tries +Beginning fit attempt 5 of at maximum 10 extra tries +Beginning fit attempt 6 of at maximum 10 extra tries +Beginning fit attempt 7 of at maximum 10 extra tries +Beginning fit attempt 8 of at maximum 10 extra tries +Beginning fit attempt 9 of at maximum 10 extra tries +Beginning fit attempt 10 of at maximum 10 extra tries + +
[32m✔
[39m Tree construction finished [took 1s].

Now we find p1 as the only predictor that yields subgroups that pass the measurement invariance test. Even though we have chosen the four factor loadings as local.invariance @@ -379,11 +373,11 @@

Focus Parameters#> #> free parameters: #> name matrix row col Estimate Std.Error A -#> 1 VAR_x1 S x1 x1 4.0283800 0.18015521 -#> 2 COV_x1_x2 S x1 x2 0.3039196 0.11444978 -#> 3 VAR_x2 S x2 x2 3.2282345 0.14437113 -#> 4 mu1 M 1 x1 1.4187341 0.06346967 -#> 5 mu2 M 1 x2 1.4628999 0.05681795 +#> 1 VAR_x1 S x1 x1 4.0283800 0.18015309 +#> 2 COV_x1_x2 S x1 x2 0.3039196 0.11443882 +#> 3 VAR_x2 S x2 x2 3.2282345 0.14437055 +#> 4 mu1 M 1 x1 1.4187341 0.06346921 +#> 5 mu2 M 1 x2 1.4628999 0.05681732 #> #> Model Statistics: #> | Parameters | Degrees of Freedom | Fit (-2lnL units) @@ -401,15 +395,15 @@

Focus Parameters#> RMSEA: 0 [95% CI (NA, NA)] #> Prob(RMSEA <= 0.05): NA #> To get additional fit indices, see help(mxRefModels) -#> timestamp: 2024-03-25 12:03:04 -#> Wall clock time: 0.04624796 secs +#> timestamp: 2024-04-15 22:32:57 +#> Wall clock time: 0.009307146 secs #> optimizer: SLSQP #> OpenMx version number: 2.21.1 #> Need help? See help(mxSummary)

Now, we grow a tree without constraints:


 tree.biv <- semtree(model.biv, data=df.biv)
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
 Fit attempt 0, fit=8233.92582585158, new current best! (was 14528.4141425595)
@@ -420,29 +414,29 @@ 
Focus Parameters                                                                             
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3454.12434636158, new current best! (was 4066.88531949563)
+Fit attempt 0, fit=3454.12434636158, new current best! (was 4066.88531930229)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=1555.54412300078, new current best! (was 1720.05414322814)
+Fit attempt 0, fit=1555.54412300078, new current best! (was 1720.05414323192)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=1569.26472590267, new current best! (was 1734.07020313343)
+Fit attempt 0, fit=1569.26472590267, new current best! (was 1734.07020312965)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3566.5692080098, new current best! (was 4167.0405063558)
-                                                                           
+Fit attempt 0, fit=3566.5692080098, new current best! (was 4167.04050654914)
+                                                                            
 
 Beginning initial fit attempt
-Fit attempt 0, fit=1593.91684303245, new current best! (was 1780.60715330577)
+Fit attempt 0, fit=1593.91684303245, new current best! (was 1780.60715331027)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=1576.27862642528, new current best! (was 1785.96205470403)
+Fit attempt 0, fit=1576.27862642528, new current best! (was 1785.96205469953)
                                                                              
-
[32m✔
[39m Tree construction finished [took 3s].
+
[32m✔
[39m Tree construction finished [took less than a second].

As expected, we obtain a tree structure that has both p1 and p2 (here we use the viridis colors to give each leaf node a different frame color, which we’ll use later again):

@@ -482,7 +476,7 @@

Focus Parameters

 tree.biv2 <- semtree(model.biv, df.biv, constraints=
                       semtree.constraints(focus.parameters = "mu1"))
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
 Fit attempt 0, fit=8233.92582585158, new current best! (was 14528.4141425595)
@@ -493,13 +487,13 @@ 
Focus Parameters                                                                             
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3740.92185296731, new current best! (was 4086.36288876948)
+Fit attempt 0, fit=3740.92185296731, new current best! (was 4086.36288893237)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3795.16307144921, new current best! (was 4147.56293708195)
+Fit attempt 0, fit=3795.16307144921, new current best! (was 4147.56293691906)
                                                                              
-
[32m✔
[39m Tree construction finished [took 2s].
+
[32m✔
[39m Tree construction finished [took less than a second]. 
 plot(tree.biv2)

@@ -511,7 +505,7 @@

Focus Parameters

 tree.biv3 <- semtree(model.biv, df.biv, constraints=
                       semtree.constraints(focus.parameters = "mu2"))
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
 Fit attempt 0, fit=8233.92582585158, new current best! (was 14528.4141425595)
@@ -522,13 +516,13 @@ 
Focus Parameters                                                                             
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3454.12434636158, new current best! (was 4066.88531949563)
+Fit attempt 0, fit=3454.12434636158, new current best! (was 4066.88531930229)
                                                                              
 
 Beginning initial fit attempt
-Fit attempt 0, fit=3566.5692080098, new current best! (was 4167.0405063558)
-                                                                           
-
[32m✔
[39m Tree construction finished [took 2s].
+Fit attempt 0, fit=3566.5692080098, new current best! (was 4167.04050654914) + +
[32m✔
[39m Tree construction finished [took less than a second].

And, indeed, we see only grp2 as predictor whereas grp1 was not selected this time.

@@ -541,7 +535,7 @@ 
Focus Parameters

 tree.biv4 <- semtree(model.biv, df.biv, constraints=
                       semtree.constraints(focus.parameters = "VAR_x2"))
-#> > Model was not run. Estimating parameters now.
+#> ❯ Model was not run. Estimating parameters now.
 #> 
 Beginning initial fit attempt
 Fit attempt 0, fit=8233.92582585158, new current best! (was 14528.4141425595)
@@ -550,7 +544,7 @@ 
Focus ParametersBeginning initial fit attempt
 Fit attempt 0, fit=8233.92582585143, new current best! (was 8233.92582585158)
                                                                              
-
[32m✔
[39m Tree construction finished [took 1s].
+
[32m✔
[39m Tree construction finished [took less than a second].
 
 plot(tree.biv4)

@@ -575,7 +569,7 @@

Focus Parameters

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/constraints_files/figure-html/plbv2-1.png b/docs/articles/constraints_files/figure-html/plbv2-1.png index 9f97b31..2441608 100644 Binary files a/docs/articles/constraints_files/figure-html/plbv2-1.png and b/docs/articles/constraints_files/figure-html/plbv2-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-10-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-10-1.png index aaf7f14..ad1756f 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-10-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-10-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-11-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-11-1.png index 9b4d438..e3d44d2 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-11-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-11-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-12-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-12-1.png index 10cdbd1..7585b2c 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-12-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-12-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-14-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-14-1.png index 26296be..88d33d5 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-14-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-14-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-15-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-15-1.png index fea4170..41ba7dc 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-15-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-15-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-4-1.png index ecf3969..66505ec 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-4-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-4-1.png differ diff --git a/docs/articles/constraints_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/constraints_files/figure-html/unnamed-chunk-6-1.png index 3e1eb5f..2a78766 100644 Binary files a/docs/articles/constraints_files/figure-html/unnamed-chunk-6-1.png and b/docs/articles/constraints_files/figure-html/unnamed-chunk-6-1.png differ diff --git a/docs/articles/forests.html b/docs/articles/forests.html index c698c65..a3063da 100644 --- a/docs/articles/forests.html +++ b/docs/articles/forests.html @@ -94,7 +94,7 @@

SEM Forests

Andreas Brandmaier

-

2024-03-25

+

2024-04-15

Source: vignettes/forests.Rmd @@ -359,8 +359,8 @@

Create simple model of state anxie #> RMSEA: 0 [95% CI (NA, NA)] #> Prob(RMSEA <= 0.05): NA #> To get additional fit indices, see help(mxRefModels) -#> timestamp: 2024-03-25 12:03:32 -#> Wall clock time: 0.114706 secs +#> timestamp: 2024-04-15 22:33:05 +#> Wall clock time: 0.02428603 secs #> optimizer: SLSQP #> OpenMx version number: 2.21.1 #> Need help? See help(mxSummary) @@ -374,7 +374,7 @@

Forest up computation time, consider score-based test for variable selection in the trees.

-control <- semforest.control(num.trees = 5)
+control <- semforest_control(num.trees = 5)
 print(control)
 #> SEM-Forest control:
 #> -----------------
@@ -413,8 +413,10 @@ 
Variable importancevim <- varimp(forest)
 print(vim, sort.values=TRUE)
 #> Variable Importance
-#>    Study      PA2     Film      NA2   state1      TA2 
-#>  0.00000 28.06156 35.63105 38.45805 42.92733 45.01637
+#>         Study           PA2        state1           TA2          Film 
+#> -9.659311e-08  9.418006e+00  1.218599e+01  2.066494e+01  2.537268e+01 
+#>           NA2 
+#>  3.658740e+01
 plot(vim)

From this, we can learn that variables such as NA2 @@ -443,7 +445,7 @@

Variable importance

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/forests_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/forests_files/figure-html/unnamed-chunk-6-1.png index 13f899b..8d75b91 100644 Binary files a/docs/articles/forests_files/figure-html/unnamed-chunk-6-1.png and b/docs/articles/forests_files/figure-html/unnamed-chunk-6-1.png differ diff --git a/docs/articles/getting-started.html b/docs/articles/getting-started.html index 488ced1..b2b6bf1 100644 --- a/docs/articles/getting-started.html +++ b/docs/articles/getting-started.html @@ -108,6 +108,7 @@

Load the Package
 library(semtree)
 #> Loading required package: OpenMx
+#> OpenMx may run faster if it is compiled to take advantage of multiple cores.
 library(OpenMx)
@@ -201,7 +202,10 @@

Specify an OpenMx model # fit the model to the entire dataset growthCurveModel <- mxRun(growthCurveModel) -#> Running Linear Growth Curve Model Path Specification with 6 parameters

+#> Running Linear Growth Curve Model Path Specification with 6 parameters +#> Warning: In model 'Linear Growth Curve Model Path Specification' Optimizer +#> returned a non-zero status code 5. The Hessian at the solution does not appear +#> to be convex. See ?mxCheckIdentification for possible diagnosis (Mx status RED).

Run a tree @@ -241,7 +245,7 @@

Plotting

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/getting-started_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/getting-started_files/figure-html/unnamed-chunk-4-1.png index 32d3cf2..f3cdf87 100644 Binary files a/docs/articles/getting-started_files/figure-html/unnamed-chunk-4-1.png and b/docs/articles/getting-started_files/figure-html/unnamed-chunk-4-1.png differ diff --git a/docs/articles/index.html b/docs/articles/index.html index 5d10705..3d99133 100644 --- a/docs/articles/index.html +++ b/docs/articles/index.html @@ -92,7 +92,7 @@

All vignettes

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/score-based-tests.html b/docs/articles/score-based-tests.html index 9489cf6..cc5b0ef 100644 --- a/docs/articles/score-based-tests.html +++ b/docs/articles/score-based-tests.html @@ -94,7 +94,7 @@

SEM Trees with score-based tests

Andreas M. Brandmaier

-

2024-03-25

+

2024-04-15

Source: vignettes/score-based-tests.Rmd @@ -220,6 +220,7 @@

Create simple model of state anxie variance of DeltaPA.

 library(OpenMx)
+#> OpenMx may run faster if it is compiled to take advantage of multiple cores.
 manifests<-c("DeltaPA")
 latents<-c()
 model <- mxModel("Simple Model", 
@@ -257,8 +258,8 @@ 
Create simple model of state anxie
 #> RMSEA:  0  [95% CI (NA, NA)]
 #> Prob(RMSEA <= 0.05): NA
 #> To get additional fit indices, see help(mxRefModels)
-#> timestamp: 2024-03-25 12:06:18 
-#> Wall clock time: 0.112819 secs 
+#> timestamp: 2024-04-15 22:33:34 
+#> Wall clock time: 0.02639604 secs 
 #> optimizer:  SLSQP 
 #> OpenMx version number: 2.21.1 
 #> Need help?  See help(mxSummary)
@@ -330,7 +331,7 @@

Score-based Tests

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-6-1.png index 2215fd0..467c4b7 100644 Binary files a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-6-1.png and b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-6-1.png differ diff --git a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-7-1.png b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-7-1.png index 281ee5e..bdc024d 100644 Binary files a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-7-1.png and b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-7-1.png differ diff --git a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-8-1.png b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-8-1.png index e9f8fa0..1064335 100644 Binary files a/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-8-1.png and b/docs/articles/score-based-tests_files/figure-html/unnamed-chunk-8-1.png differ diff --git a/docs/articles/semforest-focus.html b/docs/articles/semforest-focus.html index 9e2203a..3defd3c 100644 --- a/docs/articles/semforest-focus.html +++ b/docs/articles/semforest-focus.html @@ -94,7 +94,7 @@

Focus parameters in SEM forests

Andreas M. Brandmaier

-

2024-03-25

+

2024-04-15

Source: vignettes/semforest-focus.Rmd @@ -116,6 +116,7 @@

2024-03-25

library(semtree) #> Loading required package: OpenMx +#> OpenMx may run faster if it is compiled to take advantage of multiple cores. set.seed(123) N <- 1000 grp1 <- factor(sample(x = c(0,1), size=N, replace=TRUE)) @@ -154,11 +155,11 @@

2024-03-25

#> #> free parameters: #> name matrix row col Estimate Std.Error A -#> 1 VAR_x1 S x1 x1 4.0583666 0.18149512 -#> 2 COV_x1_x2 S x1 x2 0.1970528 0.11385399 -#> 3 VAR_x2 S x2 x2 3.1848900 0.14243121 -#> 4 mu1 M 1 x1 1.4858354 0.06370452 -#> 5 mu2 M 1 x2 1.4551364 0.05643442 +#> 1 VAR_x1 S x1 x1 4.0583666 0.18149573 +#> 2 COV_x1_x2 S x1 x2 0.1970528 0.11384948 +#> 3 VAR_x2 S x2 x2 3.1848900 0.14243161 +#> 4 mu1 M 1 x1 1.4858354 0.06370544 +#> 5 mu2 M 1 x2 1.4551364 0.05643474 #> #> Model Statistics: #> | Parameters | Degrees of Freedom | Fit (-2lnL units) @@ -176,8 +177,8 @@

2024-03-25

#> RMSEA: 0 [95% CI (NA, NA)] #> Prob(RMSEA <= 0.05): NA #> To get additional fit indices, see help(mxRefModels) -#> timestamp: 2024-03-25 12:06:44 -#> Wall clock time: 0.123879 secs +#> timestamp: 2024-04-15 22:33:42 +#> Wall clock time: 0.02595901 secs #> optimizer: SLSQP #> OpenMx version number: 2.21.1 #> Need help? See help(mxSummary) @@ -240,7 +241,7 @@

2024-03-25

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-4-1.png index 7a40f4d..f27d790 100644 Binary files a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-4-1.png and b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-4-1.png differ diff --git a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-6-1.png index ad01d51..ed33957 100644 Binary files a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-6-1.png and b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-6-1.png differ diff --git a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-8-1.png b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-8-1.png index 5fbbedb..d34bf06 100644 Binary files a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-8-1.png and b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-8-1.png differ diff --git a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-9-1.png b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-9-1.png index c8631b4..13643a9 100644 Binary files a/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-9-1.png and b/docs/articles/semforest-focus_files/figure-html/unnamed-chunk-9-1.png differ diff --git a/docs/authors.html b/docs/authors.html index 2fcfd84..7f21068 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -118,7 +118,7 @@

Citation

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/index.html b/docs/index.html index 81f3909..ba3d0a9 100644 --- a/docs/index.html +++ b/docs/index.html @@ -115,7 +115,7 @@

Install
install.packages("semtree")

To install the latest semtree package directly from GitHub, copy the following line into R:

library(devtools)
-devtools::install_github("semtree/brandmaier")
+devtools::install_github("brandmaier/semtree")
 
 # even better: install with package vignette (extra documentation)
 devtools::install_github("brandmaier/semtree",force=TRUE, build_opts = c())
@@ -124,7 +124,6 @@

InstallUsage

Package documentation and use-cases with runnable R code can be found on our github pages: https://brandmaier.github.io/semtree/.

-

You may also want to visit the semtree website: https://brandmaier.de/semtree

Package vignettes (shipped with the package) contain documentation on how to use the package. Simply type this in R once you have loaded the package:

browseVignettes("semtree")
@@ -208,7 +207,7 @@

Dev status

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/news/index.html b/docs/news/index.html index a5a0ac0..602ef20 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -70,14 +70,18 @@

Changelog

-

semtree 0.9.20 (2024)

+

semtree 0.9.20 (2024)2024-04-08

semtree 0.9.19 (2023)2023-11-26

-
-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 3c5f762..b068673 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -1,5 +1,5 @@ pandoc: 3.1.1 -pkgdown: 2.0.7 +pkgdown: 2.0.6 pkgdown_sha: ~ articles: constraints: constraints.html @@ -7,5 +7,5 @@ articles: getting-started: getting-started.html score-based-tests: score-based-tests.html semforest-focus: semforest-focus.html -last_built: 2024-03-25T11:02Z +last_built: 2024-04-15T20:32Z diff --git a/docs/reference/biodiversity.html b/docs/reference/biodiversity.html index dc342e2..11f811e 100644 --- a/docs/reference/biodiversity.html +++ b/docs/reference/biodiversity.html @@ -106,7 +106,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/boruta.html b/docs/reference/boruta.html new file mode 100644 index 0000000..49aaa97 --- /dev/null +++ b/docs/reference/boruta.html @@ -0,0 +1,144 @@ + +BORUTA algorithm for SEM trees — boruta • semtree + + +
+
+ + + +
+
+
+

BORUTA algorithm for SEM trees

+ Source: R/boruta.R + +
+ +
+

BORUTA algorithm for SEM trees

+
+ +
+ 
boruta(
+  model,
+  data,
+  control = NULL,
+  predictors = NULL,
+  percentile_threshold = 100,
+  rounds = 1,
+  ...
+)
+
+ +
+

Arguments

+
model
+

A template model specification from OpenMx using +the mxModel function (or a lavaan model +using the lavaan function with option fit=FALSE). +Model must be syntactically correct within the framework chosen, and +converge to a solution.

+ + +
data
+

Data.frame used in the model creation using +mxModel or lavaan are input here. Order +of modeled variables and predictors is not important when providing a +dataset to semtree.

+ + +
control
+

semtree model specifications from +semtree.control are input here. Any changes from the default +setting can be specified here.

+ + +
percentile_threshold
+

Numeric.

+ + +
rounds
+

Numeric. Number of rounds of the BORUTA algorithm.

+ +
+ +
+ +
+ + +
+ + + + + + + + diff --git a/docs/reference/coef.semtree.html b/docs/reference/coef.semtree.html index 932c9f3..23fa2ba 100644 --- a/docs/reference/coef.semtree.html +++ b/docs/reference/coef.semtree.html @@ -103,7 +103,7 @@

Arguments

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/computePval_maxLR.html b/docs/reference/computePval_maxLR.html index 98e1109..a287623 100644 --- a/docs/reference/computePval_maxLR.html +++ b/docs/reference/computePval_maxLR.html @@ -101,7 +101,7 @@

Arguments

from

numeric from interval (0, 1) specifying start of trimmed -sample period. With the default +sample period. With the default from = 0.15 the first and last 15 percent of observations are trimmed. This is only needed for continuous covariates.

@@ -112,7 +112,7 @@

Arguments

nrep
-

numeric. Number of replications used for simulating from the asymptotic +

numeric. Number of replications used for simulating from the asymptotic distribution (passed to efpFunctional). Only needed for ordinal covariates.

@@ -140,7 +140,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/diversityMatrix.html b/docs/reference/diversityMatrix.html index 87d80ae..5b6a210 100644 --- a/docs/reference/diversityMatrix.html +++ b/docs/reference/diversityMatrix.html @@ -105,7 +105,7 @@

Arguments

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/evaluate.html b/docs/reference/evaluate.html index bfb8cca..9f24fa1 100644 --- a/docs/reference/evaluate.html +++ b/docs/reference/evaluate.html @@ -126,7 +126,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/evaluateDataLikelihood.html b/docs/reference/evaluateDataLikelihood.html index b4acd2c..12dc6fa 100644 --- a/docs/reference/evaluateDataLikelihood.html +++ b/docs/reference/evaluateDataLikelihood.html @@ -130,7 +130,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/evaluateTree.html b/docs/reference/evaluateTree.html index 6ff1b93..e161d5f 100644 --- a/docs/reference/evaluateTree.html +++ b/docs/reference/evaluateTree.html @@ -147,7 +147,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/findOtherSplits.html b/docs/reference/findOtherSplits.html index 23de1d1..0a96e01 100644 --- a/docs/reference/findOtherSplits.html +++ b/docs/reference/findOtherSplits.html @@ -127,7 +127,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/fitSubmodels.html b/docs/reference/fitSubmodels.html index 2a45b5f..baa33df 100644 --- a/docs/reference/fitSubmodels.html +++ b/docs/reference/fitSubmodels.html @@ -125,7 +125,7 @@

Arguments

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getDepth.html b/docs/reference/getDepth.html index 1e8fd34..d8f49f1 100644 --- a/docs/reference/getDepth.html +++ b/docs/reference/getDepth.html @@ -107,7 +107,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getHeight.html b/docs/reference/getHeight.html index 4e4abd2..4164647 100644 --- a/docs/reference/getHeight.html +++ b/docs/reference/getHeight.html @@ -109,7 +109,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getLeafs.html b/docs/reference/getLeafs.html index 3d86539..05ffd09 100644 --- a/docs/reference/getLeafs.html +++ b/docs/reference/getLeafs.html @@ -117,7 +117,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getNodeById.html b/docs/reference/getNodeById.html index 6a659fb..9fc062e 100644 --- a/docs/reference/getNodeById.html +++ b/docs/reference/getNodeById.html @@ -111,7 +111,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getNumNodes.html b/docs/reference/getNumNodes.html index 6e406d6..2caa285 100644 --- a/docs/reference/getNumNodes.html +++ b/docs/reference/getNumNodes.html @@ -107,7 +107,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getParDiffForest.html b/docs/reference/getParDiffForest.html index 8275196..6c46131 100644 --- a/docs/reference/getParDiffForest.html +++ b/docs/reference/getParDiffForest.html @@ -127,7 +127,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getParDiffTree.html b/docs/reference/getParDiffTree.html index daebfc3..2554209 100644 --- a/docs/reference/getParDiffTree.html +++ b/docs/reference/getParDiffTree.html @@ -126,7 +126,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/getTerminalNodes.html b/docs/reference/getTerminalNodes.html index 48e9230..826922e 100644 --- a/docs/reference/getTerminalNodes.html +++ b/docs/reference/getTerminalNodes.html @@ -107,7 +107,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/index.html b/docs/reference/index.html index 8abc0c4..f4d6953 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -76,6 +76,10 @@

All functions biodiversity()

Quantify bio diversity of a SEM Forest

+ +

boruta()

+ +

BORUTA algorithm for SEM trees

coef(<semtree>)

@@ -209,18 +213,22 @@

All functions se()

SEMtrees Parameter Estimates Standard Error Table

- -

semforest.control()

- -

SEM Forest Control Object

semforest()

Create a SEM Forest

+ +

semforest.control()

+ +

SEM Forest Control Object

.SCALE_METRIC

SEM Tree Package

+ +

semtree()

+ +

SEM Tree: Recursive Partitioning for Structural Equation Models

semtree.constraints()

@@ -229,10 +237,6 @@

All functions semtree.control()

SEM Tree Control Object

- -

semtree()

- -

SEM Tree: Recursive Partitioning for Structural Equation Models

strip()

@@ -266,7 +270,7 @@

All functions
-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/isLeaf.html b/docs/reference/isLeaf.html index 69d0642..1704863 100644 --- a/docs/reference/isLeaf.html +++ b/docs/reference/isLeaf.html @@ -107,7 +107,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/kl.html b/docs/reference/kl.html index 963587f..ec87c7b 100644 --- a/docs/reference/kl.html +++ b/docs/reference/kl.html @@ -111,7 +111,7 @@

Arguments

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/lgcm.html b/docs/reference/lgcm.html index 1b75505..582e91f 100644 --- a/docs/reference/lgcm.html +++ b/docs/reference/lgcm.html @@ -98,7 +98,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/merge.semforest.html b/docs/reference/merge.semforest.html index f982d72..c0b76d5 100644 --- a/docs/reference/merge.semforest.html +++ b/docs/reference/merge.semforest.html @@ -120,7 +120,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/modelEstimates.html b/docs/reference/modelEstimates.html index 1aeded2..22c378e 100644 --- a/docs/reference/modelEstimates.html +++ b/docs/reference/modelEstimates.html @@ -111,7 +111,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/outliers.html b/docs/reference/outliers.html index ea6b549..7b203e5 100644 --- a/docs/reference/outliers.html +++ b/docs/reference/outliers.html @@ -111,7 +111,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/parameters.html b/docs/reference/parameters.html index a55d011..351eac2 100644 --- a/docs/reference/parameters.html +++ b/docs/reference/parameters.html @@ -133,7 +133,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/partialDependence.html b/docs/reference/partialDependence.html index 55a7b14..0c6c4de 100644 --- a/docs/reference/partialDependence.html +++ b/docs/reference/partialDependence.html @@ -121,7 +121,7 @@

Arguments

mc

Integer. If mc is not NULL, the function will sample -mc number of rows from data with replacement, to estimate +mc number of rows from data with replacement, to estimate marginal dependency using Monte Carlo integration. This is less computationally expensive.

@@ -152,7 +152,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/partialDependence_data.html b/docs/reference/partialDependence_data.html index f334dcd..84b24b0 100644 --- a/docs/reference/partialDependence_data.html +++ b/docs/reference/partialDependence_data.html @@ -143,7 +143,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/partialDependence_growth.html b/docs/reference/partialDependence_growth.html index 13e2c2b..2ff2602 100644 --- a/docs/reference/partialDependence_growth.html +++ b/docs/reference/partialDependence_growth.html @@ -123,7 +123,7 @@

Arguments

mc

Integer. If mc is not NULL, the function will sample -mc number of rows from data with replacement, to estimate +mc number of rows from data with replacement, to estimate marginal dependency using Monte Carlo integration. This is less computationally expensive.

@@ -166,7 +166,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/plotParDiffForest.html b/docs/reference/plotParDiffForest.html index 85c0191..bfeda12 100644 --- a/docs/reference/plotParDiffForest.html +++ b/docs/reference/plotParDiffForest.html @@ -137,7 +137,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/plotParDiffTree.html b/docs/reference/plotParDiffTree.html index 5485373..ad13d74 100644 --- a/docs/reference/plotParDiffTree.html +++ b/docs/reference/plotParDiffTree.html @@ -137,7 +137,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/plotTreeStructure.html b/docs/reference/plotTreeStructure.html index c4b7ba6..e567f38 100644 --- a/docs/reference/plotTreeStructure.html +++ b/docs/reference/plotTreeStructure.html @@ -118,7 +118,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/predict.semforest.html b/docs/reference/predict.semforest.html index 500da79..75bd082 100644 --- a/docs/reference/predict.semforest.html +++ b/docs/reference/predict.semforest.html @@ -121,7 +121,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/proximity.html b/docs/reference/proximity.html index 5bb7720..3ebf7a4 100644 --- a/docs/reference/proximity.html +++ b/docs/reference/proximity.html @@ -147,7 +147,7 @@

Examples

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/prune.html b/docs/reference/prune.html index 38efb56..b260d99 100644 --- a/docs/reference/prune.html +++ b/docs/reference/prune.html @@ -133,7 +133,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/se.html b/docs/reference/se.html index 3b8e3ad..f2bd3bb 100644 --- a/docs/reference/se.html +++ b/docs/reference/se.html @@ -133,7 +133,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semforest.control.html b/docs/reference/semforest.control.html index 267bdb8..434c854 100644 --- a/docs/reference/semforest.control.html +++ b/docs/reference/semforest.control.html @@ -131,7 +131,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semforest.html b/docs/reference/semforest.html index 7a3862f..d392d0a 100644 --- a/docs/reference/semforest.html +++ b/docs/reference/semforest.html @@ -149,7 +149,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semtree-package.html b/docs/reference/semtree-package.html index 7e87eb4..76faa80 100644 --- a/docs/reference/semtree-package.html +++ b/docs/reference/semtree-package.html @@ -95,7 +95,7 @@

Format

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semtree.constraints.html b/docs/reference/semtree.constraints.html index 5e47242..4a16649 100644 --- a/docs/reference/semtree.constraints.html +++ b/docs/reference/semtree.constraints.html @@ -138,7 +138,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semtree.control.html b/docs/reference/semtree.control.html index c92a2d7..6df300c 100644 --- a/docs/reference/semtree.control.html +++ b/docs/reference/semtree.control.html @@ -104,7 +104,7 @@

SEM Tree Control Object

semtree.control(
-  method = "naive",
+  method = c("naive", "score", "fair", "fair3"),
   min.N = 20,
   max.depth = NA,
   alpha = 0.05,
@@ -334,7 +334,7 @@ 
Examples
-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/semtree.html b/docs/reference/semtree.html index 2c8ba28..d773752 100644 --- a/docs/reference/semtree.html +++ b/docs/reference/semtree.html @@ -206,7 +206,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/strip.html b/docs/reference/strip.html index 636d241..3fdd227 100644 --- a/docs/reference/strip.html +++ b/docs/reference/strip.html @@ -133,7 +133,7 @@

Examples

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/subforest.html b/docs/reference/subforest.html index 40b6021..1a56b3c 100644 --- a/docs/reference/subforest.html +++ b/docs/reference/subforest.html @@ -124,7 +124,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/subtree.html b/docs/reference/subtree.html index 93e7052..a7c7a16 100644 --- a/docs/reference/subtree.html +++ b/docs/reference/subtree.html @@ -139,7 +139,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/toTable.html b/docs/reference/toTable.html index 5623eb2..12f3f0a 100644 --- a/docs/reference/toTable.html +++ b/docs/reference/toTable.html @@ -118,7 +118,7 @@

Author

-

Site built with pkgdown 2.0.7.

+

Site built with pkgdown 2.0.6.

diff --git a/docs/reference/varimp.html b/docs/reference/varimp.html index b9aeb1d..55095aa 100644 --- a/docs/reference/varimp.html +++ b/docs/reference/varimp.html @@ -145,7 +145,7 @@

Author

-

Site built with pkgdown 2.0.7.

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Site built with pkgdown 2.0.6.

diff --git a/docs/sitemap.xml b/docs/sitemap.xml index f67421c..56460eb 100644 --- a/docs/sitemap.xml +++ b/docs/sitemap.xml @@ -3,6 +3,15 @@ /404.html + + /CONTRIBUTE.html + + + /CONTRIBUTORS.html + + + /LICENSE.html + /articles/constraints.html @@ -24,27 +33,21 @@ /authors.html - - /CONTRIBUTE.html - - - /CONTRIBUTORS.html - /cran_comments.html /index.html - - /LICENSE.html - /news/index.html /reference/biodiversity.html + + /reference/boruta.html + /reference/coef.semtree.html