diff --git a/articles/Unico-Tutorial.html b/articles/Unico-Tutorial.html index 7451311..a1116e0 100644 --- a/articles/Unico-Tutorial.html +++ b/articles/Unico-Tutorial.html @@ -96,7 +96,7 @@

Load the Unico package andlibrary(matrixStats) #For visualization in this vignette -install.packages(c("ggplot2","ggpubr","hexbin")) +install.packages(c("ggplot2","ggpubr","hexbin", "egg")) source("https://github.com/cozygene/Unico/raw/main/vignettes/vignetts.utils.r")
diff --git a/pkgdown.yml b/pkgdown.yml index 822ab9f..a312a4d 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -3,5 +3,5 @@ pkgdown: 2.0.7 pkgdown_sha: ~ articles: Unico-Tutorial: Unico-Tutorial.html -last_built: 2024-01-11T06:42Z +last_built: 2024-01-11T08:02Z diff --git a/reference/Unico.html b/reference/Unico.html index 7738ee0..e405fe5 100644 --- a/reference/Unico.html +++ b/reference/Unico.html @@ -231,18 +231,18 @@

Details

Examples

- 
data = simulate_data(n = 100, m = 2, k = 3, p1 = 1, p2 = 1, taus_std = 0, log_file = NULL)
-#> INFO [2024-01-11 06:43:02] Start simulation ...
-#> INFO [2024-01-11 06:43:02] Finished simulation
+    
data = simulate_data(n=100, m=2, k=3, p1=1, p2=1, taus_std=0, log_file=NULL)
+#> INFO [2024-01-11 08:02:07] Start simulation ...
+#> INFO [2024-01-11 08:02:07] Finished simulation
 res = list()
 res$params.hat = Unico(data$X, data$W, data$C1, data$C2, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:02] Starting Unico ...
-#> INFO [2024-01-11 06:43:02] Validate Unico inputs
-#> INFO [2024-01-11 06:43:02] Starting parameter learning ...
+#> INFO [2024-01-11 08:02:07] Starting Unico ...
+#> INFO [2024-01-11 08:02:07] Validate Unico inputs
+#> INFO [2024-01-11 08:02:07] Starting parameter learning ...
 #> 
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  |+++++++++++++++++++++++++                         | 50% ~00s          
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-#> INFO [2024-01-11 06:43:02] Formating results ...
-#> INFO [2024-01-11 06:43:02] Capping extreme values in estimated parameters
-#> INFO [2024-01-11 06:43:02] Finished parameter learning
+#> INFO [2024-01-11 08:02:08] Formating results ...
+#> INFO [2024-01-11 08:02:08] Capping extreme values in estimated parameters
+#> INFO [2024-01-11 08:02:08] Finished parameter learning
diff --git a/reference/association_asymptotic.html b/reference/association_asymptotic.html index a891734..5c36da9 100644 --- a/reference/association_asymptotic.html +++ b/reference/association_asymptotic.html @@ -182,25 +182,25 @@

Details

Examples

- 
data = simulate_data(n = 100, m = 2, k = 3, p1 = 1, p2 = 1, taus_std = 0, log_file = NULL)
-#> INFO [2024-01-11 06:43:03] Start simulation ...
-#> INFO [2024-01-11 06:43:03] Finished simulation
+    
data = simulate_data(n=100, m=2, k=3, p1=1, p2=1, taus_std=0, log_file=NULL)
+#> INFO [2024-01-11 08:02:08] Start simulation ...
+#> INFO [2024-01-11 08:02:08] Finished simulation
 res = list()
 res$params.hat = Unico(data$X, data$W, data$C1, data$C2, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:03] Starting Unico ...
-#> INFO [2024-01-11 06:43:03] Validate Unico inputs
-#> INFO [2024-01-11 06:43:03] Starting parameter learning ...
+#> INFO [2024-01-11 08:02:08] Starting Unico ...
+#> INFO [2024-01-11 08:02:08] Validate Unico inputs
+#> INFO [2024-01-11 08:02:08] Starting parameter learning ...
 #> 
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  |+++++++++++++++++++++++++                         | 50% ~00s          
  |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% elapsed=00s  
-#> INFO [2024-01-11 06:43:03] Formating results ...
-#> INFO [2024-01-11 06:43:03] Capping extreme values in estimated parameters
-#> INFO [2024-01-11 06:43:03] Finished parameter learning
+#> INFO [2024-01-11 08:02:08] Formating results ...
+#> INFO [2024-01-11 08:02:08] Capping extreme values in estimated parameters
+#> INFO [2024-01-11 08:02:08] Finished parameter learning
 res$params.hat = association_asymptotic(data$X, res$params.hat, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:03] Validate asymptotic inputs ...
+#> INFO [2024-01-11 08:02:08] Validate asymptotic inputs ...
 #> [1] 2 1
-#> INFO [2024-01-11 06:43:03] Preparing weights for asymptotic pvals calculation ...
-#> INFO [2024-01-11 06:43:03] Starting asymptotic pvals calculation: asymptotic ...
+#> INFO [2024-01-11 08:02:08] Preparing weights for asymptotic pvals calculation ...
+#> INFO [2024-01-11 08:02:08] Starting asymptotic pvals calculation: asymptotic ...
 #> 
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  |+++++++++++++++++++++++++                         | 50% ~00s          
  |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% elapsed=00s  
-#> INFO [2024-01-11 06:43:03] Finished asymptotic pvals calculation: asymptotic
+#> INFO [2024-01-11 08:02:08] Finished asymptotic pvals calculation: asymptotic
diff --git a/reference/association_parametric.html b/reference/association_parametric.html index 1c6786e..31ac878 100644 --- a/reference/association_parametric.html +++ b/reference/association_parametric.html @@ -181,24 +181,24 @@

Details

Examples

- 
data = simulate_data(n = 100, m = 2, k = 3, p1 = 1, p2 = 1, taus_std = 0, log_file = NULL)
-#> INFO [2024-01-11 06:43:03] Start simulation ...
-#> INFO [2024-01-11 06:43:03] Finished simulation
+    
data = simulate_data(n=100, m=2, k=3, p1=1, p2=1, taus_std=0, log_file=NULL)
+#> INFO [2024-01-11 08:02:08] Start simulation ...
+#> INFO [2024-01-11 08:02:08] Finished simulation
 res = list()
 res$params.hat = Unico(data$X, data$W, data$C1, data$C2, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:03] Starting Unico ...
-#> INFO [2024-01-11 06:43:03] Validate Unico inputs
-#> INFO [2024-01-11 06:43:03] Starting parameter learning ...
+#> INFO [2024-01-11 08:02:08] Starting Unico ...
+#> INFO [2024-01-11 08:02:08] Validate Unico inputs
+#> INFO [2024-01-11 08:02:08] Starting parameter learning ...
 #> 
  |                                                  | 0 % ~calculating  
  |+++++++++++++++++++++++++                         | 50% ~00s          
  |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% elapsed=00s  
-#> INFO [2024-01-11 06:43:04] Formating results ...
-#> INFO [2024-01-11 06:43:04] Capping extreme values in estimated parameters
-#> INFO [2024-01-11 06:43:04] Finished parameter learning
+#> INFO [2024-01-11 08:02:09] Formating results ...
+#> INFO [2024-01-11 08:02:09] Capping extreme values in estimated parameters
+#> INFO [2024-01-11 08:02:09] Finished parameter learning
 res$params.hat = association_parametric(data$X, res$params.hat, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:04] Validate parametric inputs ...
-#> INFO [2024-01-11 06:43:04] Preparing weights for parametric pvals calculation ...
-#> INFO [2024-01-11 06:43:04] Starting parametric pvals calculation: parametric ...
+#> INFO [2024-01-11 08:02:09] Validate parametric inputs ...
+#> INFO [2024-01-11 08:02:09] Preparing weights for parametric pvals calculation ...
+#> INFO [2024-01-11 08:02:09] Starting parametric pvals calculation: parametric ...
 #> 
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-#> INFO [2024-01-11 06:43:04] Finished parametric pvals calculation: parametric
+#> INFO [2024-01-11 08:02:09] Finished parametric pvals calculation: parametric
diff --git a/reference/simulate_data.html b/reference/simulate_data.html index 0585bb2..9c06c77 100644 --- a/reference/simulate_data.html +++ b/reference/simulate_data.html @@ -192,9 +192,9 @@

Details

Examples

- 
sim.data = simulate_data(n = 100, m = 5, k = 5, p1 = 1, p2 = 2, log_file = NULL)
-#> INFO [2024-01-11 06:43:04] Start simulation ...
-#> INFO [2024-01-11 06:43:04] Finished simulation
+    
data = simulate_data(n=100, m=2, k=3, p1=1, p2=1, taus_std=0, log_file=NULL)
+#> INFO [2024-01-11 08:02:09] Start simulation ...
+#> INFO [2024-01-11 08:02:09] Finished simulation
diff --git a/reference/tensor.html b/reference/tensor.html index f044756..e0ad7c6 100644 --- a/reference/tensor.html +++ b/reference/tensor.html @@ -132,24 +132,24 @@

Details

Examples

- 
data = simulate_data(n = 100, m = 2, k = 3, p1 = 1, p2 = 1, taus_std = 0, log_file = NULL)
-#> INFO [2024-01-11 06:43:04] Start simulation ...
-#> INFO [2024-01-11 06:43:04] Finished simulation
+    
data = simulate_data(n=100, m=2, k=3, p1=1, p2=1, taus_std=0, log_file=NULL)
+#> INFO [2024-01-11 08:02:09] Start simulation ...
+#> INFO [2024-01-11 08:02:09] Finished simulation
 res = list()
 res$params.hat = Unico(data$X, data$W, data$C1, data$C2, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:04] Starting Unico ...
-#> INFO [2024-01-11 06:43:04] Validate Unico inputs
-#> INFO [2024-01-11 06:43:04] Starting parameter learning ...
+#> INFO [2024-01-11 08:02:09] Starting Unico ...
+#> INFO [2024-01-11 08:02:09] Validate Unico inputs
+#> INFO [2024-01-11 08:02:09] Starting parameter learning ...
 #> 
  |                                                  | 0 % ~calculating  
  |+++++++++++++++++++++++++                         | 50% ~00s          
  |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% elapsed=00s  
-#> INFO [2024-01-11 06:43:04] Formating results ...
-#> INFO [2024-01-11 06:43:04] Capping extreme values in estimated parameters
-#> INFO [2024-01-11 06:43:04] Finished parameter learning
+#> INFO [2024-01-11 08:02:10] Formating results ...
+#> INFO [2024-01-11 08:02:10] Capping extreme values in estimated parameters
+#> INFO [2024-01-11 08:02:10] Finished parameter learning
 res$Z = tensor(data$X, data$W, data$C1, data$C2, res$params.hat, parallel=FALSE, log_file=NULL)
-#> INFO [2024-01-11 06:43:04] Validate tensor inputs ...
-#> INFO [2024-01-11 06:43:04] Starting tensor ...
+#> INFO [2024-01-11 08:02:10] Validate tensor inputs ...
+#> INFO [2024-01-11 08:02:10] Starting tensor ...
 #> 
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-#> INFO [2024-01-11 06:43:04] Formating tensor result ...
-#> INFO [2024-01-11 06:43:04] Finished tensor estimation
+#> INFO [2024-01-11 08:02:10] Formating tensor result ...
+#> INFO [2024-01-11 08:02:10] Finished tensor estimation