adjust documentations

jokergoo · Dec 18, 2020 · f504595 · f504595
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diff --git a/README.md b/README.md
@@ -101,14 +101,7 @@ There are following blog posts focusing on specific topics:
 
 ### UpSet plot
 
-![](https://pbs.twimg.com/media/Dvpp31uX4AAqGDP.jpg)
-
-### Interactive heatmaps
-
-Heatmaps can be exported into a Shiny app by `ht_shiny(ht)`. See examples at https://jokergoo.shinyapps.io/interactive_complexheatmap/.
-
-<img src="https://user-images.githubusercontent.com/449218/82199376-e5eec600-98fd-11ea-9fca-ad95d405dc20.gif" />
-
+<img src="https://user-images.githubusercontent.com/449218/102615477-48c76a80-4136-11eb-98d9-3c528844fbe8.png" width=700 />
 
 ## License
 

diff --git a/man/Extract.AnnotationFunction.Rd b/man/Extract.AnnotationFunction.Rd
@@ -1,6 +1,6 @@
 \name{[.AnnotationFunction}
-\alias{[.AnnotationFunction}
 \alias{Extract.AnnotationFunction}
+\alias{[.AnnotationFunction}
 \title{
 Subset an AnnotationFunction Object
 }

diff --git a/man/Extract.Heatmap.Rd b/man/Extract.Heatmap.Rd
@@ -1,6 +1,6 @@
 \name{[.Heatmap}
-\alias{[.Heatmap}
 \alias{Extract.Heatmap}
+\alias{[.Heatmap}
 \title{
 Subset a Heatmap
 }

diff --git a/man/Extract.HeatmapAnnotation.Rd b/man/Extract.HeatmapAnnotation.Rd
@@ -1,6 +1,6 @@
 \name{[.HeatmapAnnotation}
-\alias{[.HeatmapAnnotation}
 \alias{Extract.HeatmapAnnotation}
+\alias{[.HeatmapAnnotation}
 \title{
 Subset the HeatmapAnnotation object
 }

diff --git a/man/Extract.HeatmapList.Rd b/man/Extract.HeatmapList.Rd
@@ -1,6 +1,6 @@
 \name{[.HeatmapList}
-\alias{[.HeatmapList}
 \alias{Extract.HeatmapList}
+\alias{[.HeatmapList}
 \title{
 Subset a HeatmapList object
 }

diff --git a/man/Extract.SingleAnnotation.Rd b/man/Extract.SingleAnnotation.Rd
@@ -1,6 +1,6 @@
 \name{[.SingleAnnotation}
-\alias{[.SingleAnnotation}
 \alias{Extract.SingleAnnotation}
+\alias{[.SingleAnnotation}
 \title{
 Subset an SingleAnnotation Object
 }

diff --git a/man/Extract.comb_mat.Rd b/man/Extract.comb_mat.Rd
@@ -1,6 +1,6 @@
 \name{[.comb_mat}
-\alias{[.comb_mat}
 \alias{Extract.comb_mat}
+\alias{[.comb_mat}
 \title{
 Subset the Combination Matrix
 }

diff --git a/man/Extract.gridtext.Rd b/man/Extract.gridtext.Rd
@@ -1,6 +1,6 @@
 \name{[.gridtext}
-\alias{[.gridtext}
 \alias{Extract.gridtext}
+\alias{[.gridtext}
 \title{
 Subset method of gridtext class
 }

diff --git a/man/add.AdditiveUnit.Rd b/man/add.AdditiveUnit.Rd
@@ -1,6 +1,6 @@
 \name{+.AdditiveUnit}
-\alias{+.AdditiveUnit}
 \alias{add.AdditiveUnit}
+\alias{+.AdditiveUnit}
 \title{
 Horizontally Add Heatmaps or Annotations to a Heatmap List
 }

diff --git a/man/heightAssign.AnnotationFunction.Rd b/man/heightAssign.AnnotationFunction.Rd
@@ -1,6 +1,6 @@
-\name{height<-.AnnotationFunction}
-\alias{height<-.AnnotationFunction}
+\name{heightAssign.AnnotationFunction}
 \alias{heightAssign.AnnotationFunction}
+\alias{height<-.AnnotationFunction}
 \title{
 Assign the Height to the AnnotationFunction Object
 }

diff --git a/man/heightAssign.HeatmapAnnotation.Rd b/man/heightAssign.HeatmapAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{height<-.HeatmapAnnotation}
-\alias{height<-.HeatmapAnnotation}
+\name{heightAssign.HeatmapAnnotation}
 \alias{heightAssign.HeatmapAnnotation}
+\alias{height<-.HeatmapAnnotation}
 \title{
 Assign the Height to the HeatmapAnnotation Object
 }

diff --git a/man/heightAssign.SingleAnnotation.Rd b/man/heightAssign.SingleAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{height<-.SingleAnnotation}
-\alias{height<-.SingleAnnotation}
+\name{heightAssign.SingleAnnotation}
 \alias{heightAssign.SingleAnnotation}
+\alias{height<-.SingleAnnotation}
 \title{
 Assign the Height to the SingleAnnotation Object
 }

diff --git a/man/namesAssign.HeatmapAnnotation.Rd b/man/namesAssign.HeatmapAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{names<-.HeatmapAnnotation}
-\alias{names<-.HeatmapAnnotation}
+\name{namesAssign.HeatmapAnnotation}
 \alias{namesAssign.HeatmapAnnotation}
+\alias{names<-.HeatmapAnnotation}
 \title{
 Assign Annotation Names
 }

diff --git a/man/pct_v_pct.Rd b/man/pct_v_pct.Rd
@@ -1,6 +1,6 @@
 \name{\%v\%}
-\alias{\%v\%}
 \alias{pct_v_pct}
+\alias{\%v\%}
 \title{
 Vertically Add Heatmaps or Annotations to a Heatmap List
 }

diff --git a/man/set_nameAssign.Rd b/man/set_nameAssign.Rd
@@ -1,6 +1,6 @@
-\name{set_name<-}
-\alias{set_name<-}
+\name{set_nameAssign}
 \alias{set_nameAssign}
+\alias{set_name<-}
 \title{
 Modify Set Names
 }

diff --git a/man/sizeAssign.AnnotationFunction.Rd b/man/sizeAssign.AnnotationFunction.Rd
@@ -1,6 +1,6 @@
-\name{size<-.AnnotationFunction}
-\alias{size<-.AnnotationFunction}
+\name{sizeAssign.AnnotationFunction}
 \alias{sizeAssign.AnnotationFunction}
+\alias{size<-.AnnotationFunction}
 \title{
 Assign the Size to the AnnotationFunction Object
 }

diff --git a/man/sizeAssign.HeatmapAnnotation.Rd b/man/sizeAssign.HeatmapAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{size<-.HeatmapAnnotation}
-\alias{size<-.HeatmapAnnotation}
+\name{sizeAssign.HeatmapAnnotation}
 \alias{sizeAssign.HeatmapAnnotation}
+\alias{size<-.HeatmapAnnotation}
 \title{
 Assign the Size to the HeatmapAnnotation Object
 }

diff --git a/man/sizeAssign.SingleAnnotation.Rd b/man/sizeAssign.SingleAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{size<-.SingleAnnotation}
-\alias{size<-.SingleAnnotation}
+\name{sizeAssign.SingleAnnotation}
 \alias{sizeAssign.SingleAnnotation}
+\alias{size<-.SingleAnnotation}
 \title{
 Assign the Size to the SingleAnnotation Object
 }

diff --git a/man/widthAssign.AnnotationFunction.Rd b/man/widthAssign.AnnotationFunction.Rd
@@ -1,6 +1,6 @@
-\name{width<-.AnnotationFunction}
-\alias{width<-.AnnotationFunction}
+\name{widthAssign.AnnotationFunction}
 \alias{widthAssign.AnnotationFunction}
+\alias{width<-.AnnotationFunction}
 \title{
 Assign the Width to the AnnotationFunction Object
 }

diff --git a/man/widthAssign.HeatmapAnnotation.Rd b/man/widthAssign.HeatmapAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{width<-.HeatmapAnnotation}
-\alias{width<-.HeatmapAnnotation}
+\name{widthAssign.HeatmapAnnotation}
 \alias{widthAssign.HeatmapAnnotation}
+\alias{width<-.HeatmapAnnotation}
 \title{
 Assign the Width to the HeatmapAnnotation Object
 }

diff --git a/man/widthAssign.SingleAnnotation.Rd b/man/widthAssign.SingleAnnotation.Rd
@@ -1,6 +1,6 @@
-\name{width<-.SingleAnnotation}
-\alias{width<-.SingleAnnotation}
+\name{widthAssign.SingleAnnotation}
 \alias{widthAssign.SingleAnnotation}
+\alias{width<-.SingleAnnotation}
 \title{
 Assign the Width to the SingleAnnotation Object
 }