# Making Complex Heatmaps

## Documentation for package ‘ComplexHeatmap’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

ComplexHeatmap-package | Making complex heatmap
+.AdditiveUnit | Add heatmaps or row annotations to a heatmap list
AdditiveUnit | Constructor method for AdditiveUnit class
AdditiveUnit-class | An internal class
add_heatmap | Method dispatch page for add_heatmap
add_heatmap-method | Add heatmaps or row annotations as a heatmap list
add_heatmap-method | Add row annotations or heatmaps as a heatmap list
add_heatmap-method | Add heatmaps and row annotations to the heatmap list
annotation_legend_size | Size of the annotation legend viewport
annotation_legend_size-method | Size of the annotation legend viewport
anno_barplot | Using barplot as annotation
anno_boxplot | Using boxplot as annotation
anno_density | Using kernel density as annotation
anno_histogram | Using histogram as annotation
anno_points | Using points as annotation
ColorMapping | Constructor methods for ColorMapping class
ColorMapping-class | Class to map values to colors
color_mapping_legend | Draw legend based on color mapping
color_mapping_legend-method | Draw legend based on color mapping
component_height | Method dispatch page for component_height
component_height-method | Height of each heatmap component
component_height-method | Height of each heatmap list component
component_width | Method dispatch page for component_width
component_width-method | Width of each heatmap component
component_width-method | Width of each heatmap list component
dist2 | Calculate distance from a matrix
draw | Method dispatch page for draw
draw-method | Draw a single heatmap
draw-method | Draw the heatmap annotations
draw-method | Draw a list of heatmaps
draw-method | Draw the single annotation
draw_annotation | Draw column annotations
draw_annotation-method | Draw column annotations
draw_annotation_legend | Draw legends for all column annotations
draw_annotation_legend-method | Draw legends for all column annotations
draw_dimnames | Draw row names or column names
draw_dimnames-method | Draw row names or column names
draw_hclust | Draw dendrogram on row or column
draw_hclust-method | Draw dendrogram on row or column
draw_heatmap_body | Draw the heatmap body
draw_heatmap_body-method | Draw the heatmap body
draw_heatmap_legend | Draw legends for all heatmaps
draw_heatmap_legend-method | Draw legends for all heatmaps
draw_heatmap_list | Draw the list of heatmaps
draw_heatmap_list-method | Draw the list of heatmaps
draw_title | Method dispatch page for draw_title
draw_title-method | Draw heatmap title
draw_title-method | Draw heatmap list title
get_color_mapping_list | Get a list of color mapping objects
get_color_mapping_list-method | Get a list of color mapping objects
grid.dendrogram | Draw dendrogram under grid system
Heatmap | Constructor method for Heatmap class
Heatmap-class | Class for a single heatmap
HeatmapAnnotation | Constructor method for HeatmapAnnotation class
HeatmapAnnotation-class | Class for heatmap annotations
HeatmapList | Constructor method for HeatmapList class
HeatmapList-class | Class for a list of heatmaps
heatmap_legend_size | Size of the heatmap legend viewport
heatmap_legend_size-method | Size of the heatmap legend viewport
make_column_cluster | Make cluster on columns
make_column_cluster-method | Make cluster on columns
make_layout | Method dispatch page for make_layout
make_layout-method | Make the layout of a single heatmap
make_layout-method | Make layout for the complete plot
make_row_cluster | Make cluster on rows
make_row_cluster-method | Make cluster on rows
map_to_colors | Map values to colors
map_to_colors-method | Map values to colors
prepare | Prepare the heatmap
prepare-method | Prepare the heatmap
set_component_height | Set height of each heatmap component
set_component_height-method | Set height of each heatmap component
show | Method dispatch page for show
show-method | Print ColorMapping object
show-method | Draw the single heatmap with default parameters
show-method | Print the Heatmap Annotation object
show-method | Draw a list of heatmaps with default parameters
show-method | Print the SingleAnnotation object
SingleAnnotation | Constructor method for SingleAnnotation class
SingleAnnotation-class | Class for a single annotation