%v% Vertically Add Heatmaps or Annotations to a Heatmap List +.AdditiveUnit Horizontally Add Heatmaps or Annotations to a Heatmap List AdditiveUnit Constructor Method for AdditiveUnit Class AdditiveUnit-class Class for Concatenating Heatmaps and Annotations AnnotationFunction Constructor of AnnotationFunction Class AnnotationFunction-class The AnnotationFunction Class ColorMapping Constructor Method for ColorMapping Class ColorMapping-class Class for Color Mapping ComplexHeatmap-package Make complex heatmaps Heatmap Constructor method for Heatmap class Heatmap-class Class for a Single Heatmap Heatmap3D 3D 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 Legend Make a Single Legend Legends Constructor method for Legends class Legends-class The Class for Legends SingleAnnotation Constructor Method for SingleAnnotation Class SingleAnnotation-class Class for a Single Annotation UpSet Make the UpSet plot [.AnnotationFunction Subset an AnnotationFunction Object [.Heatmap Subset a Heatmap [.HeatmapAnnotation Subset the HeatmapAnnotation object [.HeatmapList Subset a HeatmapList object [.SingleAnnotation Subset an SingleAnnotation Object [.comb_mat Subset the Combination Matrix [.gridtext Subset method of gridtext class add_heatmap Method dispatch page for add_heatmap add_heatmap,Heatmap-method Add Heatmap to the Heatmap List add_heatmap,HeatmapAnnotation-method Add Annotations or Heatmaps as a Heatmap List add_heatmap,HeatmapList-method Add heatmaps and row annotations to the heatmap list adjust_dend_by_x Adjust the Positions of nodes/leaves in the Dendrogram adjust_heatmap_list,HeatmapList-method Adjust Heatmap List alter_graphic Automatically generate alter_fun anno_barplot Barplot Annotation anno_block Block annotation anno_boxplot Boxplot Annotation anno_customize Customized annotation anno_density Density Annotation anno_empty Empty Annotation anno_histogram Histogram Annotation anno_horizon Horizon chart Annotation anno_image Image Annotation anno_joyplot Joyplot Annotation anno_lines Lines Annotation anno_link Link Annotation anno_mark Link annotation with labels anno_oncoprint_barplot Barplot Annotation for oncoPrint anno_points Points Annotation anno_simple Simple Annotation anno_summary Summary Annotation anno_text Text Annotation anno_zoom Zoom annotation annotation_axis_grob Grob for Annotation Axis annotation_legend_size,HeatmapList-method Size of the Annotation Legends attach_annotation,Heatmap-method Attach heatmap annotations to the heatmap bar3D Draw 3D bars bin_genome Bin the genome c.ColorMapping Concatenate A List of ColorMapping objects c.HeatmapAnnotation Concatenate Heatmap Annotations cluster_between_groups Cluster only between Groups cluster_within_group Cluster within and between Groups color_mapping_legend,ColorMapping-method Draw Legend Based on Color Mapping columnAnnotation Construct Column Annotations column_dend Method dispatch page for column_dend column_dend,Heatmap-method Get Column Dendrograms from a Heatmap column_dend,HeatmapList-method Get Column Dendrograms from a hHeatmap List column_order Method dispatch page for column_order column_order,Heatmap-method Get Column Order from a Aeatmap List column_order,HeatmapList-method Get Column Order from a Heatmap List comb_degree Degrees of the Combination sets comb_name Names of the Combination sets comb_size Sizes of the Combination sets compare_heatmap Compare heatmaps between stats::heatmap() and ComplexHeatmap::heatmap() compare_heatmap.2 Compare heatmaps between gplots::heatmap.2() and ComplexHeatmap::heatmap() compare_pheatmap Compare heatmaps between pheatmap::pheatmap() and ComplexHeatmap::pheatmap() complement_size Complement Set Size component_height Method dispatch page for component_height component_height,Heatmap-method Heights of Heatmap Components component_height,HeatmapList-method Height of Heatmap List Components component_width Method dispatch page for component_width component_width,Heatmap-method Widths of Heatmap Components component_width,HeatmapList-method Width of Heatmap List Components copy_all Method dispatch page for copy_all copy_all,AnnotationFunction-method Copy the AnnotationFunction Object copy_all,SingleAnnotation-method Copy the SingleAnnotation object decorate_annotation Decorate Heatmap Annotation decorate_column_dend Decorate Heatmap Column Dendrograms decorate_column_names Decorate Heatmap Column Names decorate_column_title Decorate Heatmap Column Titles decorate_dend Decorate Heatmap Dendrograms decorate_dimnames Decorate Heatmap Dimension Names decorate_heatmap_body Decorate Heatmap Bodies decorate_row_dend Decorate Heatmap Row Dendrograms decorate_row_names Decorate Heatmap Row Names decorate_row_title Decorate Heatmap Row Titles decorate_title Decorate Heatmap Titles default_axis_param The Default Parameters for Annotation Axis default_get_type Default get_type for oncoPrint() dend_heights Height of the Dendrograms dend_xy Coordinates of the Dendrogram dendrogramGrob Grob for Dendrogram densityHeatmap Visualize Density Distribution by Heatmap dim.Heatmap Dimension of the Heatmap dist2 Calculate Pairwise Distance from a Matrix draw Method dispatch page for draw draw,AnnotationFunction-method Draw the AnnotationFunction Object draw,Heatmap-method Draw a Single Heatmap draw,HeatmapAnnotation-method Draw the Heatmap Annotations draw,HeatmapList-method Draw a list of heatmaps draw,Legends-method Draw the Legends draw,SingleAnnotation-method Draw the Single Annotation draw_annotation,Heatmap-method Draw Heatmap Annotations on the Heatmap draw_annotation_legend,HeatmapList-method Draw legends for All Annotations draw_dend,Heatmap-method Draw Heatmap Dendrograms draw_dimnames,Heatmap-method Draw row names or column names draw_heatmap_body,Heatmap-method Draw Heatmap Body draw_heatmap_legend,HeatmapList-method Draw legends for All Heatmaps draw_heatmap_list,HeatmapList-method Draw the List of Heatmaps draw_title Method dispatch page for draw_title draw_title,Heatmap-method Draw Heatmap Title draw_title,HeatmapList-method Draw Heatmap List Title extract_comb Extract Elements in a Combination set frequencyHeatmap Visualize Frequency Distribution by Heatmap full_comb_code Full set of code of combination sets getXY_in_parent_vp Convert XY in a Parent Viewport get_color_mapping_list,HeatmapAnnotation-method Get a List of ColorMapping objects get_legend_param_list,HeatmapAnnotation-method Get a List of Annotation Legend Parameters grid.annotation_axis Draw Annotation Axis grid.boxplot Draw a Single Boxplot grid.dendrogram Draw the Dendrogram grid.draw.Legends Draw the Legends gt_render Mark the text for the rendering by gridtext package heatmap_legend_size,HeatmapList-method Size of the Heatmap Legends height.AnnotationFunction Height of the AnnotationFunction Object height.Heatmap Height of the Heatmap height.HeatmapAnnotation Height of the HeatmapAnnotation Object height.HeatmapList Height of the Heatmap List height.Legends Height of the Legends height.SingleAnnotation Height of the SingleAnnotation object heightAssign.AnnotationFunction Assign the Height to the AnnotationFunction Object heightAssign.HeatmapAnnotation Assign the Height to the HeatmapAnnotation Object heightAssign.SingleAnnotation Assign the Height to the SingleAnnotation Object heightDetails.annotation_axis Height for annotation_axis Grob heightDetails.legend Grob height for packed_legends heightDetails.legend_body Grob height for legend_body heightDetails.packed_legends Grob height for packed_legends ht_global_opt Global Options for Heatmaps ht_opt Global Options for Heatmaps ht_size Calculate the width and height of the heatmaps is_abs_unit Test Whether it is an Absolute Unit length.HeatmapAnnotation Number of Annotations length.HeatmapList Length of the HeatmapList object list_components List All Heatmap Components list_to_matrix Convert a List of Sets to a Binary Matrix make_column_cluster,Heatmap-method Make Cluster on Columns make_comb_mat Make a Combination Matrix for UpSet Plot make_layout Method dispatch page for make_layout make_layout,Heatmap-method Make the Layout of a Single Heatmap make_layout,HeatmapList-method Make Layout for the Heatmap List make_row_cluster,Heatmap-method Make Cluster on Rows map_to_colors,ColorMapping-method Map Values to Colors max_text_height Maximum Height of Text max_text_width Maximum Width of Text merge_dendrogram Merge Dendrograms names.HeatmapAnnotation Annotation Names names.HeatmapList Names of the heatmaps/annotations namesAssign.HeatmapAnnotation Assign Annotation Names ncol.Heatmap Number of Columns in the Heatmap nobs.AnnotationFunction Number of Observations nobs.HeatmapAnnotation Number of Observations nobs.SingleAnnotation Number of Observations normalize_comb_mat Normalize a list of combination matrice normalize_genomic_signals_to_bins Overlap genomic signals to the genomic bins nrow.Heatmap Number of Rows in the Heatmap oncoPrint Make oncoPrint order.comb_mat Order of the Combination Sets packLegend Pack Legends pheatmap Translate pheatmap::pheatmap to ComplexHeatmap::Heatmap pindex Get Values in a Matrix by Pair-wise Indices plot.Heatmap Draw heatmap plot.HeatmapAnnotation Draw heatmap annotations plot.HeatmapList Draw heatmap prepare,Heatmap-method Prepare the Heatmap print.comb_mat Print the comb_mat Object re_size,HeatmapAnnotation-method Resize the Width or Height of Heatmap Annotations restore_matrix Restore the index vector to index matrix in layer_fun rowAnnotation Construct Row Annotations row_anno_barplot Barplots as Row Annotation row_anno_boxplot Boxplots as Row Annotation row_anno_density Density as Row Annotation row_anno_histogram Histograms as Row Annotation row_anno_points Points as Row Annotation row_anno_text Text as Row Annotation row_dend Method dispatch page for row_dend row_dend,Heatmap-method Get Row Dendrograms from a Heatmap row_dend,HeatmapList-method Get Row Dendrograms from a Heatmap List row_order Method dispatch page for row_order row_order,Heatmap-method Get Row Order from a Heatmap row_order,HeatmapList-method Get Row Order from a Heatmap List set_component_height,Heatmap-method Set Height of Heatmap Component set_component_width,Heatmap-method Set Width of Heatmap Component set_name Set Names set_nameAssign Modify Set Names set_size Set Sizes show Method dispatch page for show show,AnnotationFunction-method Print the AnnotationFunction Object show,ColorMapping-method Print the ColorMapping Object show,Heatmap-method Draw the Single Heatmap with Defaults show,HeatmapAnnotation-method Print the HeatmapAnnotation object show,HeatmapList-method Draw a list of heatmaps with default parameters show,SingleAnnotation-method Print the SingleAnnotation object size.AnnotationFunction Size of the AnnotationFunction Object size.HeatmapAnnotation Size of the HeatmapAnnotation Object size.SingleAnnotation Size of the SingleAnnotation Object sizeAssign.AnnotationFunction Assign the Size to the AnnotationFunction Object sizeAssign.HeatmapAnnotation Assign the Size to the HeatmapAnnotation Object sizeAssign.SingleAnnotation Assign the Size to the SingleAnnotation Object smartAlign2 Adjust positions of rectanglar shapes str.comb_mat str method subset_gp Subset a gpar Object subset_matrix_by_row Subset the Matrix by Rows subset_no Do not do subseting subset_vector Subset the vector summary.Heatmap Print the Summary of a Heatmap summary.HeatmapList Summary of a Heatmap List t.comb_mat Transpost the Combination Matrix test_alter_fun Test alter_fun for oncoPrint() unify_mat_list Unify a List of Matrix upset_left_annotation UpSet Left Annotation upset_right_annotation Default UpSet Right Annotation upset_top_annotation Default UpSet Top Annotation width.AnnotationFunction Width of the AnnotationFunction Object width.Heatmap Width of the Heatmap width.HeatmapAnnotation Width of the HeatmapAnnotation Object width.HeatmapList Width of the Heatmap List width.Legends Width of the Legends width.SingleAnnotation Width of the SingleAnnotation Object widthAssign.AnnotationFunction Assign the Width to the AnnotationFunction Object widthAssign.HeatmapAnnotation Assign the Width to the HeatmapAnnotation Object widthAssign.SingleAnnotation Assign the Width to the SingleAnnotation Object widthDetails.annotation_axis Width for annotation_axis Grob widthDetails.legend Grob width for packed_legends widthDetails.legend_body Grob width for legend_body widthDetails.packed_legends Grob width for packed_legends