NAMESPACE

# Generated by roxygen2: do not edit by hand

S3method("$<-",AlignProto)
S3method("$<-",ggalign_pair_links)
S3method("+",alignpatches)
S3method("[",ggalignMarkGtable)
S3method("[<-",ggalign_pair_links)
S3method("[[<-",ggalign_pair_links)
S3method(.raster_magick,Layer)
S3method(.raster_magick,QuadLayout)
S3method(.raster_magick,StackLayout)
S3method(.raster_magick,default)
S3method(.raster_magick,gList)
S3method(.raster_magick,ggalignRasterMagick)
S3method(.raster_magick,ggalign_plot)
S3method(.raster_magick,ggplot)
S3method(.raster_magick,grob)
S3method(.raster_magick,list)
S3method(.raster_magick,zeroGrob)
S3method(align_melt_facet,"NULL")
S3method(align_melt_facet,FacetGrid)
S3method(align_melt_facet,FacetNull)
S3method(align_melt_facet,FacetQuad)
S3method(align_melt_facet,FacetStack)
S3method(align_melt_facet,FacetWrap)
S3method(alignpatch,"NULL")
S3method(alignpatch,"function")
S3method(alignpatch,Heatmap)
S3method(alignpatch,HeatmapAnnotation)
S3method(alignpatch,HeatmapList)
S3method(alignpatch,LayoutProto)
S3method(alignpatch,alignpatches)
S3method(alignpatch,default)
S3method(alignpatch,formula)
S3method(alignpatch,free_align)
S3method(alignpatch,free_border)
S3method(alignpatch,free_guide)
S3method(alignpatch,free_lab)
S3method(alignpatch,free_plot)
S3method(alignpatch,free_space)
S3method(alignpatch,free_vp)
S3method(alignpatch,gList)
S3method(alignpatch,ggalign_mark_plot)
S3method(alignpatch,ggplot)
S3method(alignpatch,grob)
S3method(alignpatch,patch)
S3method(alignpatch,patchwork)
S3method(alignpatch,pheatmap)
S3method(alignpatch,recordedplot)
S3method(alignpatch,spacer)
S3method(alignpatch,trellis)
S3method(alignpatch,wrapped_patch)
S3method(alignpatch,wrapped_plot)
S3method(alignpatches_add,layout_annotation)
S3method(alignpatches_add,layout_design)
S3method(alignpatches_add,layout_title)
S3method(alignpatches_add,plot_annotation)
S3method(alignpatches_add,plot_layout)
S3method(as_areas,"NULL")
S3method(as_areas,character)
S3method(as_areas,default)
S3method(as_areas,ggalign_area)
S3method(as_areas,patch_area)
S3method(as_obs_link,"NULL")
S3method(as_obs_link,AsIs)
S3method(as_obs_link,character)
S3method(as_obs_link,default)
S3method(as_obs_link,double)
S3method(as_obs_link,ggalign_range_link)
S3method(as_obs_link,integer)
S3method(as_obs_link,list)
S3method(as_obs_link,numeric)
S3method(as_obs_link,waiver)
S3method(chain_layout_add,"NULL")
S3method(chain_layout_add,QuadLayout)
S3method(chain_layout_add,StackCross)
S3method(chain_layout_add,StackLayout)
S3method(chain_layout_add,circle_switch)
S3method(chain_layout_add,continuous_limits)
S3method(chain_layout_add,default)
S3method(chain_layout_add,ggalign_plot)
S3method(chain_layout_add,ggalign_with_quad)
S3method(chain_layout_add,ggplot)
S3method(chain_layout_add,layout_annotation)
S3method(chain_layout_add,layout_title)
S3method(chain_layout_add,list)
S3method(chain_layout_add,quad_active)
S3method(chain_layout_add,quad_anno)
S3method(chain_layout_add,stack_switch)
S3method(chain_layout_and_add,default)
S3method(chain_layout_and_add,ggalign_with_quad)
S3method(chain_layout_and_add,theme)
S3method(chain_layout_subtract,default)
S3method(chain_layout_subtract,ggalign_scheme)
S3method(chain_layout_subtract,ggalign_with_quad)
S3method(circle_continuous,"function")
S3method(circle_continuous,default)
S3method(circle_continuous,formula)
S3method(circle_discrete,"function")
S3method(circle_discrete,default)
S3method(circle_discrete,formula)
S3method(deparse_link2,"NULL")
S3method(deparse_link2,AsIs)
S3method(deparse_link2,character)
S3method(deparse_link2,ggalign_pair_link)
S3method(deparse_link2,ggalign_range_link)
S3method(deparse_link2,integer)
S3method(deparse_link2,list)
S3method(deparse_link2,waiver)
S3method(element_grob,ggalign_element_curve)
S3method(element_grob,ggalign_element_polygon)
S3method(element_vec_fields,default)
S3method(element_vec_fields,element_blank)
S3method(element_vec_fields,element_line)
S3method(element_vec_fields,element_point)
S3method(element_vec_fields,element_polygon)
S3method(element_vec_fields,element_rect)
S3method(element_vec_fields,element_text)
S3method(element_vec_fields,ggalign_element_polygon)
S3method(format,ggalign_area)
S3method(fortify_data_frame,"NULL")
S3method(fortify_data_frame,DelayedMatrix)
S3method(fortify_data_frame,Matrix)
S3method(fortify_data_frame,character)
S3method(fortify_data_frame,complex)
S3method(fortify_data_frame,default)
S3method(fortify_data_frame,dendrogram)
S3method(fortify_data_frame,ggalign_tune)
S3method(fortify_data_frame,hclust)
S3method(fortify_data_frame,logical)
S3method(fortify_data_frame,matrix)
S3method(fortify_data_frame,numeric)
S3method(fortify_data_frame,phylo)
S3method(fortify_data_frame,waiver)
S3method(fortify_matrix,"NULL")
S3method(fortify_matrix,"function")
S3method(fortify_matrix,GISTIC)
S3method(fortify_matrix,MAF)
S3method(fortify_matrix,MAF_pathways)
S3method(fortify_matrix,default)
S3method(fortify_matrix,formula)
S3method(fortify_matrix,ggalign_tune)
S3method(fortify_matrix,list_upset)
S3method(fortify_matrix,matrix)
S3method(fortify_matrix,matrix_oncoplot)
S3method(fortify_matrix,matrix_upset)
S3method(fortify_matrix,phylo)
S3method(fortify_matrix,waiver)
S3method(free_align,alignpatches)
S3method(free_align,default)
S3method(free_align,free_align)
S3method(free_align,free_border)
S3method(free_align,free_lab)
S3method(free_align,free_space)
S3method(free_align,ggplot)
S3method(free_border,alignpatches)
S3method(free_border,default)
S3method(free_border,free_align)
S3method(free_border,free_border)
S3method(free_border,free_lab)
S3method(free_border,ggplot)
S3method(free_guide,alignpatches)
S3method(free_guide,free_guide)
S3method(free_guide,ggplot)
S3method(free_lab,alignpatches)
S3method(free_lab,default)
S3method(free_lab,free_align)
S3method(free_lab,free_borders)
S3method(free_lab,free_lab)
S3method(free_lab,ggplot)
S3method(free_space,alignpatches)
S3method(free_space,default)
S3method(free_space,free_align)
S3method(free_space,free_space)
S3method(free_space,ggplot)
S3method(free_vp,alignpatches)
S3method(free_vp,default)
S3method(free_vp,ggplot)
S3method(ggalign_build,CircleLayout)
S3method(ggalign_build,QuadLayout)
S3method(ggalign_build,StackLayout)
S3method(ggalign_build,alignpatches)
S3method(ggalign_build,ggplot)
S3method(ggalign_gtable,alignpatches)
S3method(ggalign_gtable,ggplot)
S3method(ggalign_gtable,gtable)
S3method(ggalign_stat,Align)
S3method(ggalign_stat,AlignGg)
S3method(ggalign_stat,QuadLayout)
S3method(ggalign_stat,StackLayout)
S3method(ggalign_stat,default)
S3method(ggalign_stat,ggalign_plot)
S3method(ggfree,default)
S3method(ggfree,ggplot)
S3method(ggfree,uneval)
S3method(ggoncoplot,"NULL")
S3method(ggoncoplot,default)
S3method(ggoncoplot,formula)
S3method(ggoncoplot,functon)
S3method(ggplot_add,ggalign_default_expansion)
S3method(ggplot_add,ggalign_design)
S3method(ggplot_add,ggalign_layer_order)
S3method(ggplot_add,ggalign_no_expansion)
S3method(ggplot_add,ggalign_patch_labels)
S3method(ggplot_add,ggalign_with_quad)
S3method(ggplot_add,patch_inset)
S3method(ggplot_add,theme_recycle)
S3method(ggplot_build,ggalign_heatmap)
S3method(ggupset,"NULL")
S3method(ggupset,default)
S3method(ggupset,waiver)
S3method(grid.draw,LayoutProto)
S3method(grid.draw,alignpatches)
S3method(grid.draw,ggalign_plot)
S3method(grid.draw,patch_ggplot)
S3method(grid.draw,patch_inset)
S3method(heatmap_layout,default)
S3method(inherit_scheme,"NULL")
S3method(inherit_scheme,scheme_align)
S3method(inherit_scheme,scheme_data)
S3method(inherit_scheme,scheme_theme)
S3method(is_layout_continuous,ChainLayout)
S3method(is_layout_continuous,QuadLayout)
S3method(is_layout_discrete,ChainLayout)
S3method(is_layout_discrete,QuadLayout)
S3method(is_linear,CircleLayout)
S3method(is_linear,StackLayout)
S3method(layer_order,Layer)
S3method(layer_order,default)
S3method(layer_order,ggalign_layer_order)
S3method(layout_add,ChainLayout)
S3method(layout_add,QuadLayout)
S3method(layout_and_add,ChainLayout)
S3method(layout_and_add,QuadLayout)
S3method(layout_subtract,ChainLayout)
S3method(layout_subtract,QuadLayout)
S3method(length,ggalign_pair_link)
S3method(link_to_location,"NULL")
S3method(link_to_location,AsIs)
S3method(link_to_location,character)
S3method(link_to_location,ggalign_range_link)
S3method(link_to_location,integer)
S3method(link_to_location,list)
S3method(link_to_location,waiver)
S3method(makeContent,ggalignLinkTree)
S3method(makeContent,ggalignMarkGtable)
S3method(makeContent,ggalignRasterMagick)
S3method(make_wrap,alignpatches)
S3method(make_wrap,ggplot)
S3method(make_wrap,patch_ggplot)
S3method(new_scheme_theme,scheme_theme)
S3method(new_scheme_theme,theme)
S3method(obj_print_data,ggalign_pair_link)
S3method(obj_print_data,ggalign_pair_links)
S3method(obj_print_footer,ggalign_area)
S3method(obj_print_footer,ggalign_pair_links)
S3method(obj_print_header,ggalign_pair_link)
S3method(obj_print_header,ggalign_pair_links)
S3method(obj_str_footer,unit)
S3method(object_name,AlignGg)
S3method(object_name,AlignProto)
S3method(object_name,CircleLayout)
S3method(object_name,CrossGg)
S3method(object_name,FreeGg)
S3method(object_name,MarkGg)
S3method(object_name,QuadLayout)
S3method(object_name,StackLayout)
S3method(object_name,ggalign_plot)
S3method(order2,dendrogram)
S3method(order2,hclust)
S3method(order2,memo_weights)
S3method(order2,phylo)
S3method(order2,ser_permutation)
S3method(order2,ser_permutation_vector)
S3method(patch,"function")
S3method(patch,Heatmap)
S3method(patch,HeatmapAnnotation)
S3method(patch,HeatmapList)
S3method(patch,alignpatches)
S3method(patch,default)
S3method(patch,formula)
S3method(patch,gList)
S3method(patch,ggplot)
S3method(patch,grob)
S3method(patch,patch)
S3method(patch,patch_ggplot)
S3method(patch,patchwork)
S3method(patch,pheatmap)
S3method(patch,recordedplot)
S3method(patch,trellis)
S3method(plot,ggalign_area)
S3method(plot,ggalign_plot)
S3method(plot_add,default)
S3method(plot_add,ggalign_scheme)
S3method(plot_add_scheme,"NULL")
S3method(plot_add_scheme,scheme_data)
S3method(plot_add_scheme,scheme_theme)
S3method(print,LayoutProto)
S3method(print,alignpatches)
S3method(print,ggalign_data)
S3method(print,ggalign_link_draw)
S3method(print,ggalign_mark_draw)
S3method(print,ggalign_pair_link)
S3method(print,ggalign_plot)
S3method(print,ggalign_range_link)
S3method(print,ggalign_tune)
S3method(print,ggalign_with_quad)
S3method(print,patch_ggplot)
S3method(quad_body_add,Coord)
S3method(quad_body_add,default)
S3method(quad_body_add,ggalign_scheme)
S3method(quad_body_add,layout_annotation)
S3method(quad_build,HeatmapLayout)
S3method(quad_build,QuadLayout)
S3method(quad_continuous,default)
S3method(quad_continuous,uneval)
S3method(quad_discrete,default)
S3method(quad_discrete,uneval)
S3method(quad_layout_add,"NULL")
S3method(quad_layout_add,QuadLayout)
S3method(quad_layout_add,StackLayout)
S3method(quad_layout_add,data.frame)
S3method(quad_layout_add,default)
S3method(quad_layout_add,ggalign_plot)
S3method(quad_layout_add,ggalign_with_quad)
S3method(quad_layout_add,layout_title)
S3method(quad_layout_add,list)
S3method(quad_layout_add,matrix)
S3method(quad_layout_add,quad_active)
S3method(quad_layout_add,quad_anno)
S3method(quad_layout_and_add,default)
S3method(quad_layout_and_add,ggalign_with_quad)
S3method(quad_layout_and_add,theme)
S3method(quad_layout_subtract,default)
S3method(quad_layout_subtract,ggalign_scheme)
S3method(quad_layout_subtract,ggalign_with_quad)
S3method(stack_build_composer,StackLayout)
S3method(stack_composer_add,ggalign_plot)
S3method(stack_composer_add,list)
S3method(stack_continuous,"function")
S3method(stack_continuous,default)
S3method(stack_continuous,formula)
S3method(stack_cross,default)
S3method(stack_discrete,"function")
S3method(stack_discrete,default)
S3method(stack_discrete,formula)
S3method(str,unit)
S3method(tune,MAF)
S3method(tune,list)
S3method(tune,matrix)
S3method(update_design,CircleLayout)
S3method(update_design,QuadLayout)
S3method(update_design,StackCross)
S3method(update_design,StackLayout)
S3method(update_scheme,default)
S3method(update_scheme,scheme_align)
S3method(update_scheme,scheme_theme)
S3method(vec_cast,ggalign_pair_link.AsIs)
S3method(vec_cast,ggalign_pair_link.character)
S3method(vec_cast,ggalign_pair_link.double)
S3method(vec_cast,ggalign_pair_link.formula)
S3method(vec_cast,ggalign_pair_link.ggalign_range_link)
S3method(vec_cast,ggalign_pair_link.integer)
S3method(vec_cast,ggalign_pair_link.list)
S3method(vec_cast,ggalign_pair_link.numeric)
S3method(vec_cast,ggalign_pair_links.list)
S3method(vec_proxy,ggalign_pair_link)
S3method(vec_ptype2,AsIs.ggalign_pair_link)
S3method(vec_ptype2,NULL.ggalign_pair_link)
S3method(vec_ptype2,character.ggalign_pair_link)
S3method(vec_ptype2,double.ggalign_pair_link)
S3method(vec_ptype2,formula.ggalign_pair_link)
S3method(vec_ptype2,ggalign_pair_link.AsIs)
S3method(vec_ptype2,ggalign_pair_link.NULL)
S3method(vec_ptype2,ggalign_pair_link.character)
S3method(vec_ptype2,ggalign_pair_link.double)
S3method(vec_ptype2,ggalign_pair_link.formula)
S3method(vec_ptype2,ggalign_pair_link.ggalign_pair_link)
S3method(vec_ptype2,ggalign_pair_link.ggalign_range_link)
S3method(vec_ptype2,ggalign_pair_link.integer)
S3method(vec_ptype2,ggalign_pair_link.list)
S3method(vec_ptype2,ggalign_pair_link.numeric)
S3method(vec_ptype2,ggalign_pair_link.waiver)
S3method(vec_ptype2,ggalign_pair_links.list)
S3method(vec_ptype2,ggalign_range_link.ggalign_pair_link)
S3method(vec_ptype2,integer.ggalign_pair_link)
S3method(vec_ptype2,list.ggalign_pair_link)
S3method(vec_ptype2,list.ggalign_pair_links)
S3method(vec_ptype2,numeric.ggalign_pair_link)
S3method(vec_ptype2,waiver.ggalign_pair_link)
S3method(vec_ptype_abbr,ggalign_area)
S3method(vec_ptype_abbr,unit)
S3method(with_quad,default)
S3method(with_quad,ggalign_plot)
S3method(with_quad,layout_title)
S3method(with_quad,quad_active)
S3method(with_quad,quad_anno)
S3method(with_quad,stack_switch)
export(.link_draw)
export(.mark_draw)
export(Align)
export(active)
export(align)
export(align_dendro)
export(align_group)
export(align_hclust)
export(align_kmeans)
export(align_order)
export(align_order2)
export(align_panel)
export(align_phylo)
export(align_plots)
export(alignpatch)
export(anno_bottom)
export(anno_left)
export(anno_right)
export(anno_top)
export(area)
export(circle_continuous)
export(circle_discrete)
export(circle_layout)
export(circle_switch)
export(continuous_limits)
export(cross_link)
export(cross_mark)
export(cross_none)
export(draw_key_gshape)
export(element_curve)
export(element_polygon)
export(element_rep)
export(element_rep_len)
export(element_vec)
export(element_vec_recycle)
export(element_vec_rep)
export(element_vec_rep_each)
export(element_vec_slice)
export(fortify_data_frame)
export(fortify_matrix)
export(free_align)
export(free_border)
export(free_guide)
export(free_lab)
export(free_space)
export(free_vp)
export(geom_draw)
export(geom_gshape)
export(geom_pie)
export(geom_rect3d)
export(geom_subrect)
export(geom_subtile)
export(geom_tile3d)
export(ggalign)
export(ggalignGrob)
export(ggalign_attr)
export(ggalign_data_set)
export(ggalign_lvls)
export(ggalign_stat)
export(ggcross)
export(ggfree)
export(ggheatmap)
export(ggmark)
export(ggoncoplot)
export(ggpanel)
export(ggside)
export(ggupset)
export(ggwrap)
export(gpar)
export(hclust2)
export(heatmap_layout)
export(hmanno)
export(inset)
export(is_circle_layout)
export(is_ggheatmap)
export(is_heatmap_layout)
export(is_layout)
export(is_quad_layout)
export(is_stack_cross)
export(is_stack_layout)
export(layer_order)
export(layout_annotation)
export(layout_design)
export(layout_title)
export(link_draw)
export(link_line)
export(link_tetragon)
export(mark_draw)
export(mark_line)
export(mark_tetragon)
export(mark_triangle)
export(memo_order)
export(new_tune)
export(no_expansion)
export(order2)
export(pair_links)
export(patch)
export(patch_titles)
export(quad_active)
export(quad_alignb)
export(quad_alignh)
export(quad_alignv)
export(quad_anno)
export(quad_continuous)
export(quad_discrete)
export(quad_free)
export(quad_init)
export(quad_layout)
export(quad_switch)
export(range_link)
export(raster_magick)
export(read_example)
export(scale_gshape_manual)
export(scheme_align)
export(scheme_data)
export(scheme_theme)
export(stack_active)
export(stack_align)
export(stack_alignh)
export(stack_alignv)
export(stack_continuous)
export(stack_continuoush)
export(stack_continuousv)
export(stack_cross)
export(stack_crossh)
export(stack_crossv)
export(stack_discrete)
export(stack_discreteh)
export(stack_discretev)
export(stack_free)
export(stack_freeh)
export(stack_freev)
export(stack_horizontal)
export(stack_layout)
export(stack_switch)
export(stack_vertical)
export(theme_no_axes)
export(tune)
export(tune_data)
export(unit)
export(with_quad)
exportMethods("$")
exportMethods(show)
import(vctrs)
importFrom(cli,cli_abort)
importFrom(cli,cli_inform)
importFrom(cli,cli_warn)
importFrom(ggplot2,.pt)
importFrom(ggplot2,Facet)
importFrom(ggplot2,aes)
importFrom(ggplot2,calc_element)
importFrom(ggplot2,el_def)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_grob)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_render)
importFrom(ggplot2,find_panel)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggplotGrob)
importFrom(ggplot2,ggplot_add)
importFrom(ggplot2,ggplot_build)
importFrom(ggplot2,ggproto)
importFrom(ggplot2,ggproto_parent)
importFrom(ggplot2,margin)
importFrom(ggplot2,merge_element)
importFrom(ggplot2,register_theme_elements)
importFrom(ggplot2,rel)
importFrom(ggplot2,resolution)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_get)
importFrom(ggplot2,update_labels)
importFrom(ggplot2,waiver)
importFrom(ggplot2,wrap_dims)
importFrom(ggplot2,zeroGrob)
importFrom(grid,absolute.size)
importFrom(grid,convertHeight)
importFrom(grid,convertWidth)
importFrom(grid,editGrob)
importFrom(grid,gList)
importFrom(grid,gTree)
importFrom(grid,gpar)
importFrom(grid,grid.draw)
importFrom(grid,grob)
importFrom(grid,grobHeight)
importFrom(grid,grobName)
importFrom(grid,grobWidth)
importFrom(grid,heightDetails)
importFrom(grid,is.grob)
importFrom(grid,is.unit)
importFrom(grid,makeContent)
importFrom(grid,setChildren)
importFrom(grid,unit)
importFrom(grid,unit.c)
importFrom(grid,unitType)
importFrom(grid,valid.just)
importFrom(grid,viewport)
importFrom(grid,widthDetails)
importFrom(gtable,gtable)
importFrom(gtable,gtable_add_cols)
importFrom(gtable,gtable_add_grob)
importFrom(gtable,gtable_add_padding)
importFrom(gtable,gtable_add_rows)
importFrom(gtable,gtable_height)
importFrom(gtable,gtable_trim)
importFrom(gtable,gtable_width)
importFrom(gtable,is.gtable)
importFrom(lifecycle,deprecated)
importFrom(methods,"slot<-")
importFrom(methods,extends)
importFrom(methods,formalArgs)
importFrom(methods,is)
importFrom(methods,new)
importFrom(methods,show)
importFrom(methods,slot)
importFrom(rlang,.data)
importFrom(rlang,.env)
importFrom(rlang,abort)
importFrom(rlang,arg_match0)
importFrom(rlang,caller_arg)
importFrom(rlang,caller_call)
importFrom(rlang,caller_env)
importFrom(rlang,cnd_signal)
importFrom(rlang,current_call)
importFrom(rlang,ffi_standalone_check_number_1.0.7)
importFrom(rlang,ffi_standalone_is_bool_1.0.7)
importFrom(rlang,inject)
importFrom(rlang,is_atomic)
importFrom(rlang,is_empty)
importFrom(rlang,is_missing)
importFrom(rlang,is_string)
importFrom(rlang,is_vector)
importFrom(rlang,list2)
importFrom(rlang,names2)
importFrom(rlang,set_names)
importFrom(rlang,try_fetch)
importFrom(stats,order.dendrogram)
importFrom(stats,reorder)
importFrom(utils,getFromNamespace)
importFrom(utils,getS3method)
importFrom(utils,modifyList)
importFrom(utils,packageName)
importFrom(utils,packageVersion)
importFrom(utils,str)