API for YuLab-SMU/ggtree
an R package for visualization of tree and annotation data
| Global functions | |
|---|---|
| %+>% | Man page |
| %<% | Man page |
| %<+% | Man page |
| %>% | Man page |
| .check.graph.layout | Source code |
| .onAttach | Source code |
| .return_wrap | Source code |
| Date2decimal | Man page Source code |
| MRCA | Man page |
| MRCA.ggtree | Source code |
| StatBalance | Man page |
| `%+>%` | Source code |
| `%<%` | Source code |
| `%place%` | Source code |
| add_colorbar | Man page Source code |
| adjust_cladelabel_angle | Source code |
| adjust_hclust_tip.edge.len | Source code |
| aes | Man page |
| applyLayoutDaylight | Man page Source code |
| arrow | Man page |
| as.polytomy | Man page Source code |
| build_align_data | Source code |
| build_cladebar_df | Source code |
| build_cladebar_df2 | Source code |
| build_cladeids_df | Source code |
| build_cladeids_df2 | Source code |
| build_cladelabel_df | Source code |
| build_cladelabel_df2 | Source code |
| build_image_layer | Source code |
| build_new_plot_env | Source code |
| build_stripbar_df | Source code |
| build_striplabel_df | Source code |
| build_text_layer | Source code |
| calculate_angle | Source code |
| check_reverse | Source code |
| choose_hilight_layer | Source code |
| collapse | Man page |
| collapse.ggtree | Man page Source code |
| color_scale | Source code |
| coplot | Source code |
| decimal2Date | Man page Source code |
| expand | Man page Source code |
| extract_all_aes_var | Source code |
| extract_params | Source code |
| facet_data | Man page Source code |
| facet_labeller | Man page Source code |
| facet_plot | Man page Source code |
| facet_widths | Man page Source code |
| flip | Man page Source code |
| fortify | Man page |
| fortify.multiPhylo | Source code |
| fortify.obkData | Source code |
| fortify.phylo | Source code |
| fortify.phylo4 | Source code |
| fortify.phylo4d | Source code |
| fortify.phyloseq | Source code |
| fortify.treedata | Source code |
| generate_curvature | Source code |
| generate_curvature2 | Source code |
| geom_aline | Man page Source code |
| geom_balance | Man page Source code |
| geom_cladelab | Man page Source code |
| geom_cladelabel | Man page Source code |
| geom_cladelabel2 | Man page Source code |
| geom_cladelabel_rectangular | Source code |
| geom_curvelink | Source code |
| geom_facet | Man page Source code |
| geom_highlight | Man page |
| geom_hilight | Man page Source code |
| geom_hilight_encircle2 | Source code |
| geom_hilight_rect2 | Source code |
| geom_inset | Man page Source code |
| geom_label | Man page |
| geom_label2 | Man page Source code |
| geom_motif | Man page Source code |
| geom_nodelab | Man page Source code |
| geom_nodelab2 | Man page Source code |
| geom_nodepoint | Man page Source code |
| geom_point | Man page |
| geom_point2 | Man page Source code |
| geom_range | Man page Source code |
| geom_range_internal | Source code |
| geom_rootedge | Man page Source code |
| geom_rootpoint | Man page Source code |
| geom_segment2 | Man page Source code |
| geom_strip | Man page Source code |
| geom_striplab | Man page Source code |
| geom_taxalink | Man page Source code |
| geom_text | Man page |
| geom_text2 | Man page Source code |
| geom_tiplab | Man page Source code |
| geom_tiplab2 | Man page Source code |
| geom_tiplab_as_ylab | Source code |
| geom_tiplab_rectangular | Source code |
| geom_tippoint | Man page Source code |
| geom_tree | Man page Source code |
| geom_tree2 | Man page Source code |
| geom_treescale | Man page Source code |
| geom_zoom_clade | Man page Source code |
| get.path | Man page |
| getIdx | Source code |
| getIdx_internal | Source code |
| getNodeAngle.df | Man page |
| getNodesBreadthFirst.df | Man page |
| getSubtree | Man page |
| getSubtree.df | Man page |
| getSubtreeUnrooted | Man page |
| getSubtreeUnrooted.df | Man page |
| getTreeArcAngles | Man page |
| get_balance_position | Source code |
| get_balance_position_ | Source code |
| get_clade_position | Man page Source code |
| get_clade_position_ | Source code |
| get_cladelabel2_position_ | Source code |
| get_cladelabel2_position_bar | Source code |
| get_cladelabel2_position_label | Source code |
| get_cladelabel_position | Source code |
| get_cladelabel_position_ | Source code |
| get_color_attribute | Source code |
| get_glob_encircle | Source code |
| get_heatmap_column_position | Man page Source code |
| get_layout | Source code |
| get_striplab_position | Source code |
| get_striplab_position_ | Source code |
| get_striplabel_position | Source code |
| get_striplabel_position_ | Source code |
| get_taxa_name | Man page Source code |
| get_tree_view | Source code |
| get_treescale_position | Source code |
| ggdensitree | Man page Source code |
| ggexpand | Man page Source code |
| ggexpand_internal | Source code |
| ggpie | Source code |
| ggplot | Man page |
| ggplot_add.cladelab | Source code |
| ggplot_add.cladelabel | Source code |
| ggplot_add.facet_plot | Source code |
| ggplot_add.facet_xlim | Source code |
| ggplot_add.geom_range | Source code |
| ggplot_add.ggexpand | Source code |
| ggplot_add.hilight | Source code |
| ggplot_add.layout_ggtree | Source code |
| ggplot_add.range_xaxis | Source code |
| ggplot_add.scale_ggtree | Source code |
| ggplot_add.striplab | Source code |
| ggplot_add.striplabel | Source code |
| ggplot_add.taxalink | Source code |
| ggplot_add.tiplab | Source code |
| ggplot_add.tiplab_ylab | Source code |
| ggplot_add.tree_inset | Source code |
| ggplot_add.zoom_clade | Source code |
| ggsave | Man page |
| ggtree | Man page Source code |
| ggtree-package | Man page |
| ggtree_citations | Source code |
| ggtree_references | Source code |
| gheatmap | Man page Source code |
| groupClade | Man page |
| groupClade.ggtree | Source code |
| groupOTU | Man page |
| groupOTU.ggtree | Source code |
| guide_legend | Man page |
| gzoom | Man page |
| gzoom,ggtree-method | Man page |
| gzoom,phylo-method | Man page |
| gzoom,treedata-method | Man page |
| gzoom.ggtree | Source code |
| gzoom.phylo | Man page Source code |
| hexpand | Man page Source code |
| identify | Man page |
| inset | Man page Source code |
| is.tree_attribute | Source code |
| is.tree_attribute_ | Source code |
| is.viewClade | Source code |
| label_pad | Man page Source code |
| layout.unrooted | Source code |
| layoutDaylight | Man page Source code |
| layoutEqualAngle | Man page Source code |
| layout_circular | Man page Source code |
| layout_dendrogram | Man page Source code |
| layout_fan | Man page Source code |
| layout_ggtree | Source code |
| layout_inward_circular | Man page Source code |
| layout_rectangular | Man page Source code |
| margin | Man page |
| message_wrap | Source code |
| msaplot | Man page Source code |
| multiplot | Man page Source code |
| nodebar | Man page Source code |
| nodeid | Man page |
| nodeid.ggtree | Source code |
| nodelab | Man page |
| nodelab.ggtree | Source code |
| nodepie | Man page Source code |
| offspring.ggtree | Source code |
| open_tree | Man page Source code |
| package-ggtree | Man page |
| panel_col_var | Source code |
| plot_fantree | Source code |
| plot_fantrees | Source code |
| plot_list | Man page |
| range_center | Source code |
| range_format | Man page Source code |
| range_lower | Source code |
| range_upper | Source code |
| read.tree | Man page |
| reassign_y_from_node_to_root | Source code |
| rect_to_poly | Source code |
| reexports | Man page |
| remapping | Source code |
| reset_dot_params | Source code |
| reset_mapping | Source code |
| reset_params | Source code |
| reverse.treeview | Source code |
| reverse.treeview.data | Source code |
| revts | Man page Source code |
| rotate | Man page Source code |
| rotateTreePoints.df | Man page |
| rotate_tree | Man page Source code |
| roundDigit | Source code |
| rtree | Man page |
| scaleClade | Man page Source code |
| scaleX_by_time | Source code |
| scaleX_by_time_from_mrsd | Source code |
| scaleY | Source code |
| scale_color | Man page |
| scale_color,phylo-method | Man page |
| scale_color,treedata-method | Man page |
| scale_color_ | Source code |
| scale_color_manual | Man page |
| scale_color_subtree | Man page Source code |
| scale_colour_manual | Man page |
| scale_colour_subtree | Man page |
| scale_fill_manual | Man page |
| scale_x_continuous | Man page |
| scale_x_ggtree | Man page Source code |
| scale_x_range | Man page Source code |
| set_branch_length_cladogram | Source code |
| set_hilight_legend | Man page Source code |
| setup_data_continuous_color_size | Source code |
| setup_data_continuous_color_size_tree | Source code |
| setup_tree_data | Source code |
| stat_cladeBar | Source code |
| stat_cladeBar2 | Source code |
| stat_cladeText | Source code |
| stat_cladeText2 | Source code |
| stat_tree | Source code |
| stat_treeScaleLabel | Source code |
| stat_treeScaleLine | Source code |
| stat_treeScaleText | Source code |
| taxa2node | Source code |
| td_filter | Man page |
| td_mutate | Man page |
| td_unnest | Man page |
| theme | Man page |
| theme_dendrogram | Man page Source code |
| theme_inset | Man page Source code |
| theme_tree | Man page Source code |
| theme_tree2 | Man page Source code |
| theme_tree2_internal | Source code |
| transform_df | Source code |
| unit | Man page |
| vexpand | Man page Source code |
| viewClade | Man page Source code |
| xlim | Man page |
| xlim_expand | Man page Source code |
| xlim_tree | Man page Source code |
| zoomClade | Man page Source code |
