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ggtree

an R package for visualization of tree and annotation data

'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. 'ggtree' is designed for visualization and annotation of phylogenetic trees and other tree-like structures with their annotation data.

Functions (91)

Date2decimal

Date2decimal

add_TREEINFO

%+>%

add_colorbar

add_colorbar

applyLayoutDaylight

applyLayoutDaylight

as.polytomy

as.polytomy

attacher

%<+%

collapse

collapse-ggtree

decimal2Date

decimal2Date

expand

expand

facet-plot

facet_plot

facet_data

facet_data

facet_labeller

facet_labeller

facet_widths

facet_widths

flip

flip

geom-hilight

geom_hilight

geom_aline

geom_aline

geom_balance

geom_balance

geom_cladelab

geom_cladelab

geom_cladelabel

geom_cladelabel

geom_cladelabel2

geom_cladelabel2

geom_label2

geom_label2

geom_motif

geom_motif

geom_nodelab

geom_nodelab

geom_nodelab2

geom_nodelab2

geom_nodepoint

geom_nodepoint

geom_point2

geom_point2

geom_range

geom_range

geom_rootedge

geom_rootedge

geom_rootpoint

geom_rootpoint

geom_segment2

geom_segment2

geom_strip

geom_strip

geom_taxalink

link between taxa

geom_text2

geom_text2

geom_tiplab

geom_tiplab

geom_tiplab2

geom_tiplab2

geom_tippoint

geom_tippoint

geom_tree

geom_tree

geom_tree2

geom_tree2

geom_treescale

geom_treescale

geom_zoom_clade

geom_zoom_clade

get.path

get.path

getNodeAngle.df

getNodeAngle.df

getNodesBreadthFirst.df

getNodesBreadthFirst.df

getSubtree

getSubtree

getSubtree.df

getSubtree.df

getSubtreeUnrooted

getSubtreeUnrooted

getSubtreeUnrooted.df

getSubtreeUnrooted

getTreeArcAngles

getTreeArcAngles

get_clade_position

get_clade_position

get_heatmap_column_position

get_heatmap_column_position

get_taxa_name

get_taxa_name

ggdensitree

ggdensitree

ggexpand

hexpand

ggtree

visualizing phylogenetic tree and heterogenous associated data based on grammar of graphics ggtree provides functions for visualizing phylogenetic tree and its associated data in R.

ggtree-format-painter

%<%

ggtree-ggproto

StatBalance

gheatmap

gheatmap

gzoom-methods

gzoom method

gzoom.phylo

gzoom

identify

identify

inset

geom_inset

label_pad

Padding taxa labels

layoutDaylight

Equal daylight layout method for unrooted trees.

layoutEqualAngle

layoutEqualAngle

msaplot

msaplot

multiplot

multiplot

nodebar

nodebar

nodepie

nodepie

open_tree

open_tree

range_format

range_format

reexports

Objects exported from other packages

revts

revts

rotate

rotate

rotateTreePoints

rotateTreePoints.data.frame

rotate_tree

rotate_tree

scaleClade

scaleClade

scale_color-methods

scale_color method

scale_x_ggtree

scale_x_ggtree

scale_x_range

scale_x_range

set_hilight_legend

set_hilight_legend

td_filter

td-filter

td_unnest

td-unnest

theme_dendrogram

theme_dendrogram

theme_inset

theme_inset

theme_tree

theme_tree

theme_tree2

theme_tree2

tree-layout

layout_rectangular

viewClade

viewClade

xlim_expand

xlim_expand

xlim_tree

xlim_tree

zoomClade

zoomClade

ggtree

an R package for visualization of tree and annotation data

v2.4.2

Artistic-2.0

Authors

Guangchuang Yu [aut, cre, cph] (<https://orcid.org/0000-0002-6485-8781>), Tommy Tsan-Yuk Lam [aut, ths], Shuangbin Xu [aut] (<https://orcid.org/0000-0003-3513-5362>), Yonghe Xia [ctb], Justin Silverman [ctb], Bradley Jones [ctb], Watal M. Iwasaki [ctb], Ruizhu Huang [ctb]

Initial release

ggtree

Functions (91)

ggtree

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