facet-plot: facet_plot

In YuLab-SMU/ggtree: an R package for visualization of tree and annotation data

facet_plot

Description

plot tree associated data in an additional panel

Usage

facet_plot(p, mapping = NULL, data, geom, panel, ...)

geom_facet(mapping = NULL, data, geom, panel, ...)

Arguments

p	tree view
mapping	aes mapping for 'geom'
data	data to plot by 'geom', first column should be matched with tip label of tree
geom	geom function to plot the data
panel	panel name for plot of input data
...	additional parameters for 'geom'

Details

'facet_plot()' automatically re-arranges the input 'data' according to the tree structure, visualizes the 'data' on specific 'panel' using the 'geom' function with aesthetic 'mapping' and other parameters, and align the graph with the tree 'p' side by side. 'geom_facet' is a 'ggplot2' layer version of 'facet_plot'

Value

ggplot object

Author(s)

Guangchuang Yu

References

G Yu, TTY Lam, H Zhu, Y Guan (2018). Two methods for mapping and visualizing associated data on phylogeny using ggtree. Molecular Biology and Evolution, 35(2):3041-3043. https://doi.org/10.1093/molbev/msy194

Examples

tr <- rtree(10)
dd = data.frame(id=tr$tip.label, value=abs(rnorm(10)))
p <- ggtree(tr)
facet_plot(p, 'Trait', data = dd, geom=geom_point, mapping=aes(x=value))

YuLab-SMU/ggtree documentation built on Nov. 3, 2024, 4:15 p.m.