ggsplitnet: ggsplitnet

In KlausVigo/ggnetworx: Visualization of Phylogenetic Networks

Description

drawing phylogenetic tree from phylo object

Usage

ggsplitnet(
  tr,
  mapping = NULL,
  layout = "slanted",
  open.angle = 0,
  mrsd = NULL,
  as.Date = FALSE,
  yscale = "none",
  yscale_mapping = NULL,
  ladderize = FALSE,
  right = FALSE,
  branch.length = "branch.length",
  ndigits = NULL,
  ...
)

Arguments

tr	phylo object
mapping	aes mapping
layout	one of 'rectangular', 'slanted', 'fan', 'circular', 'radial', 'equal_angle' or 'daylight'
open.angle	open angle, only for 'fan' layout
mrsd	most recent sampling date
as.Date	logical whether using Date class in time tree
yscale	y scale
yscale_mapping	yscale mapping for category variable
ladderize	logical
right	logical
branch.length	variable for scaling branch, if 'none' draw cladogram
ndigits	number of digits to round numerical annotation variable
...	additional parameter

Value

tree

Author(s)

Klaus Schliep

References

Schliep, K., Potts, A. J., Morrison, D. A. and Grimm, G. W. (2017), Intertwining phylogenetic trees and networks. Methods Ecol Evol. 8, 1212–1220. doi:10.1111/2041-210X.12760

See Also

ggtree, networx, consensusNet, neighborNet

Examples

data(yeast, package="phangorn")
dm <- phangorn::dist.ml(yeast)
nnet <- phangorn::neighborNet(dm)
ggsplitnet(nnet) + geom_tiplab2()

KlausVigo/ggnetworx documentation built on Nov. 20, 2019, 6:52 p.m.