python (65.1k questions)

javascript (44.2k questions)

reactjs (22.7k questions)

java (20.8k questions)

c# (17.4k questions)

html (16.3k questions)

r (13.7k questions)

android (12.9k questions)

Questions - ggtree

ggtree: how to label tree branches in the simplest way

I want to label a specific branch (e.g., "Group 1") on the tree, but I didn't found a specific function to do that. Any ideas? set.seed(123) tree <- rtree(30) plot(tree)
test-img

trilisser

r

label

branch

ggtree

Votes: 0

Answers: 1

Latest Answer

You're not actually using ggtree to plot here. If you wish to draw your tree with ggtree you could do something like this: library(ggtree) library(ggplot2) set.seed(123) tree <- rtree(30) ggplot(...
test-img

Allan Cameron

scale_color_gradient2 in gheatmap

I am drawing phylogenetic tree and added heatmap with gheatmap(). I would like to change color scale bar using low, mid, and high point. I thought scale_color_gradient2() made that possible, but it do...
test-img

marie

r

ggplot2

ggtree

Votes: 0

Answers: 0

newick format: number directly after closed parenthesis?

I have a phylogenetic tree in Newick format. A sample from the full string looks like this: "...(tet_rpg.hmm_GCA_000638155.1_seq1:0.001565531,tet_rpg.hmm_GCA_000507745.1_seq1:0.001565235)0.000:5e...
test-img

Gragas

graph-theory

biopython

phylogeny

ggtree

Votes: 0

Answers: 1

Latest Answer

This is bootstrap values. The confidence level of clade existence. Classic source
test-img

Vovin

Tip labels not appearing when reading Newick tree into R with read.tree() and read.newick()

I'm trying to read a Newick-format tree into R. My tree file looks like this: ("Duplodnaviria":("Heunggongvirae":("Peploviricota":("Herviviricetes":("Herpe...
test-img

bioinfo1

r

import

tree

phylogeny

ggtree

Votes: 0

Answers: 1

Latest Answer

I had a similar problem. I think this is due to the linear structure of the tree. I made those tests: ape::read.tree(text = "(((seq2:1)seq3:1)seq1:30)Ancestor:0;" ) #no tips I added an art...
test-img

eglh

Posts

Questions

Blogs

Jobs