Huge Tree Visualization
5
9
Entering edit mode
12.0 years ago
Alex ★ 1.5k

Is there any way to draw a circular tree with more than 20000 elements. iTOL is a great tool but it has 10000 elements limit.

tree visualization • 9.2k views
ADD COMMENT
9
Entering edit mode
12.0 years ago

Use ETE. In their site there's a example drawing the entire NCBI taxonomy (about 450k nodes). There are options to draw circular trees, too.

ADD COMMENT
7
Entering edit mode
11.9 years ago

Have you tried Walrus / Phylo3D or Dendroscope ?

ADD COMMENT
1
Entering edit mode

Just suggested Dendroscope to one student here who was very pleased to be able to visualize his HUGE phylogenic tree :) Thanks!

ADD REPLY
0
Entering edit mode

Does anyone have a copy of Phylo3D (I think the latest was the 1.2 zip file)? It has gone missing. Thanks!

ADD REPLY
0
Entering edit mode
ADD REPLY
5
Entering edit mode
12.0 years ago

just to add another viable option, I use the forester libraries. they are very powerful, they allow dealing with phyloXML data, and it is even an opensource project. and if it helps in any way, I try to be updated on this project by checking the phyloXML official website.

ADD COMMENT
4
Entering edit mode
11.9 years ago
Maik ▴ 40

ETE will be able to load and handle your tree, however no radial visualization is available so far. I think they are working on that.

ADD COMMENT
1
Entering edit mode
12 days ago
Theo ▴ 20

PhyloCanvas.GL, implemented in MicroReact scales to large trees and permits circular modes.

Taxonium is designed for exploring very large phylogenetic trees (many millions of nodes) in rectangular format.

Edit: COI disclosure - I am the author of the second tool. I have no connection with the first tool.

ADD COMMENT

Login before adding your answer.

Traffic: 1310 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6