Question: Compare topologies of trees with non-identical tip labels
gravatar for al-ash
2.2 years ago by
al-ash140 wrote:

I was using tanglegram() function from a great R package dendextend to draw comparison of phylogenetic trees. However, it requires to have identical set of tip labels in both trees and gives following error when presented with two trees with not identical set of tip labels:

Error in match_order_by_labels(dend2, dend1) : 
labels do not match in both trees.  Please make sure to fix the labels names!)

I have some trees where e.g. 80% of tip labels overlap but there are some tree-specific tips (e.g. one tree with tip labels A, B, C, D, E, F and another tree with labels C, D, E, F, G, H) which I'd love to compare.

Is there an existing tool to draw such a tree comparison (similar to the one produced by tanglegram: Ideally R but I will be thankful for any platform. Thanks!

ADD COMMENTlink modified 2.2 years ago by jhc2.9k • written 2.2 years ago by al-ash140
gravatar for jhc
2.2 years ago by
jhc2.9k wrote:

you could try ete-compare to get some distances:

ADD COMMENTlink written 2.2 years ago by jhc2.9k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1255 users visited in the last hour