User: liam.revell

gravatar for liam.revell
liam.revell90
Reputation:
90
Status:
Trusted
Location:
Last seen:
4 days, 15 hours ago
Joined:
1 week, 1 day ago
Email:
l**********@phytools.org

Posts by liam.revell

<prev • 3 results • page 1 of 1 • next >
1
vote
2
answers
196
views
2
answers
Comment: C: Difference between ape::root, ggtree::reroot and phytools::reroot in R
... Ooh. Excellent observation. Yes, phytools::reroot & ape::root both (by default) root at the node, but reroot by placing the root zero distance *below* the node & root at the node. Consequently, phytools::reroot = ape::root(...,resolve.root=TRUE) when all other defaults are used. ...
written 7 days ago by liam.revell90
4
votes
2
answers
196
views
2
answers
Answer: A: Difference between ape::root, ggtree::reroot and phytools::reroot in R
... Just to clarify, the reason the tree from ggtree 'looks' better is because it is still bifurcating - but a bifurcating tree rooted at an internal node should contain a trifurcation at the root (as do the trees from phytools & ape). To obtain a bifurcating tree from rerooting an existing bifurcat ...
written 8 days ago by liam.revell90
4
votes
2
answers
196
views
2
answers
Answer: A: Difference between ape::root, ggtree::reroot and phytools::reroot in R
... ggtree::reroot is *not* re-rooting the tree at node 11, but on the edge connecting nodes 10 & 11, so is incorrect since the position used along this edge (its midpoint?) is arbitrary. If desired this can be done using phytools::reroot by specifying the position at which the tree should be re-roo ...
written 8 days ago by liam.revell90

Latest awards to liam.revell

Scholar 6 days ago, created an answer that has been accepted. For A: Difference between ape::root, ggtree::reroot and phytools::reroot in R
Scholar 6 days ago, created an answer that has been accepted. For A: Difference between ape::root, ggtree::reroot and phytools::reroot in R
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: Difference between ape::root, ggtree::reroot and phytools::reroot in R
Teacher 8 days ago, created an answer with at least 3 up-votes. For A: Difference between ape::root, ggtree::reroot and phytools::reroot in R

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 664 users visited in the last hour