[R-sig-phylo] Plot phylogeny with increasing or decreasing node ages?
Hi all, In FigTree, there is an option (Left menu-Trees-Order nodes-increasing, or decreasing) to plot trees and order them such that the higher nodes/tips in the tree plot at the top or bottom of the plot. Does anything like this exist for plotting trees in R? Or do I have to hunt-n-peck and manually rotate nodes 1-by-1 until it looks right? (yes, I could save the tree out from FigTree and use that, but I want to automate this plotting function without a FigTree step) Cheers! Nick [[alternative HTML version deleted]] ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
Re: [R-sig-phylo] Plot phylogeny with increasing or decreasing node ages?
Hi Nick. I'm not sure if this is what you mean, but have you tried the function ladderize from the ape package? All the best, Liam Liam J. Revell, Assistant Professor of Biology University of Massachusetts Boston web: http://faculty.umb.edu/liam.revell/ email: liam.rev...@umb.edu blog: http://blog.phytools.org On 4/26/2015 6:37 PM, Nick Matzke wrote: Hi all, In FigTree, there is an option (Left menu-Trees-Order nodes-increasing, or decreasing) to plot trees and order them such that the higher nodes/tips in the tree plot at the top or bottom of the plot. Does anything like this exist for plotting trees in R? Or do I have to hunt-n-peck and manually rotate nodes 1-by-1 until it looks right? (yes, I could save the tree out from FigTree and use that, but I want to automate this plotting function without a FigTree step) Cheers! Nick [[alternative HTML version deleted]] ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
Re: [R-sig-phylo] Plot phylogeny with increasing or decreasing node ages?
Yep, that's it exactly. Thanks guys! Nick On Sun, Apr 26, 2015 at 6:42 PM, Liam J. Revell liam.rev...@umb.edu wrote: Hi Nick. I'm not sure if this is what you mean, but have you tried the function ladderize from the ape package? All the best, Liam Liam J. Revell, Assistant Professor of Biology University of Massachusetts Boston web: http://faculty.umb.edu/liam.revell/ email: liam.rev...@umb.edu blog: http://blog.phytools.org On 4/26/2015 6:37 PM, Nick Matzke wrote: Hi all, In FigTree, there is an option (Left menu-Trees-Order nodes-increasing, or decreasing) to plot trees and order them such that the higher nodes/tips in the tree plot at the top or bottom of the plot. Does anything like this exist for plotting trees in R? Or do I have to hunt-n-peck and manually rotate nodes 1-by-1 until it looks right? (yes, I could save the tree out from FigTree and use that, but I want to automate this plotting function without a FigTree step) Cheers! Nick [[alternative HTML version deleted]] ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ [[alternative HTML version deleted]] ___ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
