Open magikker opened 11 years ago
What: This would be a function which would take a tree and return tree shape statistics for that tree.
Title: tree_shape
Input/Output: It would take a tree. It would return the trees where the input taxa are in a clade of the defined size.
Implementation: Currently the best tool for treeshape analysis is the R package aptreeshape. Which is outlined here. http://cran.r-project.org/web/packages/apTreeshape/apTreeshape.pdf
There are quite a few tree shape measures 6 are outlined in this paper http://www.jstor.org/stable/2409983?seq=1
A first implementation step would be to add some measure of tree shape. The usefulness of these measure needs to be explored. Could they be used as a similarity measure? What do they tell us about our data set?
What: This would be a function which would take a tree and return tree shape statistics for that tree.
Title: tree_shape
Input/Output: It would take a tree. It would return the trees where the input taxa are in a clade of the defined size.
Implementation: Currently the best tool for treeshape analysis is the R package aptreeshape. Which is outlined here. http://cran.r-project.org/web/packages/apTreeshape/apTreeshape.pdf
There are quite a few tree shape measures 6 are outlined in this paper http://www.jstor.org/stable/2409983?seq=1
A first implementation step would be to add some measure of tree shape. The usefulness of these measure needs to be explored. Could they be used as a similarity measure? What do they tell us about our data set?