Tree150: Tree150
In Norisama/VFtree: visualization of combined Virulence Factors and Phylogenetic Tree
Description
Usage
Format
Source
Description
A "phylo" object contain information about the tree
created from the sample150.newick file contains taxonomy info of all strains
Usage
1
Format
A phylo object with 4 main parts
- edge
The matrix edge contains the beginning and ending node number for all the nodes and tips in the tree. By convention, the tips of the tree are numbered 1 through n for n tips; and the nodes are numbered n + 1 through n + m for m nodes. m = n - 1 for a fully bifurcating tree. This is just to keep track of which nodes are internal and which are leaves.
- tip.label
The vector tip.label contains the labels for all the tips in the tree. The order of tip.label is the order of the tips numbered 1 through n in edge.
- edge.length
a vector of class "numeric" containing all the edge lengths of the tree in the same order as the rows in edge; and root.edge, a numeric value giving the length of the root edge, if one exists.
- Nnode
The integer Nnode contains the number of internal nodes in the tree, including the root of the tree if the tree is rooted.
...
Source
http://www.phytools.org/eqg/Exercise_3.2/
Norisama/VFtree documentation built on Dec. 8, 2019, 9:28 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Format Source
Description
A "phylo" object contain information about the tree created from the sample150.newick file contains taxonomy info of all strains
Usage
1 |
Format
A phylo object with 4 main parts
- edge
The matrix edge contains the beginning and ending node number for all the nodes and tips in the tree. By convention, the tips of the tree are numbered 1 through n for n tips; and the nodes are numbered n + 1 through n + m for m nodes. m = n - 1 for a fully bifurcating tree. This is just to keep track of which nodes are internal and which are leaves.
- tip.label
The vector tip.label contains the labels for all the tips in the tree. The order of tip.label is the order of the tips numbered 1 through n in edge.
- edge.length
a vector of class "numeric" containing all the edge lengths of the tree in the same order as the rows in edge; and root.edge, a numeric value giving the length of the root edge, if one exists.
- Nnode
The integer Nnode contains the number of internal nodes in the tree, including the root of the tree if the tree is rooted.
...
Source
http://www.phytools.org/eqg/Exercise_3.2/
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.