rfdistance: RF distance between gene trees and species tree
In huatengh/Classiphy: Classify gene trees basing on the processes generating species-tree gene-tree discordance
Description
Usage
Arguments
Details
Value
Author(s)
Examples
Description
A function to calculate RF distance between a species tree and a set of gene trees
Usage
1
rfdistance(repfolder = NULL, sfile = NULL, gfile = NULL)
Arguments
repfolder
the path of the folder containing the s_tree.trees and g_trees.trees file
sfile
or the species tree file location
gfile
with the gene tree file location
Details
By default, this function assumes two files– s_tree.trees and g_trees.trees–in the user specified folder path, if missing, using user supplied location for the two files. RF distances are turned in to Z scores using the righttailp function.
Value
return a data.frame with one column, column name rfzscore.
Author(s)
Huateng Huang
Examples
1
2
{ ~kwd1 }
{ ~kwd2 }
huatengh/Classiphy documentation built on May 21, 2019, 7:53 a.m.
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Description Usage Arguments Details Value Author(s) Examples
Description
A function to calculate RF distance between a species tree and a set of gene trees
Usage
1 | rfdistance(repfolder = NULL, sfile = NULL, gfile = NULL)
|
Arguments
repfolder |
the path of the folder containing the s_tree.trees and g_trees.trees file |
sfile |
or the species tree file location |
gfile |
with the gene tree file location |
Details
By default, this function assumes two files– s_tree.trees and g_trees.trees–in the user specified folder path, if missing, using user supplied location for the two files. RF distances are turned in to Z scores using the righttailp function.
Value
return a data.frame with one column, column name rfzscore.
Author(s)
Huateng Huang
Examples
1 2 | { ~kwd1 }
{ ~kwd2 }
|
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.
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