Description Usage Arguments Value Author(s) Examples
Comparison of a single reference tree to a list of trees using the Kendall Colijn metric. Output is given as a vector of distances from the reference tree.
1 2 | refTreeDist(refTree, trees, lambda = 0, return.lambda.function = FALSE,
emphasise.tips = NULL, emphasise.weight = 2)
|
refTree |
a tree of class |
trees |
an object of the class |
lambda |
a number in [0,1] which specifies the extent to which topology (default, with lambda=0) or branch lengths (lambda=1) are emphasised. This argument is ignored if |
return.lambda.function |
If true, a function that can be invoked with different lambda values is returned. This function returns the vector of metric values for the given lambda. |
emphasise.tips |
an optional list of tips whose entries in the tree vectors should be emphasised. Defaults to |
emphasise.weight |
applicable only if a list is supplied to |
The vector of distances, where entry i corresponds to the distance between the i'th tree and the reference tree, or a function that produces the vector of distances given a value for lambda.
Michelle Kendall michelle.louise.kendall@gmail.com
1 2 3 4 5 6 7 8 | ## generate a single reference tree with 6 tips
refTree <- rtree(6)
## generate 10 random trees, each with 6 tips
trees <- rmtree(10,6)
## find the distances from each of the 10 random trees to the single reference tree
refTreeDist(refTree,trees)
|
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