Description Usage Arguments Value Author(s) Examples
Function which takes an object of class phylo and outputs the vector for the Kendall Colijn metric.
The elements of the vector are numeric if return.lambda.function=FALSE
(default),
and otherwise they are functions of lambda.
1 2 |
tree |
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 vector should be emphasised. Defaults to |
emphasise.weight |
applicable only if a list is supplied to |
The vector of values according to the metric, or a function that produces the vector given a value of lambda.
Jacob Almagro-Garcia nativecoder@gmail.com
Michelle Kendall michelle.louise.kendall@gmail.com
1 2 3 4 5 6 7 8 9 10 | ## generate a random tree
tree <- rtree(6)
## topological vector of mrca distances from root:
treeVec(tree)
## vector of mrca distances from root when lambda=0.5:
treeVec(tree,0.5)
## vector of mrca distances as a function of lambda:
vecAsFunction <- treeVec(tree,return.lambda.function=TRUE)
## evaluate the vector at lambda=0.5:
vecAsFunction(0.5)
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