Extraction of the actual number of solutions.

Source: R/parsimonyNumber.R

extract.parsimonyNumber takes the two matrices computed by parsimonyNumber, and compute the actual number of parsimonious solution for any subtree starting from a given node.

# S3 method for parsimonyNumber
extract(
  x,
  node = attr(x$nbrReconstructions, "ntaxa") + 1,
  what = c("number", "cost"),
  ...
)

Arguments

x

an object of class "parsimonyNumber", result of function parsimonyNumber.

node

the root node of the subtree. By default, the root of the tree.

what

the quantity to retrieve. Either "number" for the number of solutions, or "cost" for the minimal cost of a solution. Default to "number".

...

unused

Value

An integer giving the number of equivalent parsimonious solutions.

Details

The parsimonious solutions are the one with the minimum number of shifts (that are given by matrix costReconstructions). This function sums the number of solutions (given in matrix nbrReconstructions) that have the minimum number of shifts.

See also

parsimonyNumber