mast

0th

Percentile

Maximum agreement subtree

mast computes the maximum agreement subtree (MAST).

Keywords
cluster
Usage
mast(x, y, tree = TRUE, rooted = TRUE)
Arguments
x

a tree, i.e. an object of class phylo.

y

a tree, i.e. an object of class phylo.

tree

a logicical, if TRUE returns a tree other wise the tip labels of the the maximum agreement subtree.

rooted

logical if TRUE treats trees as rooted otherwise unrooted.

Details

The code is derived from the code example in Valiente (2009). The version for the unrooted trees is much slower.

Value

mast returns a vector of the tip labels in the MAST.

References

G. Valiente (2009). Combinatorial Pattern Matching Algorithms in Computational Biology using Perl and R. Taylor & Francis/CRC Press

See Also

SPR.dist

Aliases
  • mast
Examples
# NOT RUN {
tree1 <- rtree(100)
tree2 <- rSPR(tree1, 5)
tips <- mast(tree1, tree2)

# }
Documentation reproduced from package phangorn, version 2.5.5, License: GPL (>= 2)

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