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cSPR() expects a tree rooted on a single tip.

Source: R/SPR.R
cSPR.Rd

cSPR() expects a tree rooted on a single tip.

Usage

cSPR(tree, whichMove = NULL)

Arguments

tree

A tree of class phylo.

whichMove

Integer specifying which SPR move index to perform.

Author

Martin R. Smith (martin.smith@durham.ac.uk)

Examples

tree <- TreeTools::BalancedTree(8)

# Tree must be rooted on leaf
tree <- TreeTools::RootTree(tree, 1)

# Random rearrangement
cSPR(tree)
#> 
#> Phylogenetic tree with 8 tips and 7 internal nodes.
#> 
#> Tip labels:
#>   t1, t2, t3, t4, t5, t6, ...
#> 
#> Rooted; no branch lengths.

# Specific rearrangement
cSPR(tree, 9)
#> 
#> Phylogenetic tree with 8 tips and 7 internal nodes.
#> 
#> Tip labels:
#>   t1, t2, t3, t4, t5, t6, ...
#> 
#> Rooted; no branch lengths.