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phytools (version 0.2-50)

reroot: Re-root a tree along an edge

Description

This function re-roots a phylogenetic tree at an arbitrary position along an edge.

Usage

reroot(tree, node.number, position)

Arguments

tree
a phylogenetic tree in "phylo" format.
node.number
number of the node descending from the target branch in tree$edge - this can also be a tip in which case the node number is the index number of the tip in tree$tip.label.
position
position along the target edge at which to re-root the tree.

Value

  • A phylogenetic tree in "phylo" format.

Details

This function had an error for rootings along edges descended from the root node for phytools<=0.2-47. this="" should="" be="" fixed="" in="" the="" present="" version.="" now="" uses="" paste.tree, root, and splitTree internally.

References

Paradis, E., J. Claude, and K. Strimmer. 2004. APE: Analyses of phylogenetics and evolution in R language. Bioinformatics, 20, 289--290.

See Also

splitTree, {paste.tree}, root