Drop a clade from a phylogenetic tree
PCMTreeDropClade(tree, cladeRootNode, tableAncestors = NULL, X = NULL, returnPhylo = is.null(X), errorOnMissing = FALSE)
tree | a phylo object |
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cladeRootNode | a character string denoting the label or an integer denoting a node in the tree |
tableAncestors | an integer matrix returned by a previous call to PCMTreeTableAncestors(tree) or NULL. |
X | an optional k x N matrix with trait value vectors for each tip in tree. |
returnPhylo | logical indicating if only the phylo object associated with the tree after dropping the clade should be returned. Defaults to |
errorOnMissing | logical indicating if an error should be rased if cladeRootNode is not among the nodes in tree. Default FALSE, meaning that if cladeRootNode is not a node in tree the tree (and X if returnPhylo is FALSE) is/are returned unchanged. |
If returnPhylo is TRUE, a phylo object associated with the remaining tree after dropping the clade, otherise, a list with two named members :
treethe phylo object associated with the remaining tree after dropping the clade
Xthe submatrix of X with columns corresponding to the tips in the remaining tree
PCMTreeSpliAtNode PCMTreeDropClade