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Extracts a subtree (and associated sub-migration history) of a structured genealogy consisting of the parent branch of a coalescent event and a fixed number of generations of descendant branches

Usage

MTT_st_coal_node(
  ED,
  st_depth = 1,
  node_indices = NodeIndicesC(ED),
  selected_node = NA
)

Arguments

ED

Extended data representation of phylogenetic tree and initial migration history

st_depth

Number of generations below the selected coalescent node to include in the subtree

node_indices

Vector of row indices corresponding to which row of ED corresponds to each node label

selected_node

(optional) Selected coalescent node to use as centre of subtree

Value

List consisting of ED, the structured phylogeny input, and st_labels, a reduced extended data structure consisting of the coalescent nodes in the subtree only