Function
upgmaTree
Computes a guide tree from a distance matrix.
upgmaTree(mat, graph [,tag])
upgmaTree(sparse_mat, graph [,tag])
Include Headers
seqan/graph_msa.h
Parameters
mat
A string of pairwise distance values, representing a square matrix.
Types: String
Remarks: String must use double values because the algorithm recycles this string to store intermediate possibly fractional results.
sparse_mat
An undirected graph where each edge corresponds to the distance between sequence i and sequence j.
graph
Out-parameter:The guide tree.
Types: Tree
tag
Tag that indicates how to calculate cluster distances.
Default: UpgmaWeightAvg
Remarks: Possible values are UpgmaWeightAvg, UpgmaAvg, UpgmaMax, and UpgmaMin.
Return Values
void
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