VptreeIndex: The VptreeIndex class

In LTLA/kmknn: Nearest Neighbor Detection for Bioconductor Packages

The VptreeIndex class

Description

A class to hold the vantage point tree for exact nearest neighbor identification.

Usage

VptreeIndex(data, nodes, order, NAMES = NULL, distance = "Euclidean")

Arguments

data	A numeric matrix with data points in columns and dimensions in rows.
nodes	A list of vectors specifying the structure of the VP tree.
order	An integer vector of length equal to ncol(data), specifying the order of observations.
NAMES	A character vector of sample names or NULL.
distance	A string specifying the distance metric to use.

Details

The VptreeIndex class holds the indexing structure required to run the VP tree algorithm. Users should never need to call the constructor explicitly, but should generate instances of VptreeIndex classes with buildVptree.

Users can get values from a VptreeIndex object with the usual [[ syntax. All parameters listed in the constructor can be extracted in this manner.

Value

An instance of the VptreeIndex class.

Author(s)

Aaron Lun

See Also

buildVptree, for the index construction.

BiocNeighborIndex, for the parent class and its available methods.

Examples

example(buildVptree)
str(out[["nodes"]])

LTLA/kmknn documentation built on Feb. 5, 2024, 6:03 p.m.