runKNN: Calculate k-nearest neighbors of FSPY

In flowSpy: A Toolkit for Flow And Mass Cytometry Data

Description

Calculates and stores a k-nearest neighbor graph based on Euclidean distance with (KMKNN) algorithm using log-transformed signaling matrix of flow cytometry data. The base function are base on findKNN.

Usage

runKNN(
  object,
  given.mat = NULL,
  knn = 30,
  knn.replace = TRUE,
  verbose = FALSE,
  ...
)

Arguments

object	an FSPY object
given.mat	matrix. Given matrix to run knn
knn	numeric. Number of k-nearest neighbors.
knn.replace	logic. Whether to replace knn in FSPY object
verbose	logical. Whether to print calculation progress.
...	Parameters passing to findKNN function

Value

An FSPY object with knn, knn.index and knn.distance information.

See Also

findKNN

Examples

if (FALSE) {

fspy <- runKNN(fspy)

}

flowSpy documentation built on Nov. 8, 2020, 6:53 p.m.