cnnTest: Permutation Test for cross-type nearest neighbor distances

In bioimaginggroup/bioimagetools: Tools for Microscopy Imaging

Permutation Test for cross-type nearest neighbor distances

Description

Permutation Test for cross-type nearest neighbor distances

Usage

cnnTest(
  dist,
  n1,
  n2,
  w = rep(1, n1 + n2),
  B = 999,
  alternative = "less",
  returnSample = TRUE,
  parallel = FALSE,
  ...
)

Arguments

dist	a distance matrix, the upper n1 x n1 part contains distances between objects of type 1 the lower n2 x n2 part contains distances between objects of type 2
n1	numbers of objects of type 1
n2	numbers of objects of type 2
w	(optional) weights of the objects (length n1+n2)
B	number of permutations to generate
alternative	alternative hypothesis ("less" to test H0:Colocalization )
returnSample	return sampled null distribution
parallel	Logical. Should we use parallel computing?
...	additional arguments for mclapply

Value

a list with the p.value, the observed weighted mean of the cNN-distances, alternative and (if returnSample) the simulated null dist

Author(s)

Fabian Scheipl

bioimaginggroup/bioimagetools documentation built on June 2, 2022, 3:49 p.m.