nn_comparison_permutation_test: Calculate a permutation test result for nearest neighbors to...

In gusef/Iris: A package to extract spatial features based on multiplex IF images

Description

Calculate a permutation test result for nearest neighbors to say for each sample to see if the neighbor distance something seen under the null assumption

Usage

nn_comparison_permutation_test(x, markerA, markerB, reference,
  from_reference = TRUE, permutations = 20, subset = NULL)


  ## S4 method for signature 
## 'ImageSet,character,character,character,logical,numeric,character'
nn_comparison_permutation_test(x,
  markerA, markerB, reference, from_reference = TRUE, permutations = 20,
  subset = NULL)

Arguments

x	IrisSpatialFeatures ImageSet object that has had extract nearest neighbors run
markerA	First marker
markerB	Second marker
reference	Reference marker
from_reference	If true calculate distance from the reference to the markers by NN
permutations	Set to 100 by default

Value

data.frame of markers and distances

Examples

#loading pre-read dataset
dataset <- IrisSpatialFeatures_data
nn_comparison_permutation_test(dataset)

gusef/Iris documentation built on May 14, 2019, 2:42 p.m.