normal_nearest_neighbor_sample_once: Extract the distance to each nearest neighbor for specified...

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

Description

Extract the distance to each nearest neighbor for specified cell-types, normalized by downsampling each cell-type to the same size, for a single sample, with no resampling

Usage

normal_nearest_neighbor_sample_once(sample_name, data, markers,
  minimum_cells = 50, grouped_sample = TRUE)

## S4 method for signature 'character,ImageSet'
normal_nearest_neighbor_sample_once(sample_name,
  data, markers, minimum_cells = 50, grouped_sample = TRUE)

Arguments

sample_name	sample_name sample name string
data	IrisSpatialFeatures ImageSet object
markers	vector of marker names to use
minimum_cells	the smallest number of cells (default:50)
grouped_sample	TRUE/FALSE if we want to group samples together and thus normalize the frames to the smallest frame count (Default: TRUE)

Value

data.frame

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