image_cluster: Finds Connected Clusters Within an Image

In HarpethLee/LSMFunc: Functions for working with LSM images

Description

This function finds clusters of points in an image and returns a list of points in each cluster. Image arrays are first filtered, removing all points below the set 'min_intensity'. Then, a connectivity graph is made with the remaining points in the array after being given xyz coordinate corresponding to a points location within the image array (this is done using the 'array_to_xyz() function). The maximum distance between connected points in the graph is decided by the variable 'max_dist'. A list is then returned containing the points in each graph.

Usage

image_cluster(
  x,
  max_dist = 10,
  min_intensity = 2000,
  min_cluster_size = 50,
  sample_prop = 2^(-8),
  sample_type = "grid"
)

Arguments

x	An image array
max_dist	Maximum distance between connected points
min_intensity	Minimum intensity for points
min_cluster_size	Minimum size of cluster in returned list
sample_prop	Proportion of
sample_type	Takes values "grid" or "random"

Value

List of clusters

HarpethLee/LSMFunc documentation built on Dec. 17, 2021, 10:30 p.m.