LOMAR (version 0.5.0)

coloc_index: coloc_index

Description

Compute a co-localization index between two sets of points. Adapted from: Willems and MacGillavry, A coordinate-based co-localization index to quantify and visualize spatial associations in single-molecule localization microscopy. Sci Rep 12, 4676 (2022). https://doi.org/10.1038/s41598-022-08746-4

Usage

coloc_index(
  P1,
  locprec1 = NULL,
  locprecz1 = NULL,
  P2,
  locprec2 = NULL,
  locprecz2 = NULL
)

Value

a list with two elements:

• vector of co-localization indices for points in P1 relative to P2

• vector of co-localization indices for points in P2 relative to P1

Arguments

P1

a point set as matrix or data frame with columns x,y,z.

locprec1

(optional) localization precision in x,y for P1

locprecz1

(optional) localization precision along z for P1

P2

a point set as matrix or data frame with columns x,y,z.

locprec2

(optional) localization precision in x,y for P2

locprecz2

(optional) localization precision along z for P2

Details

This can be seen as measuring the similarity between two spatial distributions. Co-clustering in dense structures can give values above 1.

Localization precision is optional but if used then all locprec parameters must be specified.