coords2listw: Convert coordinates to a listw object

In statimagcoll/multiplexMoran: Multivariate Moran Indices for Multiplexed Imaging data

Convert coordinates to a listw object

Description

Parameters for this should be based on biological knowledge. The algorithm does a k nearest neighbor search and then selects all cells that are less than maxDist distance from the center as neighbors with nonzero weights. If k is chosen too small then it's possible for the weight matrix to be nonsymmetric because the k nearest neighbors are not symmetric. Choosing k large seems to be pretty quick still.

Usage

coords2listw(x, k = 200, maxDist = 50, comp = NULL, W = 1)

Arguments

x	A matrix of coordinates (of cell centroids)
k	The maximum number of neighbors each cell can have
maxDist	The maximum distance a neighbor can be from the central cell
comp	A vector of integers, strings, or factors, indicating what tissue compartment each cell belongs to
W	The weights used for the surrounding cells. defaults to 1

Value

Returns a list of matrices, where each matrix is the multivariate Moran's I for each tissue compartment.

statimagcoll/multiplexMoran documentation built on June 27, 2022, 4:26 p.m.