UMatrixCoords: Add U-Matrix-optimized embedding coordinates to the map

In EmbedSOM: Fast Embedding Guided by Self-Organizing Map

Add U-Matrix-optimized embedding coordinates to the map

Description

The map must already contain a SOM grid with corresponding xdim,ydim (possibly zdim)

Usage

UMatrixCoords(
  dim = NULL,
  dist.method = NULL,
  distFn = function(x) x,
  layoutFn = igraph::layout_with_kk
)

Arguments

dim	Dimension of the result (passed to layoutFn)
dist.method	The method to compute distances, passed to stats::dist() as parameter method
distFn	Custom transformation function of the distance matrix
layoutFn	iGraph-compatible graph layouting function (default igraph::layout_with_kk)

Value

a function that transforms the map, usable as 'coordsFn' parameter

EmbedSOM documentation built on April 4, 2025, 5:15 a.m.