setup_UMAP: Setup UMAP parameters.

In egenn/rtemis: Machine Learning and Visualization

Setup UMAP parameters.

Description

Setup UMAP parameters.

Usage

setup_UMAP(
  k = 2L,
  n_neighbors = 15L,
  init = "spectral",
  metric = c("euclidean", "cosine", "manhattan", "hamming", "categorical"),
  n_epochs = NULL,
  learning_rate = 1,
  scale = TRUE
)

Arguments

k	Integer: Number of components.
n_neighbors	Integer: Number of keighbors.
init	Character: Initialization type. See ⁠uwot::umap "init"⁠.
metric	Character: Distance metric to use: "euclidean", "cosine", "manhattan", "hamming", "categorical".
n_epochs	Integer: Number of epochs.
learning_rate	Float: Learning rate.
scale	Logical: If TRUE, scale input data before doing UMAP.

Details

A high n_neighbors value may give error in some systems: "Error in irlba::irlba(L, nv = n, nu = 0, maxit = iters) : function 'as_cholmod_sparse' not provided by package 'Matrix'"

Value

UMAPParameters object.

Author(s)

EDG

egenn/rtemis documentation built on June 14, 2025, 11:54 p.m.