Compute UMAP.

Source: R/computeUMAP.R

Compute UMAP.

computeUMAP(
  dat,
  computPC = TRUE,
  ncomp = 30,
  center = TRUE,
  scale = FALSE,
  config = NULL
)

Arguments

dat

Input data.

computPC

Whether to compute PC first.

ncomp

Number of PC components

center

Center or not.

scale

Scale or not.

config

Configuration of UMAP (see umap package).

Value

UMAP coordinates.

Examples

set.seed(1)
X <- matrix(rnorm(100 * 10), 100, 10, dimnames = list(paste0("cell", 1:100), NULL))
emb <- computeUMAP(X, ncomp = 5)
dim(emb)