runPCA_BiocSingular: runPCA_BiocSingular

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

runPCA_BiocSingular

Description

Performs PCA based on the biocSingular package

Usage

runPCA_BiocSingular(
  x,
  ncp = 100,
  center = TRUE,
  scale = TRUE,
  rev = FALSE,
  set_seed = TRUE,
  seed_number = 1234,
  BSPARAM = c("irlba", "exact", "random"),
  BSParameters = list(NA),
  ...
)

Arguments

x	matrix or object that can be converted to matrix
ncp	number of principal components to calculate
center	center the matrix before pca
scale	scale features
rev	reverse PCA
set_seed	use of seed
seed_number	seed number to use
BSPARAM	method to use
BSParameters	additonal parameters for method

Value

list of eigenvalues, loadings and pca coordinates

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.