runNNMF: NNMF analysis

In supatt-lab/SingCellaR: SingCellaR: an integrative analysis tool for single-cell RNA sequencing (scRNA-seq) data

NNMF analysis

Description

NNMF analysis

Usage

runNNMF(
  object,
  k = 30,
  use.regressout.data = T,
  use.scanorama.integrative.matrix = F,
  n.threads = 4,
  max.iter = 1000,
  rel.tol = 1e-05
)

Arguments

object	The SingCellaR object.
use.regressout.data	is logical, if TRUE, NNMF uses the regressout data. If FALSE, NNMF uses the normalized data without removing any umwanted source of variations.
use.scanorama.integrative.matrix	is logical, if TRUE scannorama integrative matrix will be used.
n.threads	The number of threads for running. Default 4
max.iter	The number of NNMF interations. Default 1000
rel.tol	The nnmf parameter. Default 1e-05

supatt-lab/SingCellaR documentation built on Aug. 24, 2023, 5:49 p.m.