runCombat: Run combat integration

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

Run combat integration

Description

Run combat integration

Usage

runCombat(
  object,
  use.reduced_dim = T,
  dim_reduction_method = c("pca", "nnmf"),
  n.dims.use = 30,
  batch_identifier = ""
)

Arguments

object	The SingCellaR object.
use.reduced_dim	is logical. If TRUE, the reduced dimensions from PCA or nnmf will be used as the input. If FALSE, the normalized UMI will be used.
dim_reduction_method	The method name for dimensional reduction.
n.dims.use	The number of dimensions to be used. Default 30
batch_identifier	The indicated feature name to separate the batch.

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