integrate_sce: Integrate datasets within a SingleCellExperiment Object

In combiz/scFlow: A Single-Cell/Nuclei Analysis Toolkit

Integrate datasets within a SingleCellExperiment Object

Description

Produces a reducedDim slot representing common factors across datasets

Usage

integrate_sce(sce, method = "Liger", ...)

Arguments

sce	a SingleCellExperiment object or merged sce objects
method	the integration method to use. Set to liger as default. See liger_preprocess and liger_reduce_dims functions for parameter options.
...	Additional arguments. Such as k, inner dimension of factorization (number of factors).

Value

sce SingleCellExperiment object annotated with reducedDims

See Also

Other Data integration: liger_preprocess(), liger_reduce_dims(), report_integrated_sce()

combiz/scFlow documentation built on Feb. 25, 2024, 10:25 a.m.