crossSampleDoublets: crossSampleDoublets

In SydneyBioX/CiteFuse: CiteFuse: multi-modal analysis of CITE-seq data

crossSampleDoublets

Description

A function that perform normalisation for alternative expression

Usage

crossSampleDoublets(sce, altExp_name = NULL, totalExp_threshold = 10)

Arguments

sce	A SingleCellExperiment object
altExp_name	Name of alternative expression that will be used to perform normalisation. If it is NULL, it will set to HTO.
totalExp_threshold	the threshold indicates for the HTO less than this threshold will be filtered from the analysis

Value

A SingleCellExperiment Object

Examples

data(CITEseq_example, package = "CiteFuse")
sce_citeseq <- preprocessing(CITEseq_example)
sce_citeseq <- normaliseExprs(sce = sce_citeseq,
altExp_name = "HTO",
transform = "log")
sce_citeseq <- crossSampleDoublets(sce_citeseq)

SydneyBioX/CiteFuse documentation built on Feb. 13, 2023, 6:04 a.m.