withinSampleDoublets: withinSampleDoublets

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

withinSampleDoublets

Description

doublet identification within batch

Usage

withinSampleDoublets(sce, altExp_name = NULL, eps = 200, minPts = 50)

Arguments

sce	a SingleCellExperiment
altExp_name	expression name of HTO matrix
eps	eps of DBSCAN
minPts	minPts of DBSCAN

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)
sce_citeseq <- withinSampleDoublets(sce_citeseq,
minPts = 10)

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