withinSampleDoublets

doublet identification within batch

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)
#> number of iterations= 20 
#> number of iterations= 24 
#> number of iterations= 46 
#> number of iterations= 50 
sce_citeseq <- withinSampleDoublets(sce_citeseq,
minPts = 10)