scCB2: CB2 improves power of cell detection in droplet-based single-cell RNA sequencing data

scCB2 is an R package implementing CB2 for distinguishing real cells from empty droplets in droplet-based single cell RNA-seq experiments (especially for 10x Chromium). It is based on clustering similar barcodes and calculating Monte-Carlo p-value for each cluster to test against background distribution. This cluster-level test outperforms single-barcode-level tests in dealing with low count barcodes and homogeneous sequencing library, while keeping FDR well controlled.

Package details

AuthorZijian Ni [aut, cre], Shuyang Chen [ctb], Christina Kendziorski [ctb]
Bioconductor views Clustering DataImport GeneExpression Preprocessing RNASeq Sequencing SingleCell Transcriptomics
MaintainerZijian Ni <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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scCB2 documentation built on Nov. 8, 2020, 5:48 p.m.