scCB2
This is the released version of scCB2; for the devel version, see scCB2.
CB2 improves power of cell detection in droplet-based single-cell RNA sequencing data
Bioconductor version: Release (3.22)
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.
Author: Zijian Ni [aut, cre], Shuyang Chen [ctb], Christina Kendziorski [ctb]
Maintainer: Zijian Ni <zni25 at wisc.edu>
citation("scCB2")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scCB2")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("scCB2")
Details
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Package Archives
Follow Installation instructions to use this package in your R session.