Package: scCB2
Version: 1.19.0
Date: 2023/4/18
Title: CB2 improves power of cell detection in droplet-based
        single-cell RNA sequencing data
Authors@R: c(
    person("Zijian", "Ni", role = c("aut", "cre"), email = "zni25@wisc.edu"), 
    person("Shuyang", "Chen", role="ctb"),
    person("Christina", "Kendziorski", role="ctb"))
Depends: R (>= 3.6.0)
Imports: SingleCellExperiment, SummarizedExperiment, Matrix, methods,
        utils, stats, edgeR, rhdf5, parallel, DropletUtils, doParallel,
        iterators, foreach, Seurat
Suggests: testthat (>= 2.1.0), KernSmooth, beachmat, knitr, BiocStyle,
        rmarkdown
biocViews: DataImport, RNASeq, SingleCell, Sequencing, GeneExpression,
        Transcriptomics, Preprocessing, Clustering
Description: 
    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.
License: GPL-3
NeedsCompilation: yes
VignetteBuilder: knitr
Encoding: UTF-8
SystemRequirements: C++11
RoxygenNote: 7.1.2
URL: https://github.com/zijianni/scCB2
BugReports: https://github.com/zijianni/scCB2/issues
git_url: https://git.bioconductor.org/packages/scCB2
git_branch: devel
git_last_commit: 96be392
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
Packaged: 2025-06-05 01:56:14 UTC; biocbuild
Author: Zijian Ni [aut, cre],
  Shuyang Chen [ctb],
  Christina Kendziorski [ctb]
Maintainer: Zijian Ni <zni25@wisc.edu>
Built: R 4.5.0; ; 2025-06-05 13:56:48 UTC; windows
