DOI: 10.18129/B9.bioc.scDblFinder    

This is the development version of scDblFinder; for the stable release version, see scDblFinder.


Bioconductor version: Development (3.17)

The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It includes methods formerly found in the scran package, the new fast and comprehensive scDblFinder method, and a reimplementation of the Amulet detection method for single-cell ATAC-seq.

Author: Pierre-Luc Germain [cre, aut] , Aaron Lun [ctb]

Maintainer: Pierre-Luc Germain <pierre-luc.germain at>

Citation (from within R, enter citation("scDblFinder")):


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# The following initializes usage of Bioc devel


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HTML R Script 1_introduction
HTML R Script 2_scDblFinder
HTML R Script 3_findDoubletClusters
HTML R Script 4_computeDoubletDensity
HTML R Script 5_recoverDoublets
HTML R Script 6_scATAC
PDF   Reference Manual


biocViews ATACSeq, Preprocessing, RNASeq, SingleCell, Software
Version 1.13.0
In Bioconductor since BioC 3.10 (R-3.6) (3 years)
License GPL-3 + file LICENSE
Depends R (>= 4.0), SingleCellExperiment
Imports igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors, BiocSingular, S4Vectors, SummarizedExperiment, scran, scater, scuttle, bluster, methods, DelayedArray, xgboost, stats, utils, MASS, IRanges, GenomicRanges, GenomeInfoDb, Rsamtools, rtracklayer
Suggests BiocStyle, knitr, rmarkdown, testthat, scRNAseq, circlize, ComplexHeatmap, ggplot2, dplyr, viridisLite, mbkmeans
Depends On Me OSCA.advanced
Imports Me singleCellTK
Suggests Me
Links To Me
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