Registration Open for Bioc2024 July 24-26



Bioconductor version: Release (3.19)

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")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

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 HTML R Script
Reference Manual PDF


biocViews ATACSeq, Preprocessing, RNASeq, SingleCell, Software
Version 1.18.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 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
System Requirements
Bug Reports
See More
Suggests BiocStyle, knitr, rmarkdown, testthat, scRNAseq, circlize, ComplexHeatmap, ggplot2, dplyr, viridisLite, mbkmeans
Linking To
Depends On Me OSCA.advanced
Imports Me singleCellTK
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package scDblFinder_1.18.0.tar.gz
Windows Binary
macOS Binary (x86_64) scDblFinder_1.18.0.tgz
macOS Binary (arm64) scDblFinder_1.18.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats