demuxmix is a package for demultiplexing single-cell sequencing experiments of pooled cells labeled with barcode oligonucleotides. The package implements methods to fit regression mixture models for a probabilistic classification of cells, including multiplet detection. Demultiplexing error rates can be estimated, and methods for quality control are provided.
The package is available at Bioconductor and can be installed via BiocManager::install:
if (!require("BiocManager"))
install.packages("BiocManager")
BiocManager::install("demuxmix")The package only needs to be installed once. Load the package into an R session with
library(demuxmix)Please consult the package vignette for example usages of the methods in demuxmix. The vignette can be accessed by entering the following command and clicking on the resulting HTML link:
browseVignettes("demuxmix")A manuscript describing the technical details of demuxmix is
available at Bioinformatics:
Hans-Ulrich Klein, demuxmix: demultiplexing oligonucleotide-barcoded
single-cell RNA sequencing data with regression mixture models,
Bioinformatics, Volume 39, Issue 8, August 2023, btad481
https://doi.org/10.1093/bioinformatics/btad481