DOI: 10.18129/B9.bioc.DropletUtils    

This is the development version of DropletUtils; to use it, please install the devel version of Bioconductor.

Utilities for Handling Single-Cell Droplet Data

Bioconductor version: Development (3.10)

Provides a number of utility functions for handling single-cell (RNA-seq) data from droplet technologies such as 10X Genomics. This includes data loading from count matrices or molecule information files, identification of cells from empty droplets, removal of barcode-swapped pseudo-cells, and downsampling of the count matrix.

Author: Aaron Lun [aut, cre], Jonathan Griffiths [ctb], Davis McCarthy [ctb]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

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


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

# The following initializes usage of Bioc devel


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biocViews Coverage, DataImport, GeneExpression, ImmunoOncology, RNASeq, Sequencing, SingleCell, Software, Transcriptomics
Version 1.5.10
In Bioconductor since BioC 3.7 (R-3.5) (1.5 years)
License GPL-3
Depends SingleCellExperiment
Imports S4Vectors, BiocParallel, Rcpp, Matrix, methods, utils, stats, edgeR, rhdf5, HDF5Array, R.utils, dqrng
LinkingTo Rcpp, beachmat, Rhdf5lib, BH, dqrng
Suggests testthat, beachmat, knitr, BiocStyle, rmarkdown
SystemRequirements C++11
Depends On Me
Imports Me
Suggests Me BUSpaRse, scater, splatter
Links To Me
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Source Package DropletUtils_1.5.10.tar.gz
Windows Binary DropletUtils_1.5.11.zip
Mac OS X 10.11 (El Capitan) DropletUtils_1.5.10.tgz
Source Repository git clone https://git.bioconductor.org/packages/DropletUtils
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DropletUtils
Package Short Url https://bioconductor.org/packages/DropletUtils/
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