Utilities for Handling Single-Cell Droplet Data


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Documentation for package ‘DropletUtils’ version 1.10.3

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barcodeRanks Calculate barcode ranks
chimericDrops Remove chimeric molecules
controlAmbience Ambient contribution from controls
defaultDrops Call cells from number of UMIs
downsampleReads Downsample reads in a 10X Genomics dataset
emptyDrops Identify empty droplets
encodeSequences Encode nucleotide sequences
estimateAmbience Estimate the ambient profile
get10xMolInfoStats Get 10x cell statistics
hashedDrops Demultiplex cell hashing data
inferAmbience Infer the ambient profile
makeCountMatrix Make a count matrix
maximumAmbience Maximum ambient contribution
read10xCounts Load data from a 10X Genomics experiment
read10xMolInfo Read the 10X molecule information file
removeAmbience Remove the ambient profile
removeChimericDrops Remove chimeric molecules
removeSwappedDrops Clean barcode-swapped droplet data
swappedDrops Clean barcode-swapped droplet data
testEmptyDrops Identify empty droplets
write10xCounts Write count data in the 10x format