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| barcodeRanks | Calculate barcode ranks |
| defaultDrops | Call cells from number of UMIs |
| downsampleMatrix | Downsample a count matrix |
| downsampleReads | Downsample reads in a 10X Genomics dataset |
| emptyDrops | Identify empty droplets |
| encodeSequences | Encode nucleotide sequences |
| get10xMolInfoStats | Get 10x cell statistics |
| makeCountMatrix | Make a count matrix |
| read10xCounts | Load in data from 10x experiment |
| read10xMatrix | Read in the 10x count matrix |
| read10xMolInfo | Read the 10X molecule information file |
| removeSwappedDrops | Clean barcode-swapped droplet data |
| swappedDrops | Clean barcode-swapped droplet data |
| testEmptyDrops | Identify empty droplets |
| write10xCounts | Write count data in the 10x format |