Man pages for MarioniLab/DropletUtils
Utilities for Handling Single-Cell Droplet Data
| ambientContribMaximum | Ambient contribution by maximum scaling |
| ambientContribNegative | Ambient contribution from negative controls |
| ambientContribSparse | Ambient contribution by assuming sparsity |
| ambientProfileBimodal | Ambient profile from bimodality |
| ambientProfileEmpty | Estimate the ambient profile from empty droplets |
| barcodeRanks | Calculate barcode ranks |
| chimericDrops | Remove chimeric molecules |
| cleanTagCounts | Clean a tag-based dataset |
| defaultDrops | Call cells from their total number of UMIs |
| downsampleReads | Downsample reads in a 10X Genomics dataset |
| emptyDrops | Identify empty droplets |
| emptyDropsCellRanger | CellRanger's emptyDrops variant |
| encodeSequences | Encode nucleotide sequences |
| get10xMolInfoStats | Get 10x cell statistics |
| hashedDrops | Demultiplex cell hashing data |
| makeCountMatrix | Make a count matrix |
| read10xCounts | Load data from a 10X Genomics experiment |
| read10xMolInfo | Read the 10X molecule information file |
| reexports | Objects exported from other packages |
| removeAmbience | Remove the ambient profile |
| swappedDrops | Clean barcode-swapped droplet data |
| write10xCounts | Write count data in the 10x format |
