Compute count sketch for each cell. This is a thin wrapper around BascetMapCell

Usage

BascetComputeCountSketch(
  bascetRoot,
  inputName = "filtered",
  outputName = "countsketch",
  overwrite = FALSE,
  maxReads = 1e+05,
  kmerSize = 31,
  sketchSize = 5000,
  runner = GetDefaultBascetRunner(),
  bascetInstance = GetDefaultBascetInstance()
)

Arguments

bascetRoot: The root folder where all Bascets are stored
inputName: Name of input shard
outputName: Name of output shard
overwrite: Force overwriting of existing files. The default is to do nothing files exist
maxReads: Max number of reads to sample per cell
kmerSize: Size of the KMER to hash
sketchSize: Number of dimensions to reduce to
runner: The job manager, specifying how the command will be run (e.g. locally, or via SLURM)
bascetInstance: A Bascet instance

Value

A job to be executed, or being executed, depending on runner settings