Run Abricate on contigs of all cells. This is a thin wrapper around BascetMapCell — BascetMapCellAbricate • Zorn

Run Abricate on contigs of all cells. This is a thin wrapper around BascetMapCell

Usage

BascetMapCellAbricate(
  bascetRoot,
  inputName = "contigs",
  outputName = "abricate",
  db = "ncbi",
  overwrite = FALSE,
  runner = GetDefaultBascetRunner(),
  bascetInstance = GetDefaultBascetInstance()
)

Arguments

bascetRoot: The root folder where all Bascets are stored
db: description
runner: The job manager, specifying how the command will be run (e.g. locally, or via SLURM)
bascetInstance: Configuration for how to run the Bascet Rust API

Value

TODO