Index a genome using minimap2 such that it can be used for alignment

Index a genome using minimap2 such that it can be used for alignment

Usage

BascetIndexGenomeMinimap2(
  fastaFile,
  indexFile,
  runner = GetDefaultBascetRunner(),
  bascetInstance = GetDefaultBascetInstance()
)

Arguments

fastaFile

Name of FASTA file holding genome sequence

indexFile

Path to write the resulting .mmi index

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