# Package picard.cmdline.programgroups

- Class Summary
  Class | Description
  --- | ---
  BaseCallingProgramGroup | Tools that process sequencing machine data, e.g.
  DiagnosticsAndQCProgramGroup | Tools that collect sequencing quality-related and comparative metrics
  GenotypingArraysProgramGroup | Miscellaneous tools, e.g.
  IntervalsManipulationProgramGroup | Tools that process genomic intervals in various formats.
  OtherProgramGroup | Miscellaneous tools, e.g.
  ReadDataManipulationProgramGroup | Tools that manipulate read data in SAM, BAM or CRAM format
  ReferenceProgramGroup | Tools that analyze and manipulate FASTA format references
  Testing | For internal test purposes only.
  VariantEvaluationProgramGroup | Tools that evaluate and refine variant calls, e.g.
  VariantFilteringProgramGroup | Tools that filter variants
  VariantManipulationProgramGroup | Tools that manipulate variant call format (VCF) data