simpleaf workflow commands

The simpleaf workflow program exposes a number of different commands that are responsible for exposing different capabilities. The list of current and valid commands are documented below.

Besides, we also provides a simpleaf workflow utility library for developers, which contains useful functions for workflow template development. The simpleaf team has been continously improving existing functions and adding new funtion into this library. The codebase is included in protocol esturary.

• simpleaf workflow get
  • Providing information in workflow configuration file
  • Full Usage
• simpleaf workflow run
  • Workflow Output
  • workflow run: Full Usage
  • The procedure of parsing a simpleaf workflow template
  • Valid simpleaf workflow manifest format
• simpleaf workflow list
  • Full Usage
• simpleaf workflow patch
  • Patch file
    • workflow patch: Full Usage
• simpleaf workflow refresh
  • Full Usage
• Simpleaf workflow utility library
  • Import the utility library
  • utils.ref_type(o)
  • utils.simpleaf_index(step, ref_type, arguments, output)
  • utils.map_type(o, simpleaf_index = {})
  • utils.cell_filt_type(o)
  • simpleaf_quant(step, map_type, cell_filt_type, arguments, output)
  • feature_barcode_ref(start_step, csv, name_col, barcode_col, output)
  • barcode_translation(start_step, url, quant_cb, output)
  • utils.get(o, f, use_default = false, default = null)