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4.0.0

About CulebrONT

  • From assembly to correction
    • Assembly
    • Optional circularisation
    • Polishing
    • Correction
  • Quality Control of assemblies

Install

  • Requirements
  • Install CulebrONT PyPI package
  • Steps for installation
  • Steps for HPC distributed cluster installation
    • 1. Adapt profile and config.yaml
    • 2. Adapt tools_path.yaml
  • Check install
    • test_install
  • Advance installation
    • 1. Snakemake profiles
      • Preparing the profile’s config.yaml file
    • 2. Adapting config.yaml
    • 3. How to configure tools_path.yaml
    • And more …
      • How to build Apptainer images
      • Threading rules inside CulebrONT

Defining Workflows

  • How to create a workflow
    • create_config
    • 1. Providing data
    • 2. Choose assemblers, polisher and correctors
    • 3. Choose quality control tools
    • 4. Parameters for some specific tools
  • How to run the workflow
    • run
  • Advance run
    • Providing more resources
      • edit_profile
    • Providing your own tools_path.yaml
      • edit_tools
  • Output on CulebrONT
  • Report

Project Info

  • Citation
    • Useful notes
    • Thanks
  • License

FAQ

  • Frequently Asked Questions

API

  • culebrONT
    • create_config
    • edit_profile
    • edit_tools
    • install
    • run
    • show_tools
    • test_install
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© Copyright 2019-2025, J Orjuela (IRD), A Comte (IRD), S Ravel (CIRAD), F Charriat (INRAE), T Vi (IRD, AGI), F Sabot (IRD) and S Cunnac (IRD).