Welcome to PhyloMagnet’s documentation!

Contents:

• Installation Instructions for PhyloMagnet
  • Nextflow
  • Singularity
  • Singularity container
  • PhyloMagnet
• Command line options
  • Query options
  • Reference options
  • Output options
  • Run parameters
• Example Usage
  • Using Bioproject IDs and eggNOG references
  • Using SRA run IDs and local references
  • Using local FastQ file and local + eggNOG references
• Troubleshooting
  • Out of Memory
  • data.jar not found
• Contact
• Citation

Indices and tables

• Index
• Module Index
• Search Page