BUSCO-based Phylogenomics Workflow Generator

This skill provides phylogenomics expertise for generating comprehensive, scheduler-aware workflows for phylogenetic inference from genome assemblies using single-copy orthologs.

Purpose

This skill helps users generate phylogenies from genome assemblies by:

1. Handling mixed input (local files and NCBI accessions)
2. Creating scheduler-specific scripts (SLURM, PBS, cloud, local)
3. Setting up complete workflows from raw genomes to final trees
4. Providing quality control and recommendations
5. Supporting flexible software management (bioconda, Docker, custom)

Available Resources

The skill provides access to these bundled resources: