pacsomatic
K-Dense-AI/scientific-agent-skills
This skill provides an end-to-end, reproducible workflow for analyzing matched tumor-normal pairs using the nf-core/pacsomatic pipeline. It handles input validation (BAM files, IDs), generates necessary samplesheets and launch artifacts, and supports execution across various environments, including local runs and cluster schedulers (Slurm, LSF). It is ideal for initiating, validating, or troubleshooting the entire analysis process.