Skill UI

This skill safely randomizes the order of repetitive JSON objects within an array without corrupting the data or breaking the JSON syntax. It acts as a data engineer, rigorously validating the input schema (checking for property consistency and lack of nesting) before performing the shuffle. It ensures data integrity is maintained while reordering records, making it ideal for testing, simulation, or data preparation workflows.

This skill provides a comprehensive and reproducible execution workflow for matched tumor-normal pair analyses using the nf-core/pacsomatic pipeline. It manages the entire process, including input validation (BAM files), generating pacsomatic-compliant samplesheets, creating reproducible launch artifacts (params YAML), and supporting execution submission to various schedulers (Slurm, LSF, PBS). Use this skill for dry-run validation, local execution, or job submission, ensuring consistent and traceable results.