epitopeprediction

Run neo-epitope discovery by providing a schema-validated samplesheet and an output directory to the epitopeprediction workflow. The pipeline manages variant input processing and candidate epitope prediction automatically without manual parameter hunting.

A schema-validated samplesheet is a structured input file defining samples and metadata for the epitopeprediction pipeline. It enforces correct formatting and required fields to ensure reproducible execution and prevent input errors.

Yes, you can pin a specific historical nf-core epitopeprediction release for reproducibility. The workflow supports release-aware execution, allowing you to lock a specific pipeline version when consistent results matter.

Use the epitopeprediction workflow's protein scanning mode to predict MHC binding hotspots. It processes protein sequences through the pipeline with validated parameters, generating binding prediction outputs in your designated output directory.

Yes, the epitopeprediction pipeline supports immunopeptidomics-style peptide prediction. It processes peptide inputs through the same schema-validated samplesheet approach, generating binding predictions while maintaining reproducible execution standards.

Pinning pipeline versions locks the exact code and parameters used, which is required for reproducible Nextflow execution. The epitopeprediction workflow enforces version pinning and output-directory management to guarantee consistent results across runs.