Examples# Demo dataset# Sample input: Neoantigens input file Patients input file Command: neofox --input-file test_data.tsv --patient-data test_patients.tsv --output-folder your_folder --output-prefix test --with-all-neoepitopes --organism human Sample output: Annotated neoantigens in tabular format Annotated neoantigens and neoepitopes in JSON format Annotated MHC-I neoepitopes in tabular format Annotated MHC-II neoepitopes in tabular format