User guide

Welcome to a guide through NeoFox and the world of neoantigen feature annotation! This guide will provide insights into required input data, usage and the resulting output data.

Contents:

• Input data
  • General information
  • Candidate file
  • File with patient data
• Output data
  • Neoantigens
  • Neoepitopes
  • JSON format
• Usage
  • Command line
  • Running from docker
  • API
  • Performance
• Examples
  • Demo dataset