MHCflurry

Getting started

  • Introduction and installation
  • Command-line tutorial
  • Python library tutorial

User guides

  • Downloading and selecting model weights
  • Evaluation of the 2.3.0 weights
  • Training models
  • Evaluating trained models

Reference

  • Command-line reference
  • API Documentation
  • Configuration and performance

Advanced topics

  • Percentile calibration for all predictors
  • Auditing training-sample overlap

Contributors and maintainers

  • Maintainer workflows
  • Testing
  • Development
  • Orchestrator architecture
  • Resource planning guarantees

Training internals

  • Release training recipe
  • Neural training semantics
  • Reproduce the 2.3.0 model training
  • Affinity checkpoint comparison
  • Processing data preparation
  • Processing negative matching
  • Presentation percentile calibration
  • Evaluate saved model runs

Controlled experiments

  • Cleavage-boundary processing models
  • Processing kernel-width experiment
  • Processing hyperparameter campaign
  • Replaying historical processing data
MHCflurry
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© Copyright 2017–2026, MHCflurry contributors. Last updated on Oct 02, 2026.

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