Peptacular Documentation

A Python package for peptide sequence analysis built around ProForma 2.0 notation.

Peptacular provides tools for parsing ProForma sequences, calculating masses, generating fragments, predicting isotopic patterns, and analyzing physicochemical properties. Built with performance in mind, it supports parallel processing and lazy loading for efficient batch operations.

Contents

User Guide:

• Quick Start
  • Installation
  • Basic Usage
• Features
  • ProForma 2.1 Parsing
  • Mass Calculations
  • Isotopic Distributions
  • Protein Digestion
  • Fragment Generation
  • Property Calculations
  • Format Conversion
  • Parallel Processing
  • Lazy Loading / Caching
• ProForma Compliance
  • ProForma Parser Implementation Checklist
• Examples
  • ProForma Notation
  • Mass, m/z, and Composition
  • Annotation
  • Annotation with Modification Objects
  • Digestion
  • Fragmentation
  • Isotope Calculations
  • Physiochemical Properties
  • Converters
• Ion Types
  • Standard Fragment Ions
  • Side-Chain Fragment Ions
  • Internal Fragment Ions

API Reference:

• API Reference
  • Core
  • Data Modules

Indices and Tables

• Index

• Module Index

• Search Page