PAModelpy
0.5.2

Table of Contents

  • PAModelpy - Protein Allocation Model reconstruction in Python
  • Setting up PAMs using PAModelpy
  • Example usage of PAModelpy

API reference

  • CatalyticEvent Objects
  • Enzyme Objects
  • EnzymeComplex Objects
  • EnzymeVariable Objects
  • Sector Objects
  • EnzymeSector Objects
  • ActiveEnzymeSector Objects
  • TransEnzymeSector Objects
  • UnusedEnzymeSector Objects
  • CustomSector Objects
  • PAMValidator Objects
  • PAModel Objects
  • Config Objects
PAModelpy
  • Welcome to PAModelpy
  • View page source

Welcome to PAModelpy

The PAModelpy package is designed to integrate protein constraints and protein sectors into protein allocation models (PAMs). In this documentation, you can find all the information you need to build and analyze PAMs.

Table of Contents

  • PAModelpy - Protein Allocation Model reconstruction in Python
    • What is PAModelpy?
    • Installation
    • What can you find where in this repository?
    • Code structure:
    • Dependencies
    • License
  • Setting up PAMs using PAModelpy
    • Overview
    • Prerequisites
    • Dataset requirements
    • Building a PAM
    • Testing the setup
    • Additional features
    • Troubleshooting
  • Example usage of PAModelpy
    • Example 1: setting up an Escherichia coli Protein Allocation model (PAM)
    • Example 2: working with the Escherichia coli Protein Allocation model (PAM)
    • Example 3: Determining the most sensitive enzymes in a toy model

API reference

  • CatalyticEvent Objects
  • Enzyme Objects
  • EnzymeComplex Objects
  • EnzymeVariable Objects
  • Sector Objects
  • EnzymeSector Objects
  • ActiveEnzymeSector Objects
  • TransEnzymeSector Objects
  • UnusedEnzymeSector Objects
  • CustomSector Objects
  • PAMValidator Objects
  • PAModel Objects
  • Config Objects
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