Getting Started

This guide provides quick orientation for the modular VmaxBuilder workflow.

Who this is for

  • Researchers integrating transcriptomics and GEM models.

  • Developers extending pipeline modules via registry pattern.

  • Users who want reproducible Vmax estimation workflows.

What VmaxBuilder does

VmaxBuilder organizes data processing into reusable stages:

  1. Expression preprocessing.

  2. Model preprocessing.

  3. Protein abundance estimation.

  4. Kcat estimation/resolution.

  5. Allocation and Vmax calculation.

Quick path

  1. Install package via Installation.

  2. Review module-level API in VmaxBuilder (API).

  3. Use a minimal workflow once refactored examples are available in Examples.

Current project status

  • Public API is being refactored into a modular pipeline.

  • Documentation sections exist now; examples and use cases will expand with implementation.

See also