Systems biology

merlin

  • Posted on: 6 November 2019
  • By: Daniel Faria

merlin is a simple, graphical and user-oriented solution for the reconstruction of genome-scale metabolic models. It will guide you along the model reconstruction, providing several tools that help to improve and curate the model throughout the whole process.

CoBAMP

  • Posted on: 6 November 2019
  • By: Daniel Faria

CoBAMP (Constraint-Based Analysis of Metabolic Pathways) is a Python package containing pathway analysis methods for use with constraint-based metabolic models. The main purpose is to provide a framework that is both modular and flexible enough to be integrated in other packages (such as cobrapy, framed or cameo) that already implement generic data structures for metabolic models.

OptFlux

  • Posted on: 6 November 2019
  • By: Daniel Faria

OptFlux is an open-source and modular software to support in silico metabolic engineering tasks aimed at being the reference computational application in the field.

A major new release of OptFlux is now available, with several important improvements and new features.