ScrumPy: metabolic modelling with Python

ScrumPy: metabolic modelling with Python

For access to this article, please select a purchase option:

Buy article PDF
(plus tax if applicable)
Buy Knowledge Pack
10 articles for £75.00
(plus taxes if applicable)

IET members benefit from discounts to all IET publications and free access to E&T Magazine. If you are an IET member, log in to your account and the discounts will automatically be applied.

Learn more about IET membership 

Recommend Title Publication to library

You must fill out fields marked with: *

Librarian details
Your details
Why are you recommending this title?
Select reason:
IEE Proceedings - Systems Biology — Recommend this title to your library

Thank you

Your recommendation has been sent to your librarian.

ScrumPy is a software package used for the definition and analysis of metabolic models. It is written using the Python programming language that is also used as a user interface. ScrumPy has features for both kinetic and structural modelling, but the emphasis is on structural modelling and those features of most relevance to analysis of large (genome-scale) models. The aim is at describing ScrumPy's functionality to readers with some knowledge of metabolic modelling, but implementation, programming and other computational details are omitted. ScrumPy is released under the Gnu Public Licence, and available for download from


    1. 1)
      • Software engineering principles and practice
    2. 2)
      • Computer modelling applied to the Calvin cycle
    3. 3)
      • Sauro, H.: `Jarnac: a system for interactive metabolic analysis', ‘BTK2000 animating the cellular map’. Animating the Cellular Map 9th International BioThermoKinetics Meeting’, 2000, Stellenbosch University Press, p. 221–228, Chap. 33
    4. 4)
      • Programming Python
    5. 5)
      • Metatool: for studying metabolic networks
    6. 6)
      • SCAMP: a general-purpose metabolic simulator and metabolic control analysis program
    7. 7)
      • Modelling cellular systems with PySCeS
    8. 8)
      • The systems biology markup language (SBML): a medium for representation and exchange of biochemical networks
    9. 9)
      • Detection of elementary flux modes in biochemical networks: a promising tool for pathway analysis and metabolic engineering
    10. 10)
      • Computation of elementary modes: a unifying framework and the new binary approach
    11. 11)
      • Conservation analysis of large biochemical networks

Related content

This is a required field
Please enter a valid email address