Reads a model of a biochemical reaction network in SBML format and produces a range of diagrams showing different levels of detail. sbml-diff can be used as a python package, allowing it to be incorporated into larger software packages, such as tools for editing and curating collections of models, or incorporated into automated tests to ensure that other tools do not contain bugs that cause unintended changes to SBML files.

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sbml-diff classification

sbml-diff specifications

Software type:
Package
Restrictions to use:
None
License:
BSD 3-clause “New” or “Revised” License
Stability:
Stable
Interface:
Web user interface
Programming languages:
Python
Computer skills:
Basic

User report

0 user reviews

0 user reviews

No review has been posted.

sbml-diff forum

No open topic.

sbml-diff classification

sbml-diff specifications

Software type:
Package
Restrictions to use:
None
Output format:
DOT
Programming languages:
Python
Computer skills:
Advanced
Interface:
Command line interface
Input format:
SBML
Operating system:
Unix/Linux
License:
BSD 3-clause “New” or “Revised” License
Stability:
Stable

Publications

  • (Scott-Brown and Papachristodoulou, 2016) sbml-diff: A tool for visually comparing SBML models in synthetic biology. ACS Synth Biol.
    PMID: 28035814

Credits

Institution(s)

Department of Engineering Science, University of Oxford, Parks Road, Oxford, UK

Funding source(s)

Supported by the EPSRC & BBSRC Centre for Doctoral Training in Synthetic Biology, EP/L016494/1, and by EPSRC project EP/M002454/1.

Link to literature

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