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fnyzer: A Python Package for the Analysis of Flexible Nets

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Computational Methods in Systems Biology (CMSB 2020)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 12314))

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Abstract

This paper introduces fnyzer, a Python package for the analysis of Flexible Nets (FNs). FNs is a modelling formalism for dynamical systems that can accommodate a number of uncertain parameters, and that is particularly well suited to model the different types of networks arising in systems biology. fnyzer offers different types of analysis, can handle nonlinear dynamics, and can transform models expressed in Systems Biology Markup Language (SBML) into FN format.

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References

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Acknowledgments

This work was supported by the Spanish Ministry of Science, Innovation and Universities [ref. Medrese-RTI2018-098543-B-I00], by the Biotechnology & Biological Sciences Research Council (UK) grant no. BB/N02348X/1 as part of the IBiotech Program, and by the Industrial Biotechnology Catalyst (Innovate UK, BBSRC, EPSRC) to support the translation, development and commercialisation of innovative Industrial Biotechnology processes.

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Authors and Affiliations

  1. Department of Computer Science and Systems Engineering, University of Zaragoza, Zaragoza, Spain

    Jorge Júlvez

  2. Cambridge Systems Biology Centre, University of Cambridge, Cambridge, UK

    Stephen G. Oliver

  3. Department of Biochemistry, University of Cambridge, Cambridge, UK

    Stephen G. Oliver

Authors
  1. Jorge Júlvez
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  2. Stephen G. Oliver
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Corresponding author

Correspondence to Jorge Júlvez .

Editor information

Editors and Affiliations

  1. Department of Computer Science, University of Oxford, Oxford, UK

    Alessandro Abate

  2. Department of Computer and Information Science, University of Konstanz, Konstanz, Germany

    Tatjana Petrov

  3. Department of Computer Science, Saarland University, Saarbrücken, Germany

    Verena Wolf

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Júlvez, J., Oliver, S.G. (2020). fnyzer: A Python Package for the Analysis of Flexible Nets. In: Abate, A., Petrov, T., Wolf, V. (eds) Computational Methods in Systems Biology. CMSB 2020. Lecture Notes in Computer Science(), vol 12314. Springer, Cham. https://doi.org/10.1007/978-3-030-60327-4_19

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  • DOI: https://doi.org/10.1007/978-3-030-60327-4_19

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-60326-7

  • Online ISBN: 978-3-030-60327-4

  • eBook Packages: Computer ScienceComputer Science (R0)

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