ssbio: A Python Framework for Structural Systems Biology

Titlessbio: A Python Framework for Structural Systems Biology
Publication TypeJournal Article
Year of Publication2017
AuthorsMih N, Brunk E, Chen K, Catoiu E, Sastry A, Kavvas ES, Monk JM, Zhang Z, Palsson BO
JournalbioRxiv
PubMed Date07/2017
Other Numbersdoi: https://doi.org/10.1101/165506
Abstract

Working with protein structures at the genome-scale has been challenging in a variety of ways. Here, we present ssbio, a Python package which provides a framework to easily work with structural information in the context of genome-scale network reconstructions. The ssbio package provides an automated pipeline to construct high quality genome-scale models with protein structures (GEM-PROs), intuitively linking 3D structural data with established systems workflows.Availability and Implementation ssbio is implemented in Python and available to download under the MIT license at http://github.com/SBRG/ssbio. Documentation and Jupyter notebook tutorials are available at http://ssbio.readthedocs.io/en/latest/.

URLhttps://doi.org/10.1101/165506
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