This project is about providing a self-descring dash board for researchers interested in quantitative models in systems biology. The source of the models is the Biosimulations project. This project provides an extensive set of web pages that describes prodictions produced by quantitative models, the quantiative models, and the research papers that describe these data and models. Although a great deal of detail can be obtained from this dashboard, using it requires some training.
ExplorerSB is intended for system biology researchers who are more casual users of the information in Biosimulations. To this end, ExplorerSB provides a simple user interface to:
- find articles relevant to a researchers area of interest;
- view the model developed in these articles; and
- explore the data produced by the models.
ExplorerSB is structured as two applications: an off-line application and an on-line (user interacting) application. The off-line application builds local files with information from Biosimulations that is used in the on-line application. This information includes: information about the published article (e.g., title, full citation, abstract), the quantiative model (e.g., SBML), and data produced from the model (as CSV files). The on-line application uses this information to allow users to find articles, view models, and explore model predictions.
builder.pycontrols the overall workflow. It makes use of a staging directory where files are downloaded and a data directory that is zipped.project_builder.pybuilds a single projectproject_base.pyprovides common codes for the on-line and off-line applicationssummary_parser.pyparses the summary JSON provided by BioSimulations.
Data are staged in the staging folder and zip files are created by in the data folder.