Basic Tools
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The ESCHER systems biology basic tools provide a suite of analytical, simulation, and visualization tools and services to aid biological researchers engaged in building computable descriptions of cellular functions. Prior experience in developing tool integration solutions for engineering domains indicates that a key ingredient for robust tool integration is a semantically precise definition of interchange formats. These tools formalize the interchange formats that are in use in Bio-SPICE by developing meta-models and specifying semantic well-formedness rules.
Below you will find a summary of and links to several basic tools. Each tool is developed by an organization separate from ESCHER. For more information on a specific tool, please visit that tool's website via the provided link.
- SBML2 Extension API - Systems Biology Markup Language (Extension API)
- GeneTF - Gene Transcription Factor Connectivity Network
- GeneTRE - Gene Transcription Regulatory Elements
- TimeSeries - TimeSeries Data Format for Bio-SPICE Dashboard
- MageML - MageML Data Format for Bio-SPICE Dashboard
