QSP Designer: Quantitative systems pharmacology modeling with modular biological process map notation and multiple language code generation
Richard J. Matthews, David M. Hollinshead, Daniel R. Morrison, Piet H. van der Graaf, Andrzej Kierzek
Abstract
Typical Quantitative Systems Pharmacology (QSP) workflows involve discussion of biology, supported by graphical diagrams, followed by construction of large Ordinary Differential Equation models. QSP Designer facilitates this process by providing enhanced graphical notation, which enables hierarchical presentation with modules and handling of combinatorial complexity with diagram node arrays. Whereas the software includes a simulation engine, a major feature is full model code generation in MATLAB, R, C, and Julia to support multiple modeling communities.
Topics & Concepts
Computer scienceProgramming languageModular designNotationWorkflowProcess (computing)Theoretical computer scienceCode generationMATLABSoftware engineeringEngineering drawingDatabaseMathematicsEngineeringOperating systemKey (lock)ArithmeticGene Regulatory Network AnalysisMicrobial Metabolic Engineering and BioproductionBioinformatics and Genomic Networks