title: phraSED-ML: A paraphrased, human-readable adaptation of SED-ML.
abstract: Model simulation exchange has been standardized with the Simulation Experiment Description Markup Language (SED-ML), but specialized software is needed to generate simulations in this format. Text-based languages allow researchers to create and modify experimental protocols quickly and easily, and export them to a common machine-readable format.
  
  
  
  phraSED-ML language allows modelers to use simple text commands to encode various elements of SED-ML (models, tasks, simulations, and results) in a format easy to read and modify. The library can translate this script to SED-ML for use in other softwares.
  
  
  
  phraSED-ML language specification, libphrasedml library, and source code are available under BSD license from http://phrasedml.sourceforge.net/ .
authors: 1 University of Washington, Department of Bioengineering, Seattle, WA, USA.
authors: Kiri
authors: K
authors: Choi
authors: 1 University of Washington, Department of Bioengineering, Seattle, WA, USA.
authors: Lucian P
authors: LP
authors: Smith
authors: 1 University of Washington, Department of Bioengineering, Seattle, WA, USA.
authors: J Kyle
authors: JK
authors: Medley
authors: 1 University of Washington, Department of Bioengineering, Seattle, WA, USA.
authors: Herbert M
authors: HM
authors: Sauro
mesh_terms: D003198:Computer Simulation; D048049:Extracellular Signal-Regulated MAP Kinases / Q000378:metabolism; D008962:Models, Theoretical; D011381:Programming Languages; D012984:Software; D013269:Stochastic Processes; D049490:Systems Biology / Q000379:methods*
chemical_list: D048049:Extracellular Signal-Regulated MAP Kinases
keywords: SBML; SED-ML; reproducibility; simulation