This is an implementation of CWC (Calculus of Wrapped Compartments), a rewriting-based calculus for the representation and simulation of biological systems.

Features

  • Gillespie-like simulations over CWC models
  • Hybrid stochastic/deterministic semantics
  • Dynamic cutoff-based semantical reconfiguration
  • Multiple rating functions (mass action, Michaelis-Menten, Hill)
  • Multiple instances of simulation
  • Online statistics (mean and variance under Grubb's test, quantiles, clustering)
  • Optimization for multi-core based on FastFlow framework
  • Both shared-memory and distributed versions

Project Samples

performance: Speedup statistics: Peaks detection statistics: Mean and Standard Deviation statistics: QT clustering

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  • thelmadavis Posted 2013-06-22
    Nice, thank you
    1 user found this review helpful.
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Registered

2010-08-12
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