Snoopy - A Unifying Petri Net Tool

نویسندگان

  • Monika Heiner
  • Mostafa Herajy
  • Fei Liu
  • Christian Rohr
  • Martin Schwarick
چکیده

The tool Snoopy provides a unifying Petri net framework which has particularly many application scenarios in systems and synthetic biology. The framework consists of two levels: uncoloured and coloured. Each level comprises a family of related Petri net classes, sharing structure, but being specialized by their kinetic information. Petri nets of all net classes within one level can be converted into each other, while changing the level involves user-guided folding or automatic unfolding. Models can be hierarchically structured, allowing for the mastering of larger networks. Snoopy supports the simultaneous use of several Petri net classes; the graphical user interface adapts dynamically to the active one. Built-in animation and simulation (depending on the net class) are complemented by export to various analysis tools. Snoopy facilitates the extension by new Petri net classes thanks to its generic design.

برای دانلود رایگان متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Snoopy - a unifying Petri net framework to investigate biomolecular networks

SUMMARY To investigate biomolecular networks, Snoopy provides a unifying Petri net framework comprising a family of related Petri net classes. Models can be hierarchically structured, allowing for the mastering of larger networks. To move easily between the qualitative, stochastic and continuous modelling paradigms, models can be converted into each other. We get models sharing structure, but s...

متن کامل

Petri Nets for Modeling and Analyzing Biochemical Reaction Networks

Petri nets have been widely used to model and analyze biochemical reaction networks. This chapter gives an overview of di↵erent types of Petri nets within a unifying Petri net framework that comprises the qualitative, stochastic, continuous and hybrid paradigms at both uncolored and colored levels. The Petri net framework permits to investigate one and the same biological reaction network with ...

متن کامل

Snoopy - A Tool to Design and Execute Graph-Based Formalisms

We sketch the fundamental properties and features of Snoopy, a tool to model and execute (animate, simulate) hierarchical graph-based system descriptions. The tool comes along with several pre-fabricated graph classes, especially some kind of Petri nets and other related graphs, and facilitates a comfortable integration of further graph classes due to its generic design. To support an aspect-or...

متن کامل

Snoopy: a tool to design and animate/simulate graph-based formalisms

We sketch the fundamental properties and features of Snoopy, a tool to model and execute (animate, simulate) hierarchical graph-based system descriptions. The tool comes along with several pre-fabricated graph classes (in particular some kind of Petri nets and other related graphs), and facilitates a comfortable integration of further graph classes due to its generic design. To support an aspec...

متن کامل

Colored Petri nets to Model and Simulate Biological Systems

Petri nets have become an effective formalism to model biological systems. However, attempts to simulate biological systems by low-level Petri nets are restricted to relatively small models, and they tend to grow quickly for modeling complex systems, which makes it more difficult to manage and understand the nets. Motivated by this, we propose a colored Petri net-based framework for modeling, s...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2012