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Snoopy’s hybrid simulator: a tool to construct and simulate hybrid biological models

Overview of attention for article published in BMC Systems Biology, July 2017
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Title
Snoopy’s hybrid simulator: a tool to construct and simulate hybrid biological models
Published in
BMC Systems Biology, July 2017
DOI 10.1186/s12918-017-0449-6
Pubmed ID
Authors

Mostafa Herajy, Fei Liu, Christian Rohr, Monika Heiner

Abstract

Hybrid simulation of (computational) biochemical reaction networks, which combines stochastic and deterministic dynamics, is an important direction to tackle future challenges due to complex and multi-scale models. Inherently hybrid computational models of biochemical networks entail two time scales: fast and slow. Therefore, it is intricate to efficiently and accurately analyse them using only either deterministic or stochastic simulation. However, there are only a few software tools that support such an approach. These tools are often limited with respect to the number as well as the functionalities of the provided hybrid simulation algorithms. We present Snoopy's hybrid simulator, an efficient hybrid simulation software which builds on Snoopy, a tool to construct and simulate Petri nets. Snoopy's hybrid simulator provides a wide range of state-of-the-art hybrid simulation algorithms. Using this tool, a computational model of biochemical networks can be constructed using a (coloured) hybrid Petri net's graphical notations, or imported from other compatible formats (e.g. SBML), and afterwards executed via dynamic or static hybrid simulation. Snoopy's hybrid simulator is a platform-independent tool providing an accurate and efficient simulation of hybrid (biological) models. It can be downloaded free of charge as part of Snoopy from http://www-dssz.informatik.tu-cottbus.de/DSSZ/Software/Snoopy .

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 21 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 21 100%

Demographic breakdown

Readers by professional status Count As %
Student > Master 4 19%
Researcher 3 14%
Professor > Associate Professor 2 10%
Student > Ph. D. Student 2 10%
Student > Bachelor 1 5%
Other 2 10%
Unknown 7 33%
Readers by discipline Count As %
Computer Science 3 14%
Biochemistry, Genetics and Molecular Biology 2 10%
Engineering 2 10%
Mathematics 1 5%
Psychology 1 5%
Other 3 14%
Unknown 9 43%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 12 August 2017.
All research outputs
#14,949,631
of 22,996,001 outputs
Outputs from BMC Systems Biology
#603
of 1,144 outputs
Outputs of similar age
#188,120
of 316,684 outputs
Outputs of similar age from BMC Systems Biology
#8
of 11 outputs
Altmetric has tracked 22,996,001 research outputs across all sources so far. This one is in the 32nd percentile – i.e., 32% of other outputs scored the same or lower than it.
So far Altmetric has tracked 1,144 research outputs from this source. They receive a mean Attention Score of 3.6. This one is in the 43rd percentile – i.e., 43% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 316,684 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 37th percentile – i.e., 37% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 11 others from the same source and published within six weeks on either side of this one. This one is in the 9th percentile – i.e., 9% of its contemporaries scored the same or lower than it.