利用 PymoNNto 和 PymoNNtorch 加速尖峰神经网络仿真

IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Frontiers in Neuroinformatics Pub Date : 2024-02-20 DOI:10.3389/fninf.2024.1331220
Marius Vieth, Ali Rahimi, Ashena Gorgan Mohammadi, Jochen Triesch, Mohammad Ganjtabesh
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引用次数: 0

摘要

尖峰神经网络模拟是计算神经科学、人工智能和神经形态工程研究的核心工具。针对不同的目标应用领域,有多种用于此类模拟的模拟器和软件框架。其中,PymoNNto 是最近推出的一款基于 Python 的尖峰神经网络仿真工具箱,它强调以模块化和灵活的方式嵌入自定义代码。虽然 PymoNNto 已经支持 GPU 实现,但其后台依赖于 NumPy 操作。在这里,我们将介绍 PymoNNtorch,它是用 PyTorch 原生实现的,同时保留了 PymoNNto 的模块化设计。此外,我们还展示了如何通过改变常见网络操作的实现方式,结合 PymoNNtorch 的原生 GPU 支持,在某些情况下实现比 NEST、ANNarchy 和 Brian 2 等传统模拟器更快的速度。总之,我们展示了 PymoNNto 的模块化和灵活设计如何与 PymoNNtorch 的 GPU 加速和优化索引操作相结合,促进了 Python 编程语言中尖峰神经网络的研究与开发。
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Accelerating spiking neural network simulations with PymoNNto and PymoNNtorch
Spiking neural network simulations are a central tool in Computational Neuroscience, Artificial Intelligence, and Neuromorphic Engineering research. A broad range of simulators and software frameworks for such simulations exist with different target application areas. Among these, PymoNNto is a recent Python-based toolbox for spiking neural network simulations that emphasizes the embedding of custom code in a modular and flexible way. While PymoNNto already supports GPU implementations, its backend relies on NumPy operations. Here we introduce PymoNNtorch, which is natively implemented with PyTorch while retaining PymoNNto's modular design. Furthermore, we demonstrate how changes to the implementations of common network operations in combination with PymoNNtorch's native GPU support can offer speed-up over conventional simulators like NEST, ANNarchy, and Brian 2 in certain situations. Overall, we show how PymoNNto's modular and flexible design in combination with PymoNNtorch's GPU acceleration and optimized indexing operations facilitate research and development of spiking neural networks in the Python programming language.
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来源期刊
Frontiers in Neuroinformatics
Frontiers in Neuroinformatics MATHEMATICAL & COMPUTATIONAL BIOLOGY-NEUROSCIENCES
CiteScore
4.80
自引率
5.70%
发文量
132
审稿时长
14 weeks
期刊介绍: Frontiers in Neuroinformatics publishes rigorously peer-reviewed research on the development and implementation of numerical/computational models and analytical tools used to share, integrate and analyze experimental data and advance theories of the nervous system functions. Specialty Chief Editors Jan G. Bjaalie at the University of Oslo and Sean L. Hill at the École Polytechnique Fédérale de Lausanne are supported by an outstanding Editorial Board of international experts. This multidisciplinary open-access journal is at the forefront of disseminating and communicating scientific knowledge and impactful discoveries to researchers, academics and the public worldwide. Neuroscience is being propelled into the information age as the volume of information explodes, demanding organization and synthesis. Novel synthesis approaches are opening up a new dimension for the exploration of the components of brain elements and systems and the vast number of variables that underlie their functions. Neural data is highly heterogeneous with complex inter-relations across multiple levels, driving the need for innovative organizing and synthesizing approaches from genes to cognition, and covering a range of species and disease states. Frontiers in Neuroinformatics therefore welcomes submissions on existing neuroscience databases, development of data and knowledge bases for all levels of neuroscience, applications and technologies that can facilitate data sharing (interoperability, formats, terminologies, and ontologies), and novel tools for data acquisition, analyses, visualization, and dissemination of nervous system data. Our journal welcomes submissions on new tools (software and hardware) that support brain modeling, and the merging of neuroscience databases with brain models used for simulation and visualization.
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