TY  - JOUR
N1  - This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.
VL  - 16
KW  - Neurons
KW  -  Simulation and modeling
KW  -  Network analysis
KW  -  Neural networks
KW  -  Biophysics
KW  -  Biophysical simulations
KW  -  Synapses
KW  -  Neuronal morphology
JF  - PLOS Computational Biology
A1  - Dai, K
A1  - Hernando, J
A1  - Billeh, YN
A1  - Gratiy, SL
A1  - Planas, J
A1  - Davison, AP
A1  - Dura-Bernal, S
A1  - Gleeson, P
A1  - Devresse, A
A1  - Dichter, BK
A1  - Gevaert, M
A1  - King, JG
A1  - Van Geit, WAH
A1  - Povolotsky, AV
A1  - Muller, E
A1  - Courcol, J-D
A1  - Arkhipov, A
TI  - The SONATA data format for efficient description of large-scale network models
Y1  - 2020/02/24/
AV  - public
IS  - 2
N2  - Increasing availability of comprehensive experimental datasets and of high-performance computing resources are driving rapid growth in scale, complexity, and biological realism of computational models in neuroscience. To support construction and simulation, as well as sharing of such large-scale models, a broadly applicable, flexible, and high-performance data format is necessary. To address this need, we have developed the Scalable Open Network Architecture TemplAte (SONATA) data format. It is designed for memory and computational efficiency and works across multiple platforms. The format represents neuronal circuits and simulation inputs and outputs via standardized files and provides much flexibility for adding new conventions or extensions. SONATA is used in multiple modeling and visualization tools, and we also provide reference Application Programming Interfaces and model examples to catalyze further adoption. SONATA format is free and open for the community to use and build upon with the goal of enabling efficient model building, sharing, and reproducibility.
UR  - https://doi.org/10.1371/journal.pcbi.1007696
ID  - discovery10093154
ER  -