NDLI: A program code generator for multiphysics biological simulation using markup languages

Content Provider	IEEE Xplore Digital Library
Author	Amano, A. Kawabata, M. Yamashita, Y. Punzalan, F.R. Shimayoshi, T. Kuwabara, H. Kunieda, Y.
Copyright Year	2012
Description	Author affiliation: Dept. of Inf., Ritsumeikan Univ., Kusatsu, Japan (Yamashita, Y.; Kuwabara, H.; Kunieda, Y.) \|\| ASTEM RI, Kyoto, Japan (Shimayoshi, T.) \|\| Dept. of Bioinf., Ritsumeikan Univ., Kusatsu, Japan (Amano, A.; Kawabata, M.; Punzalan, F.R.)
Abstract	To cope with the complexity of the biological function simulation models, model representation with description language is becoming popular. However, simulation software itself becomes complex in these environment, thus, it is difficult to modify the simulation conditions, target computation resources or calculation methods. In the complex biological function simulation software, there are 1) model equations, 2) boundary conditions and 3) calculation schemes. Use of description model file is useful for first point and partly second point, however, third point is difficult to handle for various calculation schemes which is required for simulation models constructed from two or more elementary models. We introduce a simulation software generation system which use description language based description of coupling calculation scheme together with cell model description file. By using this software, we can easily generate biological simulation code with variety of coupling calculation schemes. To show the efficiency of our system, example of coupling calculation scheme with three elementary models are shown.
Sponsorship	IEEE Eng. Medicine Biol. Soc.
Starting Page	6624
Ending Page	6627
File Size	287301
Page Count	4
File Format	PDF
ISBN	9781424441198
ISSN	1557170X
e-ISBN	9781457717871
DOI	10.1109/EMBC.2012.6347513
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2012-08-28
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Mathematical model Biological system modeling Computational modeling Couplings Equations Numerical models Biological information theory
Content Type	Text
Resource Type	Article
Subject	Signal Processing Biomedical Engineering Health Informatics Computer Vision and Pattern Recognition

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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