SCODE specifications


Unique identifier OMICS_13693
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A file with G x C matrix of expression data and a file with time point data
Output data A file with G x G matrix; a file with D x D diagonal matrix; a file with G x D matrix and the residual sum of squares of linear regression
Output format TXT
Operating system Unix/Linux
Programming languages R, Ruby, Julia
License MIT License
Computer skills Advanced
Stability Stable
Requirements MASS
Maintained Yes



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  • person_outline Hirotaka Matsumoto <>

Publication for SCODE

SCODE institution(s)
Bioinformatics Research Unit, Advanced Center for Computing and Communication, Riken, Saitama, Japan; Department of Computational Biology and Medical Sciences, Faculty of Frontier Sciences, The University of Tokyo, Chiba, Japan; Quantitative Biology Center, Riken, Osaka, Japan; Department of Systems Medicine, Keio University School of Medicine, Tokyo, Japan
SCODE funding source(s)
Supported by a Grant-in-Aid for Japan Society for the Promotion of Science (JSPS) Fellows, JSPS KAKENHI (Grant Numbers 16J05079, 15H01465, 25134701, 25870190, and 16H01532) and Core Research for Evolutional Science and Technology (CREST) “Creation of Fundamental Technologies for Understanding and Control of Biosystem Dynamics” from the Japan Science and Technology Agency (JST).

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