Software support for SBGN maps: SBGN-ML and LibSBGN

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Software support for SBGN maps SBGN-ML and LibSBGN.pdf (715.89 KB)

Date

2012

Authors

Iersel, Martijn P. van
Villéger, A. C.
Czauderna, T.
Boyd, S. E.
Bergmann, F. T.
Luna, A.
Demir, E.
Sorokin, A.
Dogrusoz, U.
Matsuoka, Y.

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Abstract

Motivation: LibSBGN is a software library for reading, writing and manipulating Systems Biology Graphical Notation (SBGN) maps stored using the recently developed SBGN-ML file format. The library (available in C++ and Java) makes it easy for developers to add SBGN support to their tools, whereas the file format facilitates the exchange of maps between compatible software applications. The library also supports validation of maps, which simplifies the task of ensuring compliance with the detailed SBGN specifications. With this effort we hope to increase the adoption of SBGN in bioinformatics tools, ultimately enabling more researchers to visualize biological knowledge in a precise and unambiguous manner. © The Author(s) 2012. Published by Oxford University Press.

Source Title

Bioinformatics

Publisher

Oxford University Press

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Keywords

Biology, Computer language, Computer program, Methodology, Systems biology, Computational biology, Programming languages, Software

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Permalink

http://hdl.handle.net/11693/21386

Published Version (Please cite this version)

http://dx.doi.org/10.1093/bioinformatics/bts270

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Scholarly Publications - Computer Engineering

Language

English

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Article