Software support for SBGN maps: SBGN-ML and LibSBGN

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.
Advisor
Instructor
Source Title
Bioinformatics
Print ISSN
1367-4803
Electronic ISSN
Publisher
Oxford University Press
Volume
28
Issue
15
Pages
2016 - 2021
Language
English
Type
Article
Journal Title
Journal ISSN
Volume Title
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.

Course
Other identifiers
Book Title
Keywords
Biology, Computer language, Computer program, Methodology, Systems biology, Computational biology, Programming languages, Software
Citation
Published Version (Please cite this version)