Refactoring the Code for Visualizing Protein Database Information in a 3D Viewer for Software Reusability. |
Yoo Jin Chun, Seong Il Ham, San Duk Yang, Arang Rhie, Hyun Seok Park |
1Institute of Bioinformatics, Macrogen Inc., Seoul 153-023, Korea. neo@ewha.ac.kr 2Department of Computer Science, Ewha Womans University, Seoul 120-750, Korea. 3Department of Architectural Engineering, Yonsei University, Seoul, 120-749, Korea. |
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Abstract |
We have released five Java Application Programming Interface (API) packages for viewing three-dimensional structures of proteins from the Protein Data Bank. To this end, the user interface of an earlier version has been refactored in an object-oriented fashion, in which refactoring is the process of changing a software system to improve its internal structure, without altering the external behavior. Various GUI design and features have been provided conveniently thanks to the Model-View-Control (MVC)model, which is an architectural pattern used in software engineering. Availability: The source code and API specification can be downloaded from https://sourceforge.net/projects/j3dpsv/. |
Keywords:
API; Bioinformatics; Protein structure visualization; Refactoring |
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