Biojs
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This document summarizes a meeting about the bioJS project, which develops JavaScript components for biological data visualization. The bioJS library contains graphical components that follow a single specification and are not dependent on a particular framework. Components need to be easy to develop, integrate, test and discover. The development process involves requirements gathering, specification, implementation, testing and documentation. Future plans include developing more components for visualizing sequences, structures, ontologies and spectra from sources like UniProt, PDB and PRIDE. The bioJS project collaborates with groups at EBI on design and usability.
Biojs
- 1. HSF meeting Rafael C. Jimenez 2011-11-10 bi JS Jhon Gomez jgomez@ebi.ac.uk
- 2. bioJS • A library of JavaScript components to represent biological data • Not a framework, but a collection of graphical components following one specification • Under development from August 2011 13.12.20182 bi JS component bi JS compone bi JS omponent bi JS component bi JS component library
- 3. Component requirements • Easy to develop and maintain • Easy to integrate • Easy to test • Easy to discover 13.12.20183 bi JS component Easy
- 4. Easy to develop and maintain 13.12.20184 1 2 3 Graphical representation Technology X Y Z Developer 1 2 3 * * Type of representation Website • Represent the same type of information in different projects using the same graphical component Implementation a b c d
- 5. Easy to develop and maintain • Common specification • Component architecture • Dependency management • Events usage • Component intercommunication • Component extension • Self-testing code with working examples • Component self-documentation • Platform and language independent • A registry of components13.12.20185 Easy to test and integrate Easy to discover
- 7. Development process 13.12.2018 requirements specification implementation tests Component documentation Library specification
- 10. Library specification Reference implementation • Component architecture • Dependency management • Events usage • Component intercommunication • Component extension • Self-testing code with working examples • Component self-documentation 13.12.201810 Reference implementation jQuery
- 11. Library specification Component intercommunication 13.12.201811 Reference implementation jQuery YUI + JApplet onSelection highlight event action
- 12. jsDAS Proxy + PDB WS Library specification Reference implementation Component extension 13.12.201812 YUI + JApplet Component 1 Component 2 Component 3 Extends Extends PDB file PDB web service UniProt Acc
- 13. Plans 1. Specification 2. Components Following “EBI web redesign” groups (Layout and visual design + User experience - UX) 13.12.201813 Components Requirements, support and collaboration 1 Sequence PDB, UniProt, Dasty and PRIDE 2 3D structure PDB, IntAct and Dasty 3 Chemical representation ChEBI 4 Ontology tree IntAct, Dasty, PRIDE and OLS. 5 Spectra visualization ChEBI and PRIDE 6 UniProt features UniProt
- 14. bioJS sequence bi JS component bi JS compone bi JS omponent bi JS component bi JS component bioJS Library UniProt PDBe Dasty PRIDE Requirements (visual representation + functionality)
- 15. 13.12.201815 Registry: http://www.ebi.ac.uk/~jg omez/biojs/registry/Biojs .Sequence.html JSdoc: http://www.ebi.ac.uk/~jg omez/biojs/jsdoc/symbol s/Biojs.Sequence.html Sequence bi JS • PDBe • UniProt • Dasty • PRIDE Requirements from:
- 16. 13.12.201816 Source code repository SVN Registry Component test and examples Registry Component documentation Component release
- 17. Future plans 13.12.201817 • Component wrappers for other frameworks and CMS. i.e. Drupal module bi JS component Dasty plugin bi JS component
- 18. The bioJS project members and collaborators http://code.google.com/p/biojs/ biojs@googlegroups.com The Proteomics Services Team Thanks to: