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Similar posts • Search » (/local/search/page/) Postdoctoral Fellow Bioinformatics (/p/152623/) Agilent Laboratories, which strives to power the growth of Agilent Technologies through breakthro...
Question: Agile Development Of Bioinformatic Projects
3
R&D Scientist, Computational Biology Agilent Technologies, Santa Clara, CA (/p/199142/) **Description**: Agilent Research Laboratories, which strives to power the growth of Agilent Te...
Possible Duplicate: Agile programming for bioinformaticians - any suggestions? (http://biostar.stackexchange.com/questions/88/agile-programming-for-bioinformaticians-anysuggestions) Can anyone point me to bioinformatic projects driven by Agile development (X.P or scrum)? Are there any open source projects among these? It would be most interesting to learn from these.
(/u/4395/) 6.4 years ago by Martin A Hansen (/u/4395/) © 3.0k Denmark
Cheers,
Open source projects for canine genomics? (/p/270464/) Hello, Is anyone aware of any open source bioinformatics projects that focus on canine genomics...
Martin project (/t/project/) • 1.8k views ADD COMMENT
• link (/p/12950/) • Not following modified 4 months ago by Biostar (/u/1/) ©© 20 • written 6.4 years ago by Martin A Hansen (/u/4395/) © 3.0k
I did notice that other one before posting. I am interested in learning from agile bioinformatic projects - and especially open source ones - where people may be located all over the world. ADD REPLY
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• link (/p/12950/#34826)
written 6.4 years ago by Martin A Hansen (/u/4395/) © 3.0k
• link (/p/12950/#12966) modified 6.4 years ago • written 6.4 years ago by iw9oel_ad (/u/517/) © 6.0k
(/u/517/) 6.4 years ago by iw9oel_ad (/u/517/) © 6.0k
Very interesting. It would be nice to know how the project is progressing. ADD REPLY
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• link (/p/12950/#34823)
written 6.4 years ago by Martin A Hansen (/u/4395/) © 3.0k
Oscar4 (http://blogs.ch.cam.ac.uk/pmr/2011/04/08/oscar4-launch/) development I was involved in (http://chembla-ics.blogspot.com/2010/12/text-mining-chemistry-from-dutch-or.html) last year used a SCRUM approach, and has been used to discover entities of biological interest for the ChEBI (http://www.ebi.ac.uk/chebi/) database (we were interested in solvents (http://chem-bla-ics.blogspot.com/2010/12/status-update-on-bjoc-analysiswith_23.html)). Aspects of extreme programming were used too, with one developer writing unit tests, and another the implementation. The Chemistry Development Kit (http://cdk.sf.net) also uses independent unit tests extensively, though not in a pure XP style; peer review of code and unit tests is used, though very often unit tests are written to confirm bug reports by others than the person fixing the actual bug. ADD COMMENT
• link (/p/12950/#12972)
(/u/71/)
6.4 years ago by Egon Willighagen (/u/71/) © 5.2k Maastricht
written 6.4 years ago by Egon Willighagen (/u/71/) © 5.2k
Also, interesting. In the case of CDK I notice that they have 50 developers all over the world. Agile encourage face-to-face teamwork - but clearly that is not feasible in a modern world. ADD REPLY
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• link (/p/12950/#34825)
written 6.4 years ago by Martin A Hansen (/u/4395/) © 3.0k
I recommend you to read this article by Rother et al, 2011 (http://bib.oxfordjournals.org/content/early/2011/07/28/bib.bbr035.full), which contains many examples and good references. Surprisingly, it seems that there is some literature on this topic. For example, Interpro is developed using Scrum. ADD COMMENT
• link (/p/12950/#16091)
written 6.2 years ago by Giovanni M Dall'Olio (/u/23/) © 25k
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One example is the Wellcome Trust Sanger Institute (http://www.sanger.ac.uk)'s sample tracking application Sequencescape (http://github.com/sanger/sequencescape). I know that this project was using scrum in its early stages. I don't know whether that is still true. ADD COMMENT
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(/u/23/)
6.2 years ago by Giovanni M Dall'Olio (/u/23/) © 25k London, UK
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