Agile Development Of Bioinformatic Projects

Question

[Martin A Hansen]

Possible Duplicate:
Agile programming for bioinformaticians - any suggestions?

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.

Cheers,

Martin

[Martin A Hansen]

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.

Answer 1

[biobot 0.0.77.a.1099]

One example is the Wellcome Trust Sanger Institute's sample tracking application Sequencescape. I know that this project was using scrum in its early stages. I don't know whether that is still true.

[Martin A Hansen]

Very interesting. It would be nice to know how the project is progressing.

Answer 2

[Egon Willighagen]

Oscar4 development I was involved in last year used a SCRUM approach, and has been used to discover entities of biological interest for the ChEBI database (we were interested in solvents). Aspects of extreme programming were used too, with one developer writing unit tests, and another the implementation.

The Chemistry Development Kit 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.

[Martin A Hansen]

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.

Answer 3

[Giovanni M Dall'Olio]

I recommend you to read this article by Rother et al, 2011, 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.