[BiO BB] BioInformatics Workbench project

Nur'Aini Abdul Rashid nuraini at cs.usm.my
Sun Jun 25 22:04:22 EDT 2006

Hello marcel and others ,

I agree with others that this project has a very broad scope. Perhaps we
can partition it into smaller scope and works on those independently
depending on the needs of each user in each scope and merge later on.
However, there are some basic functions that are needed everywhere such
as search and comparison functions which are extensively used at
primary, secondary and tertiary level of data. I would like very much to
join this project however I must admit that I am good in C but not much
of the other languages that you specify.

 On Sun, 2006-06-25 at 15:02 -0400, Marcel van den Bosch wrote:
> Hello Jeff, Hello Oscar,
> I must agree with you that this project has a very broad scope. However 
> part of the project should be to determine what (popular) functionalities a 
> complete workbench should contain and with this information, compose a 
> list of functional requirements.
> These functional requirements should provide us with enough information to 
> begin working on the technical details. Perhaps if it turns out that all 
> requirements are related to proteomics-area, we can always call it 
> something like the "All-in-one Proteomics Workbench project.." :-)
> But I think that we shouldn't be doing that until we know the exact 
> requirements and who would like to team-up with the project.
> The differences between this application and other workbench projects, in 
> my opinion, should be:
> - Must contain an intuitive user interfaces (taking advantage of standard 
> UI components from the .NET framework) so that the time needed to learn 
> how to use the application should be minimized and the application should 
> be attractive to (biochemistry) students without a lot of 
> computer/informatics experience.
> - Integration and collaboration of different functions/tools within the 
> workbench. This should allow the user of the application to work more 
> efficiently than a collection of standalone tools and saves a lot of time 
> saving/opening/converting filetypes etc. Pretty much the same idea as the 
> Open Office/Microsoft Office suite.. it just works better then using all 
> standalone applications for example like Wordperfect, Lotus 123 and dBASE.
> - It allows developers from widely used languages as C++/C#/J#/Visual 
> Basic and Fortran to work on the project or allows them to easily develop 
> a plug-in for it.
> Ofcourse I am open to suggestions, I received a lot of useful tips by 
> email from interested people. So I of you have some suggestions which 
> might help bringing this idea to life, please let me know. I am also 
> interested in using a agile style system development methodology, so that 
> this project obtains some flexibility in it.s requirements later in the 
> process.
> This project is too big to do it on my own, so any help is appreciated. 
> The first step should be, in my opinion, to ask people what they would 
> like to have in a workbench. From that point on we can always decide
> to change things according to the needs.
> Regards,
> Marcel
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