[BiO BB] Re: Bioinformatics Project

Srivatsan Pallavaram srivaths at engineering.ucsb.edu
Sun Jul 27 19:49:48 EDT 2003

Hi all,

This open source projects, forum like environment, links, papers, etc sounds 
like a great idea to me. I am game!

Srivatsan Pallavaram

Dan Bolser <dmb at mrc-dunn.cam.ac.uk> said:

> Great!, and thanks for the responses!
> I hope you don't mind, but I have opened
> this up to the BB for discussion.
> I have worked on and with MS bioinfo projects
> before, so I have some idea of what is required /
> what can be reasonably acheived. In this case I
> doubt the same kind of close collaboration will
> be possible, where our unit was able to fund students.
> I know what you meen about getting 'outside ideas',
> the broader your input the better in all fields
> I guess. I think it is definatly worth while in
> the bioinfo community, as this area of science
> more closly resembles the sofware engineering 
> community than most. 
> I think the best way to procede is to make the
> projects clearly open source, so ideas, progress and
> results can be made available to the community.
> I guess this would work well within the framework of
> bioinformatics.org, but I have no practical experience
> of setting up / running open source projects! I.E. I
> have no clue what kind of admin this involves / where
> responsibility lies etc.
> I imagine this should not be too much of a problem if
> you and other students are willing to work togeher to
> get the projects off the ground within this framework
> (maby including university admin where you are?).
> I will prepare a list of projects which I think are
> reasonable, and then I guess we should initiate
> some kind of open discussion on the relevance / 
> previous work in the area / statement of aims and 
> objectives / etc. 
> Is this kind of forum available at bioinfo.org?
> I would really like to see an open forum for 'modular'
> project discussion, where people can add relevant
> papers / link / etc. to form a knowledge base for 
> further work.
> Anyway, I will first have to run the list by the 
> people in my lab to be sure that they are happy
> having these ideas made open (as I have a terrible
> habbit of jumping on good ideas which are not my own!).
> I will look forward to further comments / suggestions.
> P.S. do you have a time frame for project selection, as
> I could send one-at-a-time if that would help?
> Thanks very much for your idea, 
> Dan.
> On Fri, 25 Jul 2003 jccostel at indiana.edu wrote:
> > 
> > 
> > Dan,
> > 
> > I read your post saying you have lots of projects.  I would be 
interested in a 
> > project if it were something that I could use as my Master's Capstone 
> > (I am currently working towards my Master's degree in Bioinformatics).  
I am  
> > also interested in seeing what other people are working on outside of 
> > Bloomington Indiana (Indiana University).  There are very interesting 
> > and research going on at Indiana University, but it is also a pretty 
small and 
> > often secluded community.  It would be nice to get a different 
perspective on 
> > Bioinformatics and possible work with people, again, outside of 
> > Indiana.  Also, I know there will be other students looking for ideas 
for their 
> > Master's project and I could pass the project information on to them, if 
> > would like.  I am not sure how you would like to proceed, but please 
email me 
> > back with any input. 
> > 
> > Thanks,
> > Jim Costello
> > 
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Srivatsan Pallavaram
Graduate Student Researcher
Image Processing Research Lab (Prof. Sanjit K Mitra group)
Dept. of Electrical and Computer Engineering (ECE)
University of California, Santa Barbara (UCSB)

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