Joao Paulo Samara wrote:
OK, so Joao, I would recommend building OSCAR packages for the
appropriate bioinformatics codes.
In addition to mpiBLAST don't forget plain ol' NCBI BLAST and it's
various incarnations. IMHO, you should also consider consider a
package with the *binaries* direct from NCBI.
Well, in my application I mentoined( I just submitted today):
NCBI toolkit, BLAST, mpiBLAST, HMMER, ClustalW, GROMACS, PHYLIP, WISE,
FASTA, and EMBOSS etc
EMBOSS itself it is a little big.
That looks like a good list!
My question to you: Are there guidelines on what is appropriate
(sufficient) for the stipend?
From Google's point of view it I think it is up to the mentors
choose which project would be most useful and attainable within 3
months, based on the applicants descripiton of the project. Or I didn't
understand your question well?
Based on sugestions by Bernard et al :) I decided to focus on
bioinformatics tools and I put a lot of enphasis on SGE itself.
I think we could start wich SGE and I'll choose a good subset(there
is a certain redundancy on the softwares) of bioinformatics tools along
the way..
I'm concerned about SGE, as Bernard didn't indicate he had a lot done --
suggesting that all the OSCAR infrastructure we have that's too, too
PBS/Torque centric will need some tweaking. I don't want to see you get
bogged down in that and risk the stipend--especially given your list of
10 packages above.
Anyway, welcome to OSCAR!
--
David N. Lombard
Rossmoor, Orange County, CA
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