McMurry, Andrew J. wrote:
> Greetings:
> I'm tasked with creating extractor APIs for array results
> (CGH/Expression/SNP) in a MIAME compliant format (likely MINIML). I
> figure it is better to use open source tools available rather than build
> from scratch. All the work we do is open source.
>
> We are writing a tool that simply points at a folder and reads each
> MIAME compliant CGH/SNP/or Expression arrays and inserts it into a local
> database so we can query for individual results and do correlation
> studies. I'm guessing this sounds familiar already. How hard would it be
> for me to simply use Base2 as a library to grab a list of results and
> load it into a local db? Since the array results have ALREADY been
> generated, we dont need a full blown LIMS system as nice as the one
> offered by base2.
Hello, Andrew.
I'm part of an EU-funded project NuGO and we use base2. We also use
genePattern from the Broad Institute. We've just been talking to Ted
Liefeld about querying base2 instances from GenePattern in a similar
way. It might be worth having a chat with him about what you are
planning, so we don't duplicate our efforts?
Best wishes,
Ton y.
--
Dr. A.J.Travis, | mailto:[EMAIL PROTECTED]
Rowett Research Institute, | http://www.rri.sari.ac.uk/~ajt
Greenburn Road, Bucksburn, | phone:+44 (0)1224 712751
Aberdeen AB21 9SB, Scotland, UK. | fax:+44 (0)1224 716687
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