[BioC] getGEO

Sean Davis sdavis2 at mail.nih.gov
Fri Nov 3 21:30:02 CET 2006

On Friday 03 November 2006 15:09, you wrote:
> Slow means REALLY SLOW.
> I recently downloaded both a SOFT file and a MINiML file for the same
> data set (27 two-color glass arrays with 23,184 spots per array) from
> GEO.  Reading the SOFT format with GEOquery took more than an
> hour-and-a-half. Unzipping and reading the TSV files in the MINiML
> format took less than 5 minutes. I took the rest of the hour-and-a-half
> to learn how to use the XML package from CRAN to parse the sample
> information out of the accompanying XML file.

Great.  It would be great to move over to using the MINiML format files.  I 
haven't had the time to do so, but have meant to look into it.  Thanks for 
doing the test.


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