[BioC] GEOquery and parsing SOFT files

Wacek Kusnierczyk Waclaw.Marcin.Kusnierczyk at idi.ntnu.no
Tue May 26 09:21:33 CEST 2009

Sean Davis wrote:

> Thanks, Wacek, for the report.  This is a known issue and GEOquery could
> probably be smarter than it currently is; I have not changed that code in q
> while since GEO began using GSE Matrix files.  You could try using
> GSEMatrix=TRUE, as the documentation suggests.  You will find that will deal
> with your speed issues.

thanks.  if parsing soft files is no longer essential, it makes little
sense for me to delve into the implementation details;  otherwise, i
could try to find a spot for improvement.  what's your opinion?


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