On Tue, Sep 1, 2009 at 5:48 AM, Kishor Tappita <kishor.tappita@gmail.com>wrote:

> Dear All,
>
> I am trying to analyze a Microarray series data using "GEOquery". I
> get the below
> error when trying to extract the information.
>
> > gse = getGEO("GSE15709");
> > Meta(gse)
> Error in function (classes, fdef, mtable)  :
>  unable to find an inherited method for function "Meta", for signature
> "list"
> > GSMList(gse)[[1]]
> Error in function (classes, fdef, mtable)  :
>  unable to find an inherited method for function "GSMList", for
> signature "list"
>
> Thanks in advance for your help.
>
>
getGEO() defaults to GSEMatrix=TRUE.  Per the documentation, this returns a
list of ExpressionSet objects.  So, gse[[1]] is an ExpressionSet.  The
accessors that you are using above are for returns from calls to getGEO()
with GSEMatrix=FALSE.  Unless there is a specific need to get information
from the full GSE SOFT file, I would recommend staying with GSEMatrix=TRUE
and working with the more standard ExpressionSet object(s).

Hope that helps.

Sean

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