Thanks.  I need class information that can be used in ANOVA type analysis.
GSE annotation is not well structured as you mentioned.
GDS have some curated annotation that can be extracted with GEOquery.
However, the latest GDS is from last year. Any ideas if GDS will be 
continued?

Roumyana


 


Sean Davis wrote:

>On Wed, Jun 18, 2008 at 11:13 AM, Roumyana Yordanova
><roumyana.yordanova@bms.com> wrote:
>  
>
>>Hi,
>>
>>Is there a package in R that downloads any available annotation (e.g. cancer
>>type, time points, dose, etc.. for each sample)  in the GSE series.
>>    
>>
>
>Hi, Roumyana.
>
>If you need the information for a single GSE, you can look at the
>GEOquery package.  If you want this for many (or all) data in GEO,
>look at the GEOmetadb package.  Note that, in general, GEO does not
>curate the annotation and it is often not in a computable form.  If
>you need more details, you could supply a little bit more detail about
>what you want to do.
>
>Sean
>
>  
>

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