[BioC] where to download 'probeset.cvs' file for creating scheme file
cstrato at aon.at
Sun Mar 7 22:12:04 CET 2010
Thank you for this interesting alternative, however it requires an
Affymetrix account, while you can currently download the annotation
files from the Affymetrix website w/o account (currently you need an
account only to download the library files).
Martin Morgan wrote:
> On 03/07/2010 11:59 AM, cstrato wrote:
>> Dear Steve,
>> For some reason Affymetrix has reorganized their web-site in a way so
>> that it is really hard to find anything!!
>> As far as I can see, go to:
>> then "Select a product" e.g. HuExon array,
>> then check "Software & Data" i.e. "Annotation Files" and "Library Files"
>> then click "Go".
>> The resulting page contains "Current NetAffx Annotation Files" which
>> contains both the transcript and probeset annotation files.
> Not that the following is guaranteed to be robust to affy file movement, but
> rsrc <- NetAffxResource("your at username", "password")
> sapply(affxAnnotation(rsrc[["HuEx-1_0-st-v2"]]), affxDescription)
> anno <- affxFile(rsrc[["HuEx-1_0-st-v2",
> "Probeset Annotations, CSV Format"]])
> csv <- readAnnotation(rsrc, annotation=anno)
> The vignette "Annotation retrieval with NetAffxResource" is a useful
> starting place.
>> Best regards
>> Steve Shen wrote:
>>> Dear Christian,
>>> A quick question about creating scheme files, I am trying to download
>>> 'transcripts.cvs' and 'probeset.cvs' files from
>>> It seemed to be that only transcripts.cvs available from affy site.
>>> Can you or someone else point me out where to find the files? Thanks,
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