[BioC] AffyBatch: Replacing probe set IDs with Genebank
Aedin.Culhane at ucd.ie
Thu Mar 3 15:23:26 CET 2005
To get from affyIDs' to genbank accession numbers:
If there is a metadata package for your Affymetrix chip (you can get the
metadata from the BioC website or using install.packages2())
Eg for package hgu133a
Alternatively use annaffy() which is an excellent package
Then use either:
If you've a custom chip, you may need to use AnnBuilder create the
Hope this helps
Date: Thu, 3 Mar 2005 11:57:16 +0100
From: "JSPC (Jeppe Skytte Spicker)" <jspc at novonordisk.com>
Subject: [BioC] AffyBatch: Replacing probe set IDs with Genebank
To: <bioconductor at stat.math.ethz.ch>
<CE4C1B6620E59840BB07F6F12256AEDF026B618A at exdkba021.novo.dk>
Content-Type: text/plain; charset="us-ascii"
How do I get from the probe set IDs in the AffyBatch at exprs to e.g.
Genebank acc. numbers?
I would like to be able to make the replacement using the .GIN file
because I am also looking at custom affy chips.
Thank you in advance.
Best regards Jeppe
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