Question: Annotation for Agilent chip DesignID 39494 (one color array)
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gravatar for felix.klein
4.9 years ago by
felix.klein150
Germany
felix.klein150 wrote:

Hello,

I was wondering if there is an annotation package for the Agilent chip DesignID 39494 on Bioconductor.

Under this number I could not find anything here:

http://bioconductor.org/packages/release/BiocViews.html#___AgilentChip

Kind regards,

Felix

microarray annotation agilent • 912 views
ADD COMMENTlink modified 4.9 years ago by Gordon Smyth39k • written 4.9 years ago by felix.klein150
Answer: Annotation for Agilent chip DesignID 39494 (one color array)
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gravatar for Gordon Smyth
4.9 years ago by
Gordon Smyth39k
Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
Gordon Smyth39k wrote:

I think you've already answered your own question as far as a Bioconductor annotation package is concerned.

There are other ways to access annotation of course: Agilent Feature Extraction output includes annotation columns in the same files as contain the intensities and this annotation can be read using (for example) the read.maimages function in the limma package.

Alternatively, see the GEO annotation files for this Agilent design:

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL17077

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL16699

 

 

ADD COMMENTlink modified 4.9 years ago • written 4.9 years ago by Gordon Smyth39k
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