Question

Annotation for Agilent chip DesignID 39494 (one color array)

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felix.klein ▴ 150

@felixklein-6900

Last seen 5.8 years ago

Germany

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

agilent microarray annotation • 1.6k views

ADD COMMENT • link updated 9.2 years ago by Gordon Smyth 50k • written 9.2 years ago by felix.klein ▴ 150

score 0 · Answer 1 · 2015-01-28

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