Question

Information about .GAL file from two-color channel microarray

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Sanches • 0

@sanches-13853

Last seen 6.1 years ago

Dear all,

Let me ask you a question.

I have been analyzing a two-color microarray data but I do not have the .gal file. I tried to get this file from Agilent web site but I do not have the following information: Design ID and slide format. So, is there another possibility to get this information? Is there another way to get the gene list?

Thanks in advance.

Have a nice day

.GAL file two-color microaray • 751 views

ADD COMMENT • link updated 6.6 years ago by Gordon Smyth 50k • written 6.6 years ago by Sanches • 0

score 0 · Answer 1 · 2017-09-05

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Gordon Smyth 50k

@gordon-smyth

Last seen 33 minutes ago

WEHI, Melbourne, Australia

GAL files are only for GenePix. You won't have or need a GAL file when analyzing Agilent arrays -- all the relevant information should be in the Agilent files.

As far as I can see from the code that you've posted elsewhere on this site, the gene information should already have been read for you automatically by read.maimages(). You should see this information in the output from topTable(). Why do you say you don't have a gene list?

ADD COMMENT • link 6.6 years ago Gordon Smyth 50k

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Dear Gordon,

You are right. I apologize for my lack of experience.

I have the following information:

. Spot ID and GenBank Accession Number. How can I replace the GenBank Accession Number by Gene Name?

Thanks in advance

ADD REPLY • link 6.6 years ago Sanches • 0