normalization of microarray data

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7.7 years ago

au.rinki.bio ▴ 20

hii

I'm trying to normalize some data gotten from GEO with the R affy package. i have taken 12 ovarian cancer sample from GSE14407 and 1 normal sample from ovary from GSE2361 and normalize these data by applying rma alogorithm:

"GSM44674.CEL does not seem to have the correct dimensions"

R • 1.9k views

ADD COMMENT • link 7.7 years ago by au.rinki.bio ▴ 20

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A quick look at your GEO sets, tells me that both sets did not use the exact same platform. Might that be the problem?

ADD REPLY • link 7.7 years ago by Benn 8.3k

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plz give me probable solution.

ADD REPLY • link 7.7 years ago by au.rinki.bio ▴ 20

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Use only arrays together that were all done on the same platform.

ADD REPLY • link 7.7 years ago by Benn 8.3k

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what is your exact code ?

ADD REPLY • link 7.7 years ago by Santosh Anand 5.8k

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my code is: library(affy) norm <- ReadAffy() norm.rma <-rma(norm)

ADD REPLY • link 7.7 years ago by au.rinki.bio ▴ 20

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