Question: Single-color and two color Agilent array analyzing in R
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gravatar for R
8 months ago by
R20
R20 wrote:

hello everyone; What is the difference between pre-processing and normalization in one color and two color Agilent Microarray data? please suggest best package R For both

normalization R agilent • 665 views
ADD COMMENTlink modified 8 months ago by Benn8.0k • written 8 months ago by R20
1
gravatar for ATpoint
8 months ago by
ATpoint35k
Germany
ATpoint35k wrote:

Limma. Please read its manual carefully. It extensively covers analysis of these types of arrays.

ADD COMMENTlink written 8 months ago by ATpoint35k
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gravatar for Benn
8 months ago by
Benn8.0k
Netherlands
Benn8.0k wrote:

Two-channel (color) microarrays are usually normalized with LOESS, but one-channel arrays usually only with a between-array method (like quantile). The best tool to use is limma, you can read in the manual how to normalize and analyze these different array types, including case studies with scripting codes.

ADD COMMENTlink written 8 months ago by Benn8.0k
1

As per Benn:

ADD REPLYlink written 8 months ago by Kevin Blighe60k
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