Question: Differential Expression of c.diff. microarray
0
gravatar for SSK
4.6 years ago by
SSK10
United Kingdom
SSK10 wrote:

Hello,

I am interested in determining the differential expression in E-GEOD-37442. Does anyone know of some code that I can adapt to the analysis of this array. In the array description it says A-GEOD-15470 - Agilent-024835 CDv2_0_1 [ProbeName version] 

Thank you so much!

ADD COMMENTlink modified 4.6 years ago • written 4.6 years ago by SSK10
Answer: Differential Expression of c.diff. microarray
0
gravatar for James W. MacDonald
4.6 years ago by
United States
James W. MacDonald52k wrote:

Sure. There is a metric ton of code in the limma User's guide that you could adapt.

ADD COMMENTlink written 4.6 years ago by James W. MacDonald52k
Answer: Differential Expression of c.diff. microarray
0
gravatar for SSK
4.6 years ago by
SSK10
United Kingdom
SSK10 wrote:

 

I have read the manual for Limma but I am not sure of the specifications for E-GEOD-37442. I have the following line of code:

SDRF <- read.delim("E-GEOD-37442.sdrf.txt",check.names=FALSE,stringsAsFactors=FALSE)

but i am not sure what are the specifications for read.maimages? I have this line for the Limma manual but I am not sure how I can adapt it for E-GEOD-37442.

x <- read.maimages(SDRF[,"Array Data File"],source="agilent",green.only=TRUE)

Also, would you know if there are microarray analysis services provided somewhere? I am worried I can't learn all of the tools within a reasonable time frame.

 

ADD COMMENTlink modified 4.6 years ago • written 4.6 years ago by SSK10

Yes. There are microarray analysis services provided lots of places. Did you try a google search?

ADD REPLYlink written 4.6 years ago by James W. MacDonald52k
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