Question: how to remove sequence names and probe names from normalized agilent micro array data
gravatar for rohit
5.4 years ago by
rohit30 wrote:

hello everyone,

I'm analyzing the agilent microarray data using limma package. I have performed normalization using

y <- normalizeBetweenArrays(y,method="quantile")

now I need to get the normalized gene expression values. I have used the command

 write.table(y, file="Tt.txt", sep="\t", quote=FALSE)
 to get the expression values of genes. In the output text file I can see the gene names, expression values along with sequence names and probe names.

Is there any package to remove the sequence names and probe names?

Thank you in advance.

limma R agilent • 1.3k views
ADD COMMENTlink modified 5.4 years ago by Antonio R. Franco4.5k • written 5.4 years ago by rohit30
gravatar for Antonio R. Franco
5.4 years ago by
Spain. Universidad de Córdoba
Antonio R. Franco4.5k wrote:

The easiest way is maybe to import that file into Excel, and erase the undesired columns

ADD COMMENTlink written 5.4 years ago by Antonio R. Franco4.5k

Thank you Franco for your suggestion. I have imported the file into excel and deleted the undesired columns.

ADD REPLYlink written 5.4 years ago by rohit30
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