

Hi

I have a data frame that looks like the one below.  I would like to apply to its columns the different
kinds of normalizations such as median global normalization (Scaling), Quantile
Normalization, and Lowess. Do I have to use packages such as affy, Limma and
marray and if so what do I have to do to the data frame in order to be able to
analyze it with these packages?  


Thanks


 


df=data.frame (row.names=LETTERS[1:10], col1=c(1,4,7:9,2:6),
col2= c(1:4,9, 10:14), col3=c(14,6:10,8:11))


> df


  col1 col2 col3


A    1    1  
14


B    4    2   
6


C    7    3   
7


D    8    4   
8


E    9    9   
9


F    2   10  
10


G    3   11   
8


H    4  
12    9


I    5   13  
10


J    6   14  
11


 


 






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