I am working with Affymatrix ( U133A 2.0 chip) data for the first time. The data has been background corrected and normalized and intended to be used to compare different groups. From examining the e.coli Lrp example, I believe this data typically exists in the .CEL format with the mean expression levels and standard deviation.
Problem is, I've been given data that has been parsed; each row represents a probe and each column represents a mean expression value for a particular subject. There is no standard deviation measurement included in this data. To highlight this, I posted a very small portion of the data below (there are many more subjects and probes).
From what I understand, the affy package typically will read .CEL files [e.g. read.affybatch(), ReadAffy()], which limma will work with. But as I don't have the files, I am a bit perplex at how to approach this problem. Initially, I thought I could reconstruct the .CEL files by using the e.coli Lpr example, but noticed that the standard deviations were different in each files (I am a grad student.... my initial thought was that the standard deviation was calculated from different sample expression levels. But this doesn't seem to be the case). Thus, without the STDV value, I feel like I may be missing something crucial.
Looking for advice