I have Gene expression data 76 samples from one chip that is U133a2 and 2 samples from another chip HuGene-2-0.1v2 .
With U133a2 i have 76 cancer samples because i was not getting control so i used control from HuGene-2-0.1v2 .
After normalising seperately both data from RMA affy package. i manually calculated foldchange by taking average of all 76 samples and 2 control.
Now i want to run one-way unpaired annova and pvalue for this samples .
How can i this.