Batch effects
Hi!
I'm new at bioinformatics and I'm working with a project where I combine several datasets from GEO. I retrieve the data from GREIN(GEO RNA-seq Experiment Interactive Navigator) which has processed all the datasets in the same way. They provide raw and normalised data.
My question is when and how do I correct for batch effects?
Thanks a lot!
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BioQueen •
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You have to download the raw dataset and correct for batch effects accordingly.
Ok, thanks so I can't do it after normalization?
I am sorry for the confusion, you can perform batch effect correction even after normalization!