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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
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Gordon Smyth
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Since the intra-block correlation is negative, it would be best to remove `block` from the model.
My experience with genetically identical…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
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Thank you! This is actually quite close to my real dataset. I simplified the names to make it easier as an example, but I have now correcte…
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Hi Xiaofei,
Is it possible to generate a matrix of beta values or M-values with rownames as probe IDs from this data? If so, cpg.annotate(…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
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That looks basically correct, although the terms that you are inputing to `makeContrasts` do not match the condition names in the targets f…
Comment: Normalizing batch effects using technical replicates for DGE analysis between tw
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Oh, right. There's two ways to enter code. If you are in the middle of a sentence and you want to include a function name, you wrap the nam…
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