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Posts by jordan.ramilowski
Answer: A: RUVg weights in DESeq2
... Thanks for your reply Michael. Here am specifying my groups explicitly by setting the intercept to 0 (~0+treatment +W_1) so in the contrast argument I have to include an additional term for 'W_1' as otherwise I get an error (W_1 is a part of the design now) : dds <- DESeqDataSetFromMatrix( ...
... Hello, I am looking to test the mean effect of the treatment (n=1-5; depending on the case) against NC (negative controls), which can be summarized as: H0: 1/n(treatment_1—NC)+1/n(treatment_2—NC)…+…1/n(treatment_n—NC)=0. The DESeq2 code I am running is then: dds <- DESeqDataSetFromMatrix(coun ...
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