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Posts by kjkjindal
... Hi, In the counts documentation (https://www.rdocumentation.org/packages/DESeq2/versions/1.12.3/topics/counts) there is a line which implies the count matrix of a deseq object can be edited: ## S4 replacement method for signature 'DESeqDataSet,matrix' counts(object) <- value However, w ...
... Hi, that worked great. Thanks a lot Kevin! ...
... Hi, DESeq uses the following model for differential expression analysis: K_ij ~ NB(mu_ij, alpha_i) mu_ij = s_j q_ij log2(q_ij) = x_j. beta_i Is there a way to access the specific 'mu_ij' and 'alpha_i' values? I have been looking around and found **assays(dds)[['mu']]** giving something like mu ...
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