normalization
Count normalization with DESeq2 | Introduction to DGE (hbctraining.github.io)
Count normalization with DESeq2
Approximate time: 60 minutes Learning Objectives Explore different types of normalization methods Become familiar with the DESeqDataSet object Understand how to normalize counts using DESeq2 Normalization The first step in the DE analysis workflow is count
hbctraining.github.io
NOTE: DESeq2 doesn’t actually use normalized counts, rather it uses the raw counts and models the normalization inside the Generalized Linear Model (GLM). These normalized counts will be useful for downstream visualization of results, but cannot be used as input to DESeq2 or any other tools that peform differential expression analysis which use the negative binomial model.
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