DESeq2 normalization – Found Difference in values when calculated manually

DESeq2 normalization – Found Difference in values when calculated manually

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Hi All,

I learnt about how DESeq2 normalises the raw read counts in statquest. It was very helpful and I tried to repeat the steps for my sample data.

But I am getting the output with minor difference – like for each sample outpu I get some difference .

Example:

 Normalised Output from DESeq2

The above is the DESeq2 normalised count which I retrieved using count() in DESeq2 library.

When I manually calculate the normalization I get the following output :

Manually calculated normalisation values

So there is difference . I’m confused why i get this different values ?

Please help me to sort this out..

Many thanks in advance..


DESeq2


normalization


difference

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