Normalized counts bulk RNA-seq to DEGs

Question

[t.ru]

Hi,

I have a RNA-seq count matrix and normalized by DESeq2. Unfortunately, I need to improve a workflow to find DEGs from the normalized count. I already checked edgeR, DESeq2 and limma. However, they required un-normalized count matrix. Do you have any suggestion? Thanks.

[Basti]

I do not understand your question, you said you started with a count matrix that you normalized with DESeq2. Why don't you follow the DESeq2 workflow until the end ?

[t.ru]

I only have output as normalized counts. I did not do that part.

[ATpoint]

Then ask for raw counts. Analysis is anyway not reproducible and hence not publishable without the raw data at hand.

[ATpoint]

Follow up on DESeq2 for different design and normalized counts and your many previous questions from which many received no upvotes or accepts.

Answer 1

[LauferVA]

You need to go to the source manuscript and obtain raw data. What is the dataset you are trying to analyze