Question: Differential expression analysis of normalized expression of RNA seq data
0
gravatar for Javad
8 months ago by
Javad60
Javad60 wrote:

Dear All,

I have a normalized expression table of RNA seq data. I normally use DESeq2 but it needs raw count table not normalized data. Which R package I can use to analyse a Normalised table?

Best,

rna-seq • 433 views
ADD COMMENTlink modified 8 months ago by Benn6.6k • written 8 months ago by Javad60
1

Normalized by what method? Are there replicates?

ADD REPLYlink modified 8 months ago • written 8 months ago by ATpoint15k
1

This post from the bioconductor support site maybe of help: https://support.bioconductor.org/p/56275/

ADD REPLYlink written 8 months ago by ejm32430
0
gravatar for Benn
8 months ago by
Benn6.6k
Netherlands
Benn6.6k wrote:

None. There is no package that is able to do (sound) statistical analysis of normalized RNAseq data. Get read count data, and do what you normally do with DEseq2 or limma voom, etc.

ADD COMMENTlink modified 8 months ago • written 8 months ago by Benn6.6k
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