DESeq Normalisation, miRNASeq
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anshulmbi • 0
@anshulmbi-12621
Last seen 2.7 years ago

Hi, I want to perform normalization of miRNASeq data, previously I did it by DESeq2 for other data in which we have phenotype information. Currently, I don't have phenotype information till. I want to normalize data by DESeq2, whether is it possible or not without phenotype, If not which normalization will be good to normalize the miRNASeq counts. I am looking for valuable suggestions...

Thanks!!

deseq2 normalization miRNASeq • 821 views
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@mikelove
Last seen 1 minute ago
United States

DESeq2 normalization doesn't use phenotype data (e.g. variables in the design). The vst() does if you set blind=FALSE but this isn't the default, and it only uses the phenotype in assessing the global within-group variability, not in removing anything like shifts or differences between groups.