RNA-seq z-score normalization

RNA-seq z-score normalization

1

Hi!

I have RNA-seq data that I have put into DeSeq2 (R) for analysis and I would like to create heatmaps. I have also run my data using the gsea software from the broad institute and I would like to replicate the heatmaps that come out of that in R. I assume that what the software does, is normalise the data using Z score. I have already log2 transformed the data using two methods:

  1. vst transformation
  2. a simple equation as seen in a previous post ( tdata <- log2(counts + 1))

There are previous forums on Z score normalisation, but they don’t explain how to actually do this in R. Would anyone know the code for performing this normalisation?

Thank you in advance!


normalisation


DESEq2


RNA-seq


z-score

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