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3 months ago
rb_99
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0
Hello,
I’m running into some issues with normalisation of gene counts. We sent samples away to a sequencing company who kindly did the normalisation for us. However, a typo in the comparison sheet means that one of the normalised gene sets is missing. This was just an exploratory analysis to see what might be going on, so I only have one biological rep. The company said they use edgeR when normalising one biological replicates but whenever I try to normalise the data on galaxy it keeps throwing error messages. Does anyone know how to normalise one biological rep and what the best tool to use would be?
Thank you
It's a one-liner in R, please see the edgeR user guide.
I have no experience with using R. I was hoping there would be something on the galaxy software I could use.
You don’t need to really know R to perform normalization. You need to just read the EdgeR user guide and effectively copy paste. It walks you through everything.