Normalization read counts scRNA seq with spike ins
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4.2 years ago
tetapunto • 0

Hi,

I'm working with data obtained with sc-RNA seq where we used ERCC spike In to control for transcriptional amplification. I have some troubles with read counts normalization.

My question is: Is it possible to normalize read counts from a cell with the sum of spike ins read counts in that cell?

RNA-Seq sequencing • 1.6k views
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Entering edit mode

Your question sounds similar to SAMstrt. Maybe you can take a look.

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