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Normalization of BS-seq data between different batches
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9 months ago
Shicheng Guo ♦ 7.5k

Which method is most suitable for normalization to BS-seq data between different batches? Is it necessary to do it because each value has been calculated by mCG/umCG in each files?

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9 months ago
Freiburg, Germany

I assume you're using the raw methylated-CpG and unmethlyated-CpG counts, in which case you can just enter batch into your GLM. If you're actually using a ratio then I haven't a clue how you intend to analyse the results in the first place.

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