al2na / methylKit

R package for DNA methylation analysis
https://bioconductor.org/packages/release/bioc/html/methylKit.html
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Is it necessary that using normalization before doing dmr calling ? #294

Closed DengEr-1993 closed 1 year ago

DengEr-1993 commented 1 year ago

Hi @alexg9010 ,

A small question about dmr calling.

I read the tutorial here before

6.0.7 Should I normalize my data ?

It means that it is better to do normalization before dmr calling.

I don't know if I don't do this step, is that ok ?

Best, xiangyi

alexg9010 commented 1 year ago

Hi @DengEr-1993,

Normalisation is recommended if your samples are showing large differences in their coverage distribution. That being said, it should not harm if you are doing it by default.

Best, Alex

DengEr-1993 commented 1 year ago

@alexg9010 Thanks !