I need help with a methyl array data analysis

Question

[Ahmad]

I have methyl array data in beta value of 2 groups of sample, how I can stat the downstream analysis by r to get DMPs and DMRs?

[prasundutta87]

Did you come across this?

Appropriate Pipeline for Methylation EPIC array analysis?

Regards, Prasun

[Ahmad]

Thank you, I will check it out

[Decimus Maximus]

It seems the data appears to be in the beta value format (?), which represents the proportion of methylated probe intensity over the total (methylated + unmethylated) probe intensities. One note regarding your data, it is important to have replicates in your samples to increase the statistical power and robustness of your results.

Is your data in the dataframe (df)?

[Ahmad]

I actually have replicates.

thank you