Methylation data analysis

Question

[elifotograf]

Hello!

I have a .txt file with beta values at different cpg sites from different samples originating from infinium methylation epic beadchip array. How would you proceed to analyze this data? I would like to check the methylation status of certain genes and how they differ between the samples.

Thanks!

Answer 1

[Ming Tommy Tang]

This will help https://www.bioconductor.org/packages/devel/workflows/vignettes/methylationArrayAnalysis/inst/doc/methylationArrayAnalysis.html