The respository contains example code snippet supportig the Li et al., Clinical Epigenetics publication (PMID: 33069246). Please contact if an example code is missing.
The code repository includes the following steps:
1 Array data pre-processing and DMP analysis
2 Bacon correction to control for inflation of association test statistics and QQ plots before and after Bacon correction
3 Manhattan plot, gene set enrichment analysis (GSEA) and over representation analysis (ORA)
4 Differentially methylated region (DMR) analysis using comb-p
5 Figure 2 plots