Fig. 3

Estimates of methylation per CpG across the genome for HG002. All samples visualized here were downsampled to 20× mean coverage per CpG. a Methylation percentage distributions per assay. b Methylation bias (mbias) plots showing mean methylation per base for short-read assays (Nanopore excluded here). Dotted lines indicate recommended cutoffs for methylation calling for these data. Original top/bottom refer to mappings to bisulfite-converted strands in the reference genome. c Metagene plot showing mean methylation across genomic feature per assay. Promoter regions span 1 kb upstream of transcript start sites (TSS). d Mean methylation curves surrounding TSS across all genes. e Pearson correlation matrix of genome-wide methylation estimates. f Pearson correlation matrix of methylation estimates for sites where methylation was estimated to be between 20 and 80%. g Methylation percentage correlation between Oxford Nanopore and all other assays. Pearson correlation values shown on top. Marginal histograms show methylation curves per assay