Overall comparison of DNA methylation calls between R9 and R10 data sets across the HG002 cell line, blood, and brain samples. (A) Methylation proportions of R9 (orange) and R10 (blue) data for the HG002 cell line when binned by bisulfite (green) methylation intervals. The portions of R9 and R10 methylation distributions that agree with the bisulfite methylation range are highlighted in green. (B–D) The violin plots underneath show methylation proportions of R9 and R10 data for the HG002 cell line, brain sample, and blood sample binned according to R9 intervals. Each violin plot has lines connecting the median interval points for better visualization of methylation trends. Distributions of CpG site methylation frequencies are depicted on the right side of each panel. (E) Stacked bar charts showing the breakdown of total CpG sites per technology per sample. These sites are further subset into CpG sites with 0% methylation frequency and 100% methylation frequency (Supplemental Tables S5, S6, S8–S11).
