MethylGrapher: genome-graph-based processing of DNA methylation data from whole genome bisulfite sequencing.

ABSTRACT: Genome graphs, including the recently released draft human pangenome graph, can represent the breadth of genetic diversity and thus transcend the limits of traditional linear reference genomes. However, there are no genome-graph-compatible tools for analyzing whole genome bisulfite sequencing (WGBS) data. To close this gap, we introduce methylGrapher, a tool tailored for accurate DNA methylation analysis by mapping WGBS data to a genome graph. Notably, methylGrapher can reconstruct methylation patterns along haplotype paths precisely and efficiently. To demonstrate the utility of methylGrapher, we analyzed the WGBS data derived from five individuals whose genomes were included in the first Human Pangenome draft as well as WGBS data from ENCODE (EN-TEx). Along with standard performance benc

SUBMITTER: Zhang W 

PROVIDER: S-EPMC11770346 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature