Snapper: high-sensitive detection of methylation motifs based on Oxford Nanopore reads.

ABSTRACT:

Motivation

The Oxford Nanopore technology has a great potential for the analysis of methylated motifs in genomes, including whole-genome methylome profiling. However, we found that there are no methylation motifs detection algorithms, which would be sensitive enough and return deterministic results. Thus, the MEME suit does not extract all Helicobacter pylori methylation sites de novo even using the iterative approach implemented in the most up-to-date methylation analysis tool Nanodisco.

Results

We present Snapper, a new highly sensitive approach, to extract methylation motif sequences based on a greedy motif selection algorithm. Snapper does not require manual control during the enrichment process and has enrichment sensitivity higher than MEME coupled with Tombo or Nanodi

SUBMITTER: Konanov DN 

PROVIDER: S-EPMC10689673 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature