OpTiles: an R package for adaptive tiling and methylation variability profiling

TL;DR

OpTiles is an R package that improves methylation analysis by dynamically defining tiling windows based on CpG distribution and variability.

Contribution

The package introduces an adaptive tiling method that integrates CpG density and methylation variability for more reliable methylation profiling.

Findings

OpTiles dynamically defines tiling windows based on sequenced CpG distribution.

It provides a reliability metric by integrating CpG density and intra-region methylation variability.

The package offers extended functionality for methylation data annotation and interpretation.

Abstract

OpTiles is an R package that dynamically defines tiling windows based on the distribution of sequenced CpGs, addressing the limitations of traditional fixed-tiling approaches in targeted methylation datasets. By integrating CpG density with intra-region methylation variability, it provides a reliability metric and extended functionality for annotating, prioritizing, and interpreting complex methylation data.

OpTiles is implemented in R and source code is freely available at https://github.com/fhaive/OpTiles. Data are available on Zenodo at https://doi.org/10.5281/zenodo.16961292.

Figures