Methylmap: visualization of modified nucleotides for large cohort sizes

Elise Coopman; Marleen Van den Broeck; Tim De Pooter; Geert Joris; Dennis W. Dickson; Mojca Stražišar; Rosa Rademakers; Wouter De Coster

doi:10.1186/s12859-025-06106-3

BioinformaticsBMC BioinformaticsMar 26, 2025

Peer-reviewed journal article

Methylmap: visualization of modified nucleotides for large cohort sizes

Elise Coopman iD, Marleen Van den Broeck iD, Tim De Pooter iD, Geert Joris iD, Dennis W. Dickson iD, Mojca Stražišar iD, Rosa Rademakers iD, Wouter De Coster iD

Abstract

Methylmap is a tool developed for visualization of modified nucleotide frequencies per position, especially for large numbers of samples. Various input possibilities are supported, including the standardized BAM/CRAM files containing MM and ML tags. Availability and implementationMethylmap is written in Python3 and available through PyPI and bioconda. The source code is released under MIT license and can be found at https://github.com/EliseCoopman/methylmap.

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