ArticleBioinformatics advances2025
FAIRification of the DMRichR pipeline: advancing epigenetic research on environmental and evolutionary model organisms.
Article in Bioinformatics advances, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Summary: Bioinformatics tools often prioritize humans or human-related model organisms, overlooking the requirements of environmentally relevant species, which limits their use in ecological research. This gap is particularly challenging when implementing existing software, as inadequate documentation can delay the innovative use of environmental models for modern risk assessment of chemicals that can cause aberration in methylation patterns. The establishment of fairness in ecological and evolutionary studies is already constrained by more limited resources in these fields of study, and an additional imbalance in tool availability further hinders comprehensive ecological research.To address these gaps, we adapted the DMRichR package, a tool for epigenetic analysis, for use with custom, non-model genomes. As an example, we here use the crustacean Availability and implementation: Code and data are available at https://github.com/wassimsalam01/DMRichR-FAIRification and at https://github.com/folkehelseinstituttet/DMRichR-FAIRification as well as DOI 10.5281/zenodo.13366959. This work is open-source software available under the GNU Affero General Public License (AGPL) version 3.0.
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