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February 19, 2026Bioinformatics Advances0 citationsOpen Access

MotifPeeker: Benchmarking epigenomic profiling methods using motifs

HDHiranyamaya Dash TRThomas Roberts MWMaria Weinert

Key Points

The aim is to benchmark epigenomic profiling methods targeting transcription factors using motif enrichment.
Used a single function for data analysis with minimal input.
Generated intuitive HTML reports for user accessibility.
Available on Bioconductor and GitHub for wider reach.
Provides a user-friendly tool for analysing epigenomic data.
Motif enrichment serves as a key metric for assessment.
Accessible via Docker, enhancing usability in diverse environments.

Abstract

Abstract Summary MotifPeeker benchmarks epigenomic profiling methods targeting transcription factors (TFs) where no “gold standard” reference exists, using motif enrichment as a key metric. With minimal input, users can analyse their data in a single function and receive an intuitive HTML report. Availability and implementation MotifPeeker is available on Bioconductor (≥ v3.21) at https://bioconductor.org/packages/MotifPeeker. The complete source code is available on GitHub at https://github.com/neurogenomics/MotifPeeker, with full documentation provided at https://neurogenomics.github.io/MotifPeeker. Additionally, the MotifPeeker Docker image is hosted on GitHub at https://github.com/neurogenomics/MotifPeeker/pkgs/container/motifpeeker.

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