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.