Bioinformatics AdvancesBioinformaticsPeer-reviewed journal article
MotifPeeker: Benchmarking epigenomic profiling methods using motifs
Hiranyamaya DashiD, Thomas RobertsiD, Maria WeinertiD, Nathan SkeneiD
Abstract
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 ImplementationMotifPeeker 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.
- Citations
- 0
- FWCI
- 0.00
- Field percentile
- 8th percentile
Reproducibility ledger
Nobody has reported trying to reproduce this paper yet. Did you replicate an experiment or run the code? Your report saves the next lab a week.
Sign in to file a reproducibility report.
Related papers
- Factorbook Motif Pipeline: A de novo motif discovery and filtering web server for ChIP-seq peaks
Bong-Hyun Kim, Jiali Zhuang, … Zhiping Weng·bioRxiv·Dec 4, 2015
- EpiCompare: R package for the comparison and quality control of epigenomic peak files
Sera Choi, Brian M. Schilder, … Nathan Skene·Bioinformatics AdvancesPeer-reviewed·Jan 1, 2023
- GimmeMotifs: an analysis framework for transcription factor motif analysis
Niklas Bruse, Simon J. van Heeringen·bioRxiv·Nov 20, 2018
- MIMoSA: A Tool for Model-Independent Comparison of Transcription Factor Binding Motifs
A. V. Tsukanov, V. G. Levitsky·bioRxiv·Sep 20, 2026
- Motifizer: a tool for parsing high-throughput sequencing datasets and quantitative comparative analyses of transcription factor-binding sites
Soumen Khan, Abhik Bhattacharjee, … Yash Gaglani·bioRxiv·Apr 3, 2022
- iFORM: incorporating Find Occurrence of Regulatory Motifs
Chao Ren, Hebing Chen, … Wenjie Shu·PLOS ONEPeer-reviewed·Dec 19, 2016