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A peak caller for ChIP-Seq experiments that robustly handles short reads with *multiple* possible mappings. Releases are hosted here, but development source code is available at https://github.com/jakebiesinger/AREM.
A Google group has been set up to help with questions from the community and for announcements of new builds.
http://groups.google.com/group/arem-announcements
Features
- Assignment of probabilities to each potential alignment for repetitive sequence in NGS datasets.
- Peak calling for enrichment-based techniques, such as ChIP-Seq
- Repetitive elements
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