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polyaPeak

An R package for ranking ChIP-seq peaks with shape information. polyaPeak uses a Bayesian hierarchical model to incorporate the peak shapes in the ranking. The shapes are described by a mixture of multivariate Polya distributions. Real data analyses show that polyaPeak outperforms several popular peak calling software including MACS, CisGenome and PICS.

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polyaPeak classification

polyaPeak specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
R
Stability:
Stable
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Maintained:
Yes

polyaPeak distribution

versioning

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No versioning.

Credits

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Publications

Institution(s)

Department of Biostatistics and Bioinformatics, Emory University, Atlanta, GA, USA; Department of Biostatistics, Johns Hopkins University, Baltimore, MD, USA

Link to literature

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