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PeakAnalyzer | Genome-wide annotation of chromatin binding and modification loci

Allows users to process genomic loci with an emphasis on datasets consisting of ChIP-derived signal peaks. PeakAnalyzer is an open source software composed of two main functions: (i) PeakSplitter that aims to improve individual subpeaks’ analysis, and (ii) PeakAnnotator aims to provide an automated annotation of experimental results. The components can be executed simultaneously through a graphic interface or separately in command-line mode.

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PeakAnalyzer forum

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PeakAnalyzer classification

PeakAnalyzer specifications

Unique identifier:
Command line interface, Graphical user interface
Input data:
A single peak file and a feature annotation file.
Operating system:
Unix/Linux, Mac OS, Windows
MIT License
Software type:
Restrictions to use:
Input format:
Programming languages:
C++, Java
Computer skills:


  • PeakSplitter
  • PeakAnnotator

PeakAnalyzer distribution


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PeakAnalyzer support


  • Mali Salmon-Divon <>
  • Paul Bertone <>

Additional information


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EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK; Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden

Funding source(s)

Supported by from EMBL and BBSRC grant BBG0156781.

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.