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Piranha

A peak-calling tool based on the zero-truncated negative binomial regression model that is able to incorporate external information to guide the site identification process. Piranha can also optionally use additional external covariates into the peak-calling process, and identify sites of differential binding occupancy between cell types, conditions or development stages. Transcript abundance influences the read counts at sites in IP datasets and Piranha can successfully incorporate RNA-seq control data to ameliorate this bias. By considering this additional information, more accurate peak calls are arrived at.

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Piranha classification

Piranha specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Python
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS
License:
GNU General Public License version 3.0
Version:
1.2.1
Requirements:
GNU scientific, BAMtools, GCC

Piranha distribution

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Piranha support

Maintainer

  • Andrew Smith <>

Credits

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Publications

Institution(s)

Molecular and Computational Biology, University of Southern California, Los Angeles, CA, USA

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