MONKEY specifications

Unique identifier:
OMICS_12882
Interface:
Command line interface
Input data:
MONKEY takes as input a multiple sequence alignment, a tree describing the relationship of the aligned species, a model of a transcription factor's binding specificity and a model for background noncoding DNA.
Operating system:
Unix/Linux
License:
GNU General Public License version 3.0
Version:
2.0
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Output data:
It returns, for each position in the alignment, a likelihood ratio comparing the probability that the position is a conserved binding site for the selected factor compared to the probability that the position is background.
Programming languages:
C++
Computer skills:
Advanced
Stability:
Stable

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MONKEY distribution

download

MONKEY support

Maintainer

  • Michael Eisen <>

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Publications

Institution(s)

Graduate Group in Biophysics, University of California, Berkeley, CA, USA; Center for Integrative Genomics, University of California, Berkeley, CA; Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA; Department of Genome Sciences, Genomics Division, Ernest Orlando Lawrence Berkeley National Lab, Berkeley, CA, USA

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