MONKEY specifications


Unique identifier OMICS_12882
Software type Package/Module
Interface Command line interface
Restrictions to use None
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.
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.
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes




No version available

Publication for MONKEY

MONKEY 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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