PeakRanger pipeline

PeakRanger specifications

Information


Unique identifier OMICS_00451
Name PeakRanger
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Parallelization MapReduce
Computer skills Advanced
Stability Stable
High performance computing Yes
Maintained Yes

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Documentation


Publication for PeakRanger

PeakRanger citation

2014
PMCID: 4371837

[…] set for both. the data sets were then swapped and analyzed for regions with decreased levels of h3k27me3. to get the reads for histograms shown in figure 1—figure supplement 3a, the ‘wig’ module of peakranger parsed all aligned reads and counted reads within the specified regions. to find the rest-binding motif (re1), rest peak coordinates were used as input for fimo (grant et al., 2011). […]

PeakRanger institution(s)
Department of Biomedical Engineering, Stony Brook University, Stony Brook, NY, USA; Cold Spring Harbor Laboratory, One Bungtown Road, Cold Spring Harbor, NY, USA; Ontario Institute for Cancer Research, MaRS Centre, Toronto, ON, Canada; Institute for Genomics & Systems Biology, The University of Chicago, Chicago, IL, USA
PeakRanger funding source(s)
This project was funded by the iPlant Collaborative and a grant from the National Science Foundation Plant Cyberinfrastructure Program (#DBI-0735191).

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