BroadPeak protocols

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description
BroadPeak computational protocol

BroadPeak specifications

Information


Unique identifier OMICS_00433
Name BroadPeak
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output data A file of the genomic locations of broad peaks.
Output format BED
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline I. King Jordan <>

Publication for BroadPeak

BroadPeak IN pipeline

2018
PMCID: 5802526
PMID: 29317610
DOI: 10.1038/s41398-017-0053-y

[…] stem cell-derived neurons were generated by the epigenomics roadmap7. preprocessed broad peak calls for h3k4me3 were downloaded from http://egg2.wustl.edu/roadmap/data/byfiletype/peaks/consolidated/broadpeak/. peaks with a negative log10 p-value of 5 or greater were retained for further analysis, as described in the original macs protocol10., h3k4me3 chip-sequencing data from neun-positive […]

BroadPeak institution(s)
School of Biology, Georgia Institute of Technology, Atlanta, GA, USA; Buck Institute for Age Research, Novato, CA, USA; PanAmerican Bioinformatics Institute, Santa Marta, Magdalena, Colombia
BroadPeak funding source(s)
Supported by Alfred P. Sloan Research Fellowship in Computational and Evolutionary Molecular Biology [BR-4839] and Buck Institute Trust Fund.

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