BroadPeak pipeline
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
library_books
BroadPeak: a novel algorithm for identifying broad peaks in diffuse ChIP-seq datasets.
2013 Bioinformatics
PMID: 23300134
BroadPeak IN pipeline
call_split
Enrichment of schizophrenia heritability in both neuronal and glia cell regulatory elements
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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