DANPOS specifications

Information


Unique identifier OMICS_00502
Name DANPOS
Alternative name Dynamic Analysis of Nucleosome and Protein Occupancy by Sequencing
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python, R
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.2.2
Stability Stable
Requirements Req: rpy, numpy, Samtools
Maintained Yes

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Maintainer


  • person_outline Wei Li <>

DANPOS article

DANPOS citation

2016
PMCID: 4877666

[…] using macs2. the blind tf motif enrichment analysis was performed in these sites using homer (heinz et al., 2010). mononucleosomal reads were used to define nucleosome positions and fuzziness using danpos2 (chen et al., 2013)., high-coverage rna-seq data were used for de novo annotation capsaspora lincrnas as detailed in the supplemental experimental procedures., a.s.-p., c.b., and h.p.-a. […]

DANPOS institution(s)
Division of Biostatistics, Dan L. Duncan Cancer Center and Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA; Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, TX, USA; Department of Genetics and Institute of Diabetes, Obesity, and Metabolism, School of Medicine, University of Pennsylvania, Philadelphia, PA, USA; Center for Cancer Epigenetics, The University of Texas M.D. Anderson Cancer Center, Houston, TX, USA; Department of Biochemistry and Molecular Biology, The University of Texas M.D. Anderson Cancer Center, Houston, TX, USA; Department of Molecular Carcinogenesis, Science Park, The University of Texas M.D. Anderson Cancer Center, Houston, TX, USA
DANPOS funding source(s)
Supported in part by Cancer Prevention and Research Institute of Texas grant RP110471-C3, DOD grant PC094421, and 973 project 2010CB944900 of China and NIH grant HG004840.

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Easy to download and run. Minimal dependencies.