DMRforPairs specifications

Information


Unique identifier OMICS_04059
Name DMRforPairs
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.17.0
Stability Stable
Requirements
parallel, R(>=2.15.2), Gviz(>=1.2.1), R2HTML(>=2.2.1), GenomicRanges(>=1.10.7)
Maintained Yes

Versioning


No version available

Documentation


Publication for DMRforPairs

DMRforPairs citations

 (2)
library_books

Genome Wide DNA Methylation Profiles Provide Clues to the Origin and Pathogenesis of Germ Cell Tumors

2015
PLoS One
PMCID: 4479500
PMID: 25859847
DOI: 10.1371/journal.pone.0122146

[…] lines were compared to tumor samples in the evaluation of specific regions of interest in the tumor samples and with regard to their global methylation profile. Moreover, they were analyzed using the DMRforPairs package to identify specific DMR in these unique samples ([], using the default settings except min_dM = 0.9, see above). For the NCCIT and TCam-2 cell lines this analysis matches the one […]

library_books

Seminoma and Embryonal Carcinoma Footprints Identified by Analysis of Integrated Genome Wide Epigenetic and Expression Profiles of Germ Cell Cancer Cell Lines

2014
PLoS One
PMCID: 4041891
PMID: 24887064
DOI: 10.1371/journal.pone.0098330

[…] The DMRforPairs algorithm was used to identify differentially methylated regions (DMR) . The algorithm was set to detect strong differences, i.e. using stringent settings. Regions containing a minimum of […]

DMRforPairs institution(s)
Department of Pathology, Laboratory for Experimental Patho-Oncology, Erasmus MC - University Medical Center Rotterdam, Rotterdam, Netherlands

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