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DChIPRep, an R/Bioconductor package for differential enrichment analysis in chromatin studies.

ABSTRACT: The genome-wide study of epigenetic states requires the integrative analysis of histone modification ChIP-seq data. Here, we introduce an easy-to-use analytic framework to compare profiles of enrichment in histone modifications around classes of genomic elements, e.g. transcription start sites (TSS). Our framework is available via the user-friendly R/Bioconductor package DChIPRep. DChIPRep uses biological replicate information as well as chromatin Input data to allow for a rigorous assessment of differential enrichment. DChIPRep is available for download through the Bioconductor project at http://bioconductor.org/packages/DChIPRep. Contact. DChIPRep@gmail.com.

SUBMITTER: Chabbert CD

PROVIDER: S-EPMC4860309 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature

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DChIPRep, an R/Bioconductor package for differential enrichment analysis in chromatin studies.

Chabbert Christophe D CD Steinmetz Lars M LM Klaus Bernd B

PeerJ 20160426

The genome-wide study of epigenetic states requires the integrative analysis of histone modification ChIP-seq data. Here, we introduce an easy-to-use analytic framework to compare profiles of enrichment in histone modifications around classes of genomic elements, e.g. transcription start sites (TSS). Our framework is available via the user-friendly R/Bioconductor package DChIPRep. DChIPRep uses biological replicate information as well as chromatin Input data to allow for a rigorous assessment of ...[more]

PMID: 27168989

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