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Version 1. F1000Res. 2015 May 1;4:105. doi: 10.12688/f1000research.6379.1. eCollection 2015.

regionReport: Interactive reports for region-based analyses.

Author information

1
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, 21205, USA; Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, Maryland, 21205, USA; Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland, 21205, USA.
2
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, 21205, USA; Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, Maryland, 21205, USA; Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland, 21205, USA; Department of Mental Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, 21205, USA.
3
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, 21205, USA; Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland, 21205, USA.

Abstract

regionReport is an R package for generating detailed interactive reports from regions of the genome. The report includes quality-control checks, an overview of the results, an interactive table of the genomic regions and reproducibility information. regionReport can easily be expanded with report templates for other specialized analyses. In particular, regionReport has an extensive report template for exploring derfinder results from annotation-agnostic RNA-seq differential expression analyses.

KEYWORDS:

ChIP-seq; Genomics; Interactive; RNA-seq; Report; Reproducibility; Sequencing; Software

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