DOI: 10.18129/B9.bioc.recoup    

An R package for the creation of complex genomic profile plots

Bioconductor version: Release (3.6)

recoup calculates and plots signal profiles created from short sequence reads derived from Next Generation Sequencing technologies. The profiles provided are either sumarized curve profiles or heatmap profiles. Currently, recoup supports genomic profile plots for reads derived from ChIP-Seq and RNA-Seq experiments. The package uses ggplot2 and ComplexHeatmap graphics facilities for curve and heatmap coverage profiles respectively.

Author: Panagiotis Moulos <moulos at>

Maintainer: Panagiotis Moulos <moulos at>

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biocViews ChIPSeq, Coverage, GeneExpression, Preprocessing, QualityControl, RNASeq, Sequencing, Software
Version 1.6.0
In Bioconductor since BioC 3.3 (R-3.3) (2 years)
License GPL (>= 3)
Depends GenomicRanges, GenomicAlignments, ggplot2, ComplexHeatmap
Imports BiocGenerics, biomaRt, circlize, graphics, grDevices, methods, rtracklayer, plyr, stats, utils
Suggests grid, GenomeInfoDb, Rsamtools, BiocStyle, knitr, rmarkdown, zoo, RUnit, BiocInstaller, BSgenome, RSQLite, RMySQL
Enhances parallel
Depends On Me
Imports Me
Suggests Me
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