DOI: 10.18129/B9.bioc.profileplyr  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see profileplyr.

Visualization and annotation of read signal over genomic ranges with profileplyr

Bioconductor version: 3.17

Quick and straightforward visualization of read signal over genomic intervals is key for generating hypotheses from sequencing data sets (e.g. ChIP-seq, ATAC-seq, bisulfite/methyl-seq). Many tools both inside and outside of R and Bioconductor are available to explore these types of data, and they typically start with a bigWig or BAM file and end with some representation of the signal (e.g. heatmap). profileplyr leverages many Bioconductor tools to allow for both flexibility and additional functionality in workflows that end with visualization of the read signal.

Author: Tom Carroll and Doug Barrows

Maintainer: Tom Carroll <tc.infomatics at>, Doug Barrows <doug.barrows at>

Citation (from within R, enter citation("profileplyr")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Visualization and annotation of read signal over genomic ranges with profileplyr
PDF   Reference Manual
Text   NEWS


biocViews ChIPSeq, ChipOnChip, Coverage, DataImport, Sequencing, Software
Version 1.16.0
In Bioconductor since BioC 3.9 (R-3.6) (4.5 years)
License GPL (>= 3)
Depends R (>= 3.6), BiocGenerics, SummarizedExperiment
Imports GenomicRanges, stats, soGGi, methods, utils, S4Vectors, R.utils, dplyr, magrittr, tidyr, IRanges, rjson, ChIPseeker, GenomicFeatures, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, TxDb.Mmusculus.UCSC.mm9.knownGene,,, rGREAT, pheatmap, ggplot2, EnrichedHeatmap, ComplexHeatmap, grid, circlize, BiocParallel, rtracklayer, GenomeInfoDb, grDevices, rlang, tiff, Rsamtools
Suggests BiocStyle, testthat, knitr, rmarkdown, png, Cairo
Depends On Me
Imports Me
Suggests Me DiffBind
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package profileplyr_1.16.0.tar.gz
Windows Binary
macOS Binary (x86_64) profileplyr_1.16.0.tgz
macOS Binary (arm64) profileplyr_1.16.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: