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This is the development version of ribosomeProfilingQC; for the stable release version, see ribosomeProfilingQC.

Ribosome Profiling Quality Control

Bioconductor version: Development (3.20)

Ribo-Seq (also named ribosome profiling or footprinting) measures translatome (unlike RNA-Seq, which sequences the transcriptome) by direct quantification of the ribosome-protected fragments (RPFs). This package provides the tools for quality assessment of ribosome profiling. In addition, it can preprocess Ribo-Seq data for subsequent differential analysis.

Author: Jianhong Ou [aut, cre] , Mariah Hoye [aut]

Maintainer: Jianhong Ou <jianhong.ou at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

ribosomeProfilingQC Vignette HTML R Script
Reference Manual PDF


biocViews Coverage, GeneRegulation, QualityControl, RiboSeq, Sequencing, Software, Visualization
Version 1.17.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License GPL (>=3) + file LICENSE
Depends R (>= 4.0), GenomicRanges
Imports AnnotationDbi, BiocGenerics, Biostrings, BSgenome, EDASeq, GenomicAlignments, GenomicFeatures, GenomeInfoDb, IRanges, methods, motifStack, rtracklayer, Rsamtools, RUVSeq, Rsubread, S4Vectors, XVector, ggplot2, ggfittext, scales, ggrepel, utils, cluster, stats, graphics, grid, txdbmaker, ggExtra
System Requirements
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Suggests RUnit, BiocStyle, knitr, BSgenome.Drerio.UCSC.danRer10, edgeR, DESeq2, limma, ashr, testthat, rmarkdown, vsn, Biobase
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Follow Installation instructions to use this package in your R session.

Source Package ribosomeProfilingQC_1.17.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) ribosomeProfilingQC_1.17.0.tgz
macOS Binary (arm64) ribosomeProfilingQC_1.17.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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