Ribosome Profiling Data Analysis: from BAM to Data Representation and Interpretation

Bioconductor version: Release (3.19)

Starting with a BAM file, this package provides the necessary functions for quality assessment, read start position recalibration, the counting of reads on CDS, 3'UTR, and 5'UTR, plotting of count data: pairs, log fold-change, codon frequency and coverage assessment, principal component analysis on codon coverage.

Author: Alexandra Popa

Maintainer: A. Popa <alexandra.mariela.popa at gmail.com>

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


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

Analysing Ribo-Seq data with the "RiboProfiling" package PDF R Script
Reference Manual PDF


biocViews Alignment, Coverage, PrincipalComponent, QualityControl, RiboSeq, Sequencing, Software
Version 1.34.0
In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)
License GPL-3
Depends R (>= 3.5.0), Biostrings
Imports BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, reshape2, GenomicFeatures, grid, plyr, S4Vectors, GenomicAlignments, ggplot2, ggbio, Rsamtools, rtracklayer, data.table, sqldf
System Requirements
See More
Suggests knitr, BiocStyle, TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome.Hsapiens.UCSC.hg19, testthat, SummarizedExperiment
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package RiboProfiling_1.34.0.tar.gz
Windows Binary RiboProfiling_1.34.0.zip
macOS Binary (x86_64) RiboProfiling_1.34.0.tgz
macOS Binary (arm64) RiboProfiling_1.34.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/RiboProfiling
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RiboProfiling
Bioc Package Browser https://code.bioconductor.org/browse/RiboProfiling/
Package Short Url https://bioconductor.org/packages/RiboProfiling/
Package Downloads Report Download Stats