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Differential pattern analysis for Ribo-seq data

Bioconductor version: Release (3.19)

This package performs differential pattern analysis for Ribo-seq data. It identifies genes with significantly different patterns in the ribosome footprint between two conditions. RiboDiPA contains five major components including bam file processing, P-site mapping, data binning, differential pattern analysis and footprint visualization.

Author: Keren Li [aut], Matt Hope [aut], Xiaozhong Wang [aut], Ji-Ping Wang [aut, cre]

Maintainer: Ji-Ping Wang <jzwang at>

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


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:

RiboDiPA HTML R Script
Reference Manual PDF


biocViews Alignment, Coverage, DataImport, DifferentialExpression, GeneExpression, GeneRegulation, ImmunoOncology, Normalization, QualityControl, RNASeq, RiboSeq, Sequencing, Software
Version 1.12.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License LGPL (>= 3)
Depends R (>= 4.1), Rsamtools, GenomicFeatures, GenomicAlignments
Imports Rcpp (>= 1.0.2), graphics, stats, data.table, elitism, methods, S4Vectors, IRanges, GenomicRanges, matrixStats, reldist, doParallel, foreach, parallel, qvalue, DESeq2, ggplot2, BiocFileCache, BiocGenerics, txdbmaker
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Follow Installation instructions to use this package in your R session.

Source Package RiboDiPA_1.12.0.tar.gz
Windows Binary
macOS Binary (x86_64) RiboDiPA_1.12.0.tgz
macOS Binary (arm64) RiboDiPA_1.12.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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