DOI: 10.18129/B9.bioc.ribosomeProfilingQC  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see ribosomeProfilingQC.

Ribosome Profiling Quality Control

Bioconductor version: 3.16

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 duke.edu>

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


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biocViews Coverage, GeneRegulation, QualityControl, RiboSeq, Sequencing, Software, Visualization
Version 1.10.0
In Bioconductor since BioC 3.11 (R-4.0) (3 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
Suggests RUnit, BiocStyle, knitr, BSgenome.Drerio.UCSC.danRer10, edgeR, limma, testthat, rmarkdown
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Source Package ribosomeProfilingQC_1.10.0.tar.gz
Windows Binary ribosomeProfilingQC_1.10.0.zip
macOS Binary (x86_64) ribosomeProfilingQC_1.10.0.tgz
macOS Binary (arm64) ribosomeProfilingQC_1.10.0.tgz
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ribosomeProfilingQC
Bioc Package Browser https://code.bioconductor.org/browse/ribosomeProfilingQC/
Package Short Url https://bioconductor.org/packages/ribosomeProfilingQC/
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