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

Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences

Bioconductor version: Development (3.20)

ProteoDisco is an R package to facilitate proteogenomics studies. It houses functions to create customized (variant) protein databases based on user-submitted genomic variants, splice-junctions, fusion genes and manual transcript sequences. The flexible workflow can be adopted to suit a myriad of research and experimental settings.

Author: Job van Riet [cre], Wesley van de Geer [aut], Harmen van de Werken [ths]

Maintainer: Job van Riet <jobvriet at>

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


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:

Overview_Proteodisco HTML R Script
Reference Manual PDF


biocViews DataImport, Proteomics, RNASeq, SNP, Sequencing, Software, VariantAnnotation
Version 1.11.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License GPL-3
Depends R (>= 4.1.0)
Imports BiocGenerics(>= 0.38.0), BiocParallel(>= 1.26.0), Biostrings(>= 2.60.1), checkmate (>= 2.0.0), cleaver(>= 1.30.0), dplyr (>= 1.0.6), GenomeInfoDb(>= 1.28.0), GenomicFeatures(>= 1.44.0), GenomicRanges(>= 1.44.0), IRanges(>= 2.26.0), methods (>= 4.1.0), ParallelLogger (>= 2.0.1), plyr (>= 1.8.6), rlang (>= 0.4.11), S4Vectors(>= 0.30.0), tibble (>= 3.1.2), tidyr (>= 1.1.3), VariantAnnotation(>= 1.36.0), XVector(>= 0.32.0)
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Suggests AnnotationDbi(>= 1.54.1), BSgenome(>= 1.60.0), BSgenome.Hsapiens.UCSC.hg19(>= 1.4.3), BiocStyle(>= 2.20.1), DelayedArray(>= 0.18.0), devtools (>= 2.4.2), knitr (>= 1.33), matrixStats (>= 0.59.0), markdown (>= 1.1),>= 3.13.0), purrr (>= 0.3.4), RCurl (>=, readr (>= 1.4.0), ggplot2 (>= 3.3.5), rmarkdown (>= 2.9), rtracklayer(>= 1.52.0), seqinr (>= 4.2.8), stringr (>= 1.4.0), reshape2 (>= 1.4.4), scales (>= 1.1.1), testthat (>= 3.0.3), TxDb.Hsapiens.UCSC.hg19.knownGene(>= 3.2.2)
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Follow Installation instructions to use this package in your R session.

Source Package ProteoDisco_1.11.0.tar.gz
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macOS Binary (x86_64) ProteoDisco_1.11.0.tgz
macOS Binary (arm64) ProteoDisco_1.11.0.tgz
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Source Repository (Developer Access) git clone
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