DOI: 10.18129/B9.bioc.ProteoDisco    

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

Bioconductor version: Release (3.16)

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>

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biocViews DataImport, Proteomics, RNASeq, SNP, Sequencing, Software, VariantAnnotation
Version 1.4.0
In Bioconductor since BioC 3.14 (R-4.1) (1 year)
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)
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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