bioc-issue-bot
commented
3 years ago Hi @J0bbie
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: ProteoDisco
Type: Package
Title: Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences.
Version: 0.99.0
Date: 2021-07-26
Authors@R: c(
person("Job", "van Riet", email = "jobvriet@gmail.com", role = c("cre")),
person("Wesley", "van de Geer", email = "w.vandegeer@erasmusmc.nl", role = c("aut")),
person("Harmen", "van de Werken", email = "h.vandewerken@erasmusmc.nl", role = c("ths")))
biocViews: Software, Proteomics, RNASeq, SNP, Sequencing, VariantAnnotation, DataImport
URL: https://github.com/ErasmusMC-CCBC/ProteoDisco,
Description: ProteoDisco is an R package to facilitate proteogenomics studies.
It houses functions to create customized (mutant) 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.
License: LGPL-2.1
LazyData: FALSE
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 (>= 1.0.7),
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),
RoxygenNote: 7.1.1
Suggests:
AnnotationDbi (>= 1.54.1),
BSgenome (>= 1.60.0),
BSgenome.Hsapiens.UCSC.hg19 (>= 1.4.3),
BSgenome.Hsapiens.UCSC.hg38 (>= 1.4.3),
devtools (>= 2.4.2),
knitr (>= 1.33),
matrixStats (>= 0.59.0),
org.Hs.eg.db (>= 3.13.0),
purrr (>= 0.3.4),
RCurl (>= 1.98.1.3),
readr (>= 1.4.0),
rmarkdown (>= 2.9),
rmdformats (>= 1.0.2),
rtracklayer (>= 1.52.0),
seqinr (>= 4.2.8),
stringr (>= 1.4.0),
testthat (>= 3.0.3),
TxDb.Hsapiens.UCSC.hg19.knownGene (>= 3.2.2),
TxDb.Hsapiens.UCSC.hg38.knownGene (>= 3.13.0)
VignetteBuilder: knitr
Encoding: UTF-8
hpages
J0bbie
lshep
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