Package: VarCon
Type: Package
Title: VarCon: an R package for retrieving neighboring nucleotides of
        an SNV
Version: 1.9.0
Description: VarCon is an R package which converts the positional information from the annotation of an single nucleotide variation (SNV) (either referring to the coding sequence or the reference genomic sequence). It retrieves the genomic reference sequence around the position of the single nucleotide variation. To asses, whether the SNV could potentially influence binding of splicing regulatory proteins VarCon calcualtes the HEXplorer score as an estimation. Besides, VarCon additionally reports splice site strengths of splice sites within the retrieved genomic sequence and any changes due to the SNV.
License: GPL-3
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
Imports: methods, stats, IRanges, shiny, shinycssloaders, shinyFiles,
        ggplot2
Depends: Biostrings, BSgenome, GenomicRanges, R (>= 4.1)
Suggests: testthat, knitr, rmarkdown
biocViews: FunctionalGenomics, AlternativeSplicing
RoxygenNote: 7.1.1
Authors@R: person("Johannes", "Ptok", role = c("aut", "cre"), email = "Johannes.Ptok@posteo.de")
git_url: https://git.bioconductor.org/packages/VarCon
git_branch: devel
git_last_commit: 013b4fe
git_last_commit_date: 2023-04-25
Date/Publication: 2023-05-04
NeedsCompilation: no
Packaged: 2023-05-05 03:45:20 UTC; biocbuild
Author: Johannes Ptok [aut, cre]
Maintainer: Johannes Ptok <Johannes.Ptok@posteo.de>
Built: R 4.3.0; ; 2023-05-05 14:37:45 UTC; windows
