Package: strandCheckR
Type: Package
Title: Calculate strandness information of a bam file
Version: 1.22.0
Authors@R: c(
    person("Thu-Hien", "To", , "tothuhien@gmail.com", c("aut", "cre")),
    person("Steve", "Pederson", , "stephen.pederson@adelaide.edu.au", c("aut"))
    )
Maintainer: Thu-Hien To <tothuhien@gmail.com>
Description: This package aims to quantify and remove putative double strand DNA from a strand-specific RNA sample. There are also options and methods to plot the positive/negative proportions of all sliding windows, which allow users to have an idea of how much the sample was contaminated and the appropriate threshold to be used for filtering.
URL: https://github.com/UofABioinformaticsHub/strandCheckR
BugReports: https://github.com/UofABioinformaticsHub/strandCheckR/issues
License: GPL (>= 2)
Encoding: UTF-8
Imports: dplyr, magrittr, GenomeInfoDb, GenomicAlignments,
        GenomicRanges, IRanges, Rsamtools, S4Vectors, grid,
        BiocGenerics, ggplot2, reshape2, stats, gridExtra,
        TxDb.Hsapiens.UCSC.hg38.knownGene, methods, stringr, rmarkdown
biocViews: RNASeq, Alignment, QualityControl, Coverage, ImmunoOncology
RoxygenNote: 6.1.1
VignetteBuilder: knitr
Suggests: BiocStyle, knitr, testthat
git_url: https://git.bioconductor.org/packages/strandCheckR
git_branch: RELEASE_3_19
git_last_commit: e0e1f75
git_last_commit_date: 2024-04-30
Repository: Bioconductor 3.19
Date/Publication: 2024-04-30
NeedsCompilation: no
Packaged: 2024-05-01 05:17:12 UTC; biocbuild
Author: Thu-Hien To [aut, cre],
  Steve Pederson [aut]
Built: R 4.4.0; ; 2024-05-01 12:23:25 UTC; unix
