Package: QuasR
Type: Package
Title: Quantify and Annotate Short Reads in R
Version: 1.38.0
Date: 2022-08-20
Authors@R: c(person("Anita", "Lerch", role = c("aut")),
             person("Charlotte", "Soneson", role = c("aut"), 
                    email = "charlottesoneson@gmail.com", 
                    comment = c(ORCID = "0000-0003-3833-2169")),
             person("Dimos", "Gaidatzis", role = c("aut")),
             person("Michael", "Stadler", role = c("aut", "cre"), 
                    email = "michael.stadler@fmi.ch", 
                    comment = c(ORCID = "0000-0002-2269-4934")))
Depends: R (>= 4.1), parallel, GenomicRanges, Rbowtie
Imports: methods, grDevices, graphics, utils, stats, tools,
        BiocGenerics, S4Vectors, IRanges, Biobase, Biostrings,
        BSgenome, Rsamtools (>= 2.13.1), GenomicFeatures, ShortRead,
        BiocParallel, GenomeInfoDb, rtracklayer, GenomicFiles,
        AnnotationDbi
Suggests: Gviz, BiocStyle, GenomicAlignments, Rhisat2, knitr,
        rmarkdown, covr, testthat
LinkingTo: Rhtslib (>= 1.99.1)
Encoding: UTF-8
SystemRequirements: GNU make
Description: This package provides a framework for the quantification
    and analysis of Short Reads. It covers a complete workflow
    starting from raw sequence reads, over creation of alignments
    and quality control plots, to the quantification of genomic
    regions of interest.
License: GPL-2
biocViews: Genetics, Preprocessing, Sequencing, ChIPSeq, RNASeq,
        MethylSeq, Coverage, Alignment, QualityControl, ImmunoOncology
Archs: x64
VignetteBuilder: knitr
RoxygenNote: 7.1.2
git_url: https://git.bioconductor.org/packages/QuasR
git_branch: RELEASE_3_16
git_last_commit: 0d658f7
git_last_commit_date: 2022-11-01
Date/Publication: 2022-11-01
NeedsCompilation: yes
Packaged: 2022-11-01 22:41:52 UTC; biocbuild
Author: Anita Lerch [aut],
  Charlotte Soneson [aut] (<https://orcid.org/0000-0003-3833-2169>),
  Dimos Gaidatzis [aut],
  Michael Stadler [aut, cre] (<https://orcid.org/0000-0002-2269-4934>)
Maintainer: Michael Stadler <michael.stadler@fmi.ch>
Built: R 4.2.2; x86_64-conda-linux-gnu; 2023-05-22 22:25:55 UTC; unix
