Package: rnaends
Title: RNA-ends sequencing specialized package featuring pre-processing, mapping, quantification and analysis of 5'-end or 3'-end RNAs sequencing data
Version: 1.0.0
Authors@R: c(
    person("Roland", "Barriot", , "roland.barriot@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-0298-2696")),
    person("Tomas", "Caetano", role = "aut",
           comment = c(ORCID = "0009-0008-4678-2796")),
    person("Gwennaele", "Fichant", role = "ctb",
           comment = c(ORCID = "0000-0001-5480-0239")),
    person("Peter", "Redder", role = "ctb",
           comment = c(ORCID = "0000-0002-3619-632X"))
  )
Description: The rnaends R package focuses on exact 5'-end and/or 3'-end quantification of RNAs via targeted RNA-Seq.
License: GPL (>= 3)
Imports: 
    tidyverse (>= 2.0.0),
    ggupset (>= 0.4),
    DSS (>= 2.48.0),
    Rbowtie (>= 1.42.0),
    Rsamtools (>= 2.16.0),
    Rsubread (>= 2.16.0),
    ShortRead (>= 1.58.0),
    survcomp (>= 1.52.0),
    VGAM (>= 1.1-9)
Remotes:
    bioc/Biostrings,
    bioc/DSS,
    bioc/Rbowtie,
    bioc/Rsamtools,
    bioc/Rsubread,
    bioc/ShortRead,
    bioc/survcomp
Suggests: 
    knitr (>= 1.49),
    rmarkdown (>= 2.29),
    testthat (>= 3.0.0)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
LazyData: true
VignetteBuilder: knitr
Depends: 
    R (>= 4.4.2)