Package: DNAfusion
Title: Identification of gene fusions using paired-end sequencing
Version: 1.14.0
biocViews: TargetedResequencing, Genetics, GeneFusionDetection,
        Sequencing
Authors@R: 
    c(person(given = "Christoffer Trier", family = "Maansson", , email = "ctm@clin.au.dk", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-3071-3437")),
    person(given = "Emma Roger", family = "Andersen", , email = "201907412@post.au.dk", role = c("ctb", "rev")),
    person(given = "Maiken Parm", family = "Ulhoi", , email = "maiken@oncology.au.dk", role = "dtc"),
    person(given = "Peter", family = "Meldgaard", , email = "petemeld@rm.dk", role = "dtc"),
    person(given = "Boe Sandahl", family = "Sorensen", , email = "b.sorensen@clin.au.dk", role = c("rev", "fnd")))
Description: DNAfusion can identify gene fusions such as EML4-ALK
  based on paired-end sequencing results.
  This package was developed using position deduplicated BAM
  files generated with the AVENIO Oncology Analysis Software. These files are made using
  the AVENIO ctDNA surveillance kit and Illumina Nextseq 500 sequencing. This is a targeted 
  hybridization NGS approach and includes ALK-specific but not EML4-specific probes. 
License: GPL-3
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Suggests: knitr, rmarkdown, testthat, sessioninfo, BiocStyle
VignetteBuilder: knitr
Imports: GenomicRanges, IRanges, Rsamtools, GenomicAlignments,
        BiocBaseUtils, S4Vectors, GenomicFeatures,
        TxDb.Hsapiens.UCSC.hg38.knownGene, BiocGenerics
Depends: R (>= 4.4.0)
BugReports: https://github.com/CTrierMaansson/DNAfusion/issues
URL: https://github.com/CTrierMaansson/DNAfusion
git_url: https://git.bioconductor.org/packages/DNAfusion
git_branch: RELEASE_3_23
git_last_commit: 6e7ecfb
git_last_commit_date: 2026-04-28
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28
NeedsCompilation: no
Packaged: 2026-04-28 22:01:17 UTC; biocbuild
Author: Christoffer Trier Maansson [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-3071-3437>),
  Emma Roger Andersen [ctb, rev],
  Maiken Parm Ulhoi [dtc],
  Peter Meldgaard [dtc],
  Boe Sandahl Sorensen [rev, fnd]
Maintainer: Christoffer Trier Maansson <ctm@clin.au.dk>
Built: R 4.6.0; ; 2026-04-29 04:40:56 UTC; unix
