Package: MultipleAlignment
Title: Representation of multiple sequence alignments in Bioconductor
Description: The package implements a set of S4 classes
        (DNAMultipleAlignment, RNAMultipleAlignment,
        AAMultipleAlignment) for representing Multiple Sequence
        Alignments (MSA). The classes allow users to represent groups
        of aligned DNA, RNA or amino acid sequences as a single object.
        The package also provides functions to read/write such object
        from/to traditional MSA file formats including Stockholm and
        Clustal.
biocViews: Alignment, MultipleSequenceAlignment, Genetics, DataImport,
        DataRepresentation, Infrastructure
URL: https://bioconductor.org/packages/MultipleAlignment
BugReports: https://github.com/Bioconductor/MultipleAlignment/issues
Version: 0.99.5
License: Artistic-2.0
Encoding: UTF-8
Authors@R: c(
	person("Marc", "Carlson", role="aut"),
	person("Patrick", "Aboyoun", role="aut"),
	person("Hervé", "Pagès", role="cre",
		email="hpages.on.github@gmail.com",
		comment=c(ORCID="0009-0002-8272-4522")),
	person("Beryl", "Kanali", role="ctb",
	       comment="Converted 'MultipleAlignments' vignette from Sweave to RMarkdown"),
	person("Michael", "Lawrence", role="ctb"),
	person("Martin", "Morgan", role="ctb"))
Depends: BiocGenerics (>= 0.59.10), S4Vectors, IRanges, Seqinfo,
        Biostrings
Imports: methods, stats
Suggests: pwalign, testthat, knitr, rmarkdown, BiocStyle
VignetteBuilder: knitr
Collate: MultipleAlignment-class.R MultipleAlignment-IO.R
        MultipleAlignment-utils.R
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-07 11:05:58 UTC
RemoteUrl: https://github.com/bioc/MultipleAlignment
RemoteRef: HEAD
RemoteSha: fcc3e5501ab15de367011773942220237aa25045
NeedsCompilation: no
Packaged: 2026-07-08 04:53:44 UTC; root
Author: Marc Carlson [aut],
  Patrick Aboyoun [aut],
  Hervé Pagès [cre] (ORCID: <https://orcid.org/0009-0002-8272-4522>),
  Beryl Kanali [ctb] (Converted 'MultipleAlignments' vignette from Sweave
    to RMarkdown),
  Michael Lawrence [ctb],
  Martin Morgan [ctb]
Maintainer: Hervé Pagès <hpages.on.github@gmail.com>