Package: MultiAssayExperiment
Title: Software for the integration of multi-omics experiments in
        Bioconductor
Version: 1.39.0
Authors@R: c(
    person("Marcel", "Ramos", , "marcel.ramos@sph.cuny.edu",
        c("aut", "cre"), c(ORCID = "0000-0002-3242-0582")),
    person("Martin", "Morgan", , , c("aut", "ctb")),
    person("Lori", "Shepherd", , , "ctb"),
    person("Hervé", "Pagès", , , "ctb"),
    person("Vincent J", "Carey", , , c("aut", "ctb")),
    person("Levi", "Waldron", , "lwaldron.research@gmail.com", "aut"),
    person("MultiAssay", "SIG", , "biocmultiassay@googlegroups.com", "ctb"),
    person("NCI", role = "fnd", comment = c(GrantNo. = "U24CA289073"))
    )
Description: Harmonize data management of multiple experimental assays
        performed on an overlapping set of specimens.  It provides a
        familiar Bioconductor user experience by extending concepts
        from SummarizedExperiment, supporting an open-ended mix of
        standard data classes for individual assays, and allowing
        subsetting by genomic ranges or rownames. Facilities are
        provided for reshaping data into wide and long formats for
        adaptability to graphing and downstream analysis.
License: Artistic-2.0
URL: http://waldronlab.io/MultiAssayExperiment/
BugReports: https://github.com/waldronlab/MultiAssayExperiment/issues
Depends: SummarizedExperiment, R (>= 4.5.0)
Imports: Biobase, BiocBaseUtils, BiocGenerics, DelayedArray,
        GenomicRanges, IRanges, MatrixGenerics, methods, S4Vectors,
        tidyr, utils
Suggests: BiocStyle, HDF5Array, h5mread, knitr, maftools,
        RaggedExperiment, reshape2, rmarkdown, survival, survminer,
        testthat, UpSetR
VignetteBuilder: knitr
biocViews: Infrastructure, DataRepresentation
Encoding: UTF-8
RoxygenNote: 7.3.3
Roxygen: list(markdown = TRUE)
Video: https://youtu.be/w6HWAHaDpyk, https://youtu.be/Vh0hVVUKKFM
Collate: 'ExperimentList-class.R' 'MultiAssayExperiment-class.R'
        'MatchedAssayExperiment-class.R' 'subsetBy-methods.R'
        'MultiAssayExperiment-subset.R'
        'MultiAssayExperiment-methods.R'
        'MultiAssayExperiment-helpers.R' 'MultiAssayExperiment-pkg.R'
        'MultiAssayExperimentToMAF.R' 'assay-methods.R' 'data.R'
        'hasAssay.R' 'listToMap.R' 'mapToList.R' 'prepMultiAssay.R'
        'reexports.R' 'saveHDF5MultiAssayExperiment.R' 'upsetSamples.R'
        'utilities.R'
Date: 2026-03-28
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:43:09 UTC
RemoteUrl: https://github.com/bioc/MultiAssayExperiment
RemoteRef: HEAD
RemoteSha: fb2d1da4ec9453b241561a3e78f95cfc92bb87a9
NeedsCompilation: no
Packaged: 2026-07-03 19:14:34 UTC; root
Author: Marcel Ramos [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-3242-0582>),
  Martin Morgan [aut, ctb],
  Lori Shepherd [ctb],
  Hervé Pagès [ctb],
  Vincent J Carey [aut, ctb],
  Levi Waldron [aut],
  MultiAssay SIG [ctb],
  NCI [fnd] (GrantNo.: U24CA289073)
Maintainer: Marcel Ramos <marcel.ramos@sph.cuny.edu>