Type: Package
Package: SingleCellMultiModal
Title: Integrating Multi-modal Single Cell Experiment datasets
Version: 1.25.3
Date: 2025-06-12
Authors@R: c(
    person("Marcel", "Ramos", , "marcel.ramos@sph.cuny.edu", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-3242-0582")),
    person("Ricard", "Argelaguet", , "ricard@ebi.ac.uk", role = "aut"),
    person("Al", "Abadi", role = "ctb"),
    person("Dario", "Righelli", , "dario.righelli@gmail.com", role = "aut"),
    person("Christophe", "Vanderaa", , "christophe.vanderaa@uclouvain.be", role = "ctb"),
    person("Kelly", "Eckenrode", , "kelly.eckenrode@sph.cuny.edu", role = "aut"),
    person("Ludwig", "Geistlinger", , "ludwig_geistlinger@hms.harvard.edu", role = "aut"),
    person("Levi", "Waldron", , "lwaldron.research@gmail.com", role = "aut"),
    person("NCI", role = "fnd",
           comment = c(GrantNo. = "U24CA289073"))
  )
Description: SingleCellMultiModal is an ExperimentHub package that
        serves multiple datasets obtained from GEO and other sources
        and represents them as MultiAssayExperiment objects. We provide
        several multi-modal datasets including scNMT, 10X Multiome,
        seqFISH, CITEseq, SCoPE2, and others. The scope of the package
        is is to provide data for benchmarking and analysis. To cite,
        use the 'citation' function and see
        <https://doi.org/10.1371/journal.pcbi.1011324>.
License: Artistic-2.0
BugReports: https://github.com/waldronlab/SingleCellMultiModal/issues
Depends: R (>= 4.2.0), MultiAssayExperiment
Imports: AnnotationHub, BiocBaseUtils, BiocFileCache, ExperimentHub,
        graphics, HDF5Array, S4Vectors, SingleCellExperiment,
        SpatialExperiment, SummarizedExperiment, Matrix, methods, utils
Suggests: BiocStyle, ggplot2, knitr, RaggedExperiment, rmarkdown,
        scater, scran, UpSetR, uwot
VignetteBuilder: knitr
biocViews: ExperimentData, SingleCellData, ReproducibleResearch,
        ExperimentHub, GEO
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: libmagick++-dev gsfonts libicu-dev libpng-dev
        libssl-dev zlib1g-dev
Repository: https://waldronlab.r-universe.dev
Date/Publication: 2026-05-20 20:52:19 UTC
RemoteUrl: https://github.com/waldronlab/SingleCellMultiModal
RemoteRef: HEAD
RemoteSha: cdbd97d961766b7e77df6378816967b14866b4f7
NeedsCompilation: no
Packaged: 2026-06-19 07:01:00 UTC; root
Author: Marcel Ramos [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-3242-0582>),
  Ricard Argelaguet [aut],
  Al Abadi [ctb],
  Dario Righelli [aut],
  Christophe Vanderaa [ctb],
  Kelly Eckenrode [aut],
  Ludwig Geistlinger [aut],
  Levi Waldron [aut],
  NCI [fnd] (GrantNo.: U24CA289073)
Maintainer: Marcel Ramos <marcel.ramos@sph.cuny.edu>