Package: MoleculeExperiment
Title: Prioritising a molecule-level storage of Spatial Transcriptomics
        Data
Version: 1.12.0
Authors@R: c(
    person("Bárbara Zita", "Peters Couto", email = "barbara.zita.peters@couto.de", role = c("aut")),
    person("Nicholas","Robertson", email = "nicholas.robertson@sydney.edu.au", role = c("aut")),
    person("Ellis", "Patrick", email = "ellis.patrick@sydney.edu.au", role = c("aut")),
    person("Shila", "Ghazanfar", email = "shazanfar@gmail.com", role = c("aut", "cre")))
Description: MoleculeExperiment contains functions to create and work
        with objects from the new MoleculeExperiment class. We
        introduce this class for analysing molecule-based spatial
        transcriptomics data (e.g., Xenium by 10X, Cosmx SMI by
        Nanostring, and Merscope by Vizgen). This allows researchers to
        analyse spatial transcriptomics data at the molecule level, and
        to have standardised data formats accross vendors.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
URL: https://github.com/SydneyBioX/MoleculeExperiment
BugReports: https://github.com/SydneyBioX/MoleculeExperiment/issues
Imports: SpatialExperiment, Matrix, purrr, data.table, dplyr (>=
        1.1.1), magrittr, rjson, utils, methods, terra, ggplot2, rlang,
        cli, EBImage, rhdf5, BiocParallel, S4Vectors, stats
Suggests: knitr, BiocStyle, testthat (>= 3.0.0)
VignetteBuilder: knitr
biocViews: DataImport, DataRepresentation, Infrastructure, Software,
        Spatial, Transcriptomics
Config/testthat/edition: 3
Depends: R (>= 4.1.0)
Config/pak/sysreqs: cmake libfftw3-dev libgdal-dev gdal-bin libgeos-dev
        make libmagick++-dev gsfonts libicu-dev libjpeg-dev libpng-dev
        libtiff-dev libuv1-dev libssl-dev libproj-dev libsqlite3-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:00:36 UTC
RemoteUrl: https://github.com/bioc/MoleculeExperiment
RemoteRef: RELEASE_3_23
RemoteSha: 68d539f36fdbe441b7da2f22b5365313c9d615b7
NeedsCompilation: no
Packaged: 2026-04-29 23:26:47 UTC; root
Author: Bárbara Zita Peters Couto [aut],
  Nicholas Robertson [aut],
  Ellis Patrick [aut],
  Shila Ghazanfar [aut, cre]
Maintainer: Shila Ghazanfar <shazanfar@gmail.com>
Built: R 4.6.0; ; 2026-04-30 00:50:35 UTC; unix
