Package: MoleculeExperiment
Title: Prioritising a molecule-level storage of Spatial Transcriptomics
        Data
Version: 1.11.0
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: libfftw3-dev libgdal-dev gdal-bin libgeos-dev make
        libmagick++-dev gsfonts libicu-dev libjpeg-dev libpng-dev
        libtiff-dev libssl-dev libproj-dev libsqlite3-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:22:45 UTC
RemoteUrl: https://github.com/bioc/MoleculeExperiment
RemoteRef: HEAD
RemoteSha: 35b0ff3f8285fea0b930365266b280e9bfbac4ef
NeedsCompilation: no
Packaged: 2026-01-12 08:51:57 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; ; 2026-01-12 09:01:35 UTC; windows
