Type: Package
Package: Spectre
Title: High-dimensional cytometry and imaging analysis
Version: 1.3.0
Date: 2025-08-22
Authors@R: c(
    person("Thomas", "Ashhurst", , "thomas.ashhurst@sydney.edu.au", role = c("aut", "cre")),
    person("Felix", "Marsh-Wakefield", , "felix.marsh-wakefield@sydney.edu.au", role = "aut"),
    person("Givanna", "Putri", , "putri.g@wehi.edu.au", role = "aut")
  )
Description: A computational toolkit in R for the integration,
        exploration, and analysis of high-dimensional single-cell
        cytometry and imaging data.
License: MIT + file LICENSE
URL: https://github.com/ImmuneDynamics/Spectre,
        http://immunedynamics.io/Spectre/
BugReports: https://github.com/ImmuneDynamics/Spectre/issues
Depends: R (>= 3.6.0)
biocViews:
Imports: colorRamps, data.table, dendsort, factoextra, flowCore,
        FlowSOM, fs, ggplot2, ggpointdensity, ggpubr, ggrepel,
        ggthemes, gridExtra, gtools, irlba, lifecycle, parallel,
        patchwork, pheatmap, RColorBrewer, rstudioapi, rsvd, Rtsne,
        scales, scattermore, umap, uwot, viridis
Suggests: Biobase, caret, CytoNorm, devtools, EnhancedVolcano,
        exactextractr, FNN, formatR, harmony, HDF5Array, knitr, limma,
        qs, raster, Rcpp, rhdf5, rmarkdown, Rphenograph, s2, Seurat,
        SeuratObject, sf, SingleCellExperiment, sp, stars, testthat (>=
        3.0.0), tiff, usethis
Remotes: saeyslab/CytoNorm, JinmiaoChenLab/Rphenograph
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
VignetteBuilder: knitr
Config/pak/sysreqs: cmake libfontconfig1-dev libfreetype6-dev
        libglpk-dev make libicu-dev libpng-dev libuv1-dev libxml2-dev
        libssl-dev python3 zlib1g-dev
Repository: https://agshaas.r-universe.dev
Date/Publication: 2025-09-19 00:41:01 UTC
RemoteUrl: https://github.com/immunedynamics/spectre
RemoteRef: HEAD
RemoteSha: 159dc9f6d700b0dbd9fed8677cd94521c661691e
NeedsCompilation: no
Packaged: 2026-10-04 14:44:37 UTC; root
Author: Thomas Ashhurst [aut, cre],
  Felix Marsh-Wakefield [aut],
  Givanna Putri [aut]
Maintainer: Thomas Ashhurst <thomas.ashhurst@sydney.edu.au>