Package: spammR
Title: SPatial Analysis of Multiomics Measurements in R
Version: 0.99.26
Authors@R: 
    c(person("Sara", "Gosline", , email="sara.gosline@pnnl.gov", 
    role = c("cre","aut"), comment = c(ORCID = "0000-0002-6534-4774")),
    person("Harkirat", "Sohi", , email="harkirat.sohi@pnnl.gov",
    role = c("aut"), comment = c(ORCID = "0009-0000-9935-1641")),
    person("Yannick", "Mahlich", , email="yannick.mahlich@pnnl.gov", 
    role = c("aut"), comment = c(ORCID = "0000-0002-0717-2927")))
Description: SpammR provides a suite of tools and a data structure to
        analyze diverse multiomics measurements in a spatial context.
        It enables the analysis and visualization of omics measurements
        paired with a specific image, each with spatial coordinates.
SystemRequirements: python = 3.11
Config/reticulate: list( packages = list( list(package = "numpy"),
        list(package = "pandas"), list(package = "metaspace2020") ),
        python_version = "3.11")
License: MIT + file LICENSE
BugReports: https://github.com/PNNL-CompBio/spammR/issues
URL: https://pnnl-compbio.github.io/spammR/
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Suggests: testthat (>= 3.0.0), BiocStyle, knitr
Config/testthat/edition: 3
VignetteBuilder: knitr
biocViews: Spatial, Pathways, Proteomics, DifferentialExpression,
        Metabolomics, SystemsBiology, GeneExpression,
        GeneSetEnrichment, Software,Transcription,Sequencing,
        Microarray, Epigenetics, Cheminformatics,
        Transcriptomics,Coverage, Normalization, Preprocessing,
        Bayesian, Clustering, Regression, ExonArray, RNASeq,
        OneChannel, TwoChannel, MicroRNAArray,
        mRNAMicroarray,ProprietaryPlatforms, SingleCell, CellBiology,
        BiomedicalInformatics,FunctionalGenomics, ImmunoOncology,
        AlternativeSplicing, DifferentialSplicing,BatchEffect,
        MultipleComparison, QualityControl, TimeCourse, DataImport
Depends: SummarizedExperiment, SingleCellExperiment, SpatialExperiment,
        limma, R (>= 4.5.0)
Imports: dplyr, ggplot2, plotly, ggnewscale, ggpubr, png, reticulate,
        impute, matrixStats, scales, spdep, ggrepel, IRanges, tibble,
        tidyr, leapR, tidygraph, ggraph,BiocFileCache, terra, readxl,
        tidygraph, tidyverse, magrittr, sf, cowplot, DT
NeedsCompilation: no
Packaged: 2026-10-02 23:13:29 UTC; root
Config/roxygen2/version: 8.1.0
Config/pak/sysreqs: libabsl-dev cmake libfontconfig1-dev
        libfreetype6-dev libfribidi-dev libgdal-dev gdal-bin
        libgeos-dev libglpk-dev make libharfbuzz-dev libmagick++-dev
        gsfonts libicu-dev libjpeg-dev libpng-dev libtiff-dev
        libuv1-dev libwebp-dev libxml2-dev libssl-dev libproj-dev
        python3 libsqlite3-dev libudunits2-dev libx11-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-09-04 15:54:58 UTC
RemoteUrl: https://github.com/bioc/spammR
RemoteRef: HEAD
RemoteSha: 6a00912bf80a805a7ae7479870a722c1b7e303d3
Author: Sara Gosline [cre, aut] (ORCID:
    <https://orcid.org/0000-0002-6534-4774>),
  Harkirat Sohi [aut] (ORCID: <https://orcid.org/0009-0000-9935-1641>),
  Yannick Mahlich [aut] (ORCID: <https://orcid.org/0000-0002-0717-2927>)
Maintainer: Sara Gosline <sara.gosline@pnnl.gov>