Package: GeomxTools
Title: NanoString GeoMx Tools
Description: Tools for NanoString Technologies GeoMx Technology.
        Package provides functions for reading in DCC and PKC files
        based on an ExpressionSet derived object.  Normalization and QC
        functions are also included.
Version: 3.17.0
Encoding: UTF-8
Authors@R: c(person("Maddy", "Griswold", email = "mgriswold@nanostring.com", role = c("cre", "aut")),
	     person("Nicole", "Ortogero", email = "nortogero@nanostring.com", role = c("aut")), 
             person("Zhi", "Yang", role = c("aut")),
             person("Ronalyn", "Vitancol", email = "rvitancol@nanostring.com", role = c("aut")),
             person("David", "Henderson", role = c("aut")))
Depends: R (>= 3.6), Biobase, NanoStringNCTools, S4Vectors
Imports: BiocGenerics, rjson, readxl, EnvStats, reshape2, methods,
        utils, stats, data.table, lmerTest, dplyr, stringr, grDevices,
        graphics, GGally, rlang, ggplot2, SeuratObject
Suggests: rmarkdown, knitr, testthat (>= 3.0.0), parallel, ggiraph,
        Seurat, SpatialExperiment (>= 1.4.0), SpatialDecon, patchwork
License: MIT
Collate: DccMetadata.R NanoStringGeoMxSet-class.R
        NanoStringGeoMxSet-validity.R NanoStringGeoMxSet-accessors.R
        NanoStringGeoMxSet-qc.R NanoStringGeoMxSet-autoplot.R
        NanoStringGeoMxSet-aggregate.R NanoStringGeoMxSet-signatures.R
        NanoStringGeoMxSet-normalize.R NanoStringGeoMxSet-de.R
        coercions.R readDccFile.R readPKCFile.R
        readNanoStringGeoMxSet.R writeNanoStringGeoMxSet.R utils.R
        outliersFunctions.R
biocViews: GeneExpression, Transcription, CellBasedAssays, DataImport,
        Transcriptomics, Proteomics, mRNAMicroarray,
        ProprietaryPlatforms, RNASeq, Sequencing, ExperimentalDesign,
        Normalization, Spatial
VignetteEngine: knitr::rmarkdown
VignetteBuilder: knitr
RoxygenNote: 7.3.1
Config/testthat/edition: 3
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev make libicu-dev libpng-dev libuv1-dev
        libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:54:51 UTC
RemoteUrl: https://github.com/bioc/GeomxTools
RemoteRef: HEAD
RemoteSha: 37ea8120ca3d3d2649e810ec8cdfcd035fe95307
NeedsCompilation: no
Packaged: 2026-07-03 17:09:45 UTC; root
Author: Maddy Griswold [cre, aut],
  Nicole Ortogero [aut],
  Zhi Yang [aut],
  Ronalyn Vitancol [aut],
  David Henderson [aut]
Maintainer: Maddy Griswold <mgriswold@nanostring.com>