DESCRIPTION

Package: SpotSweeper
Title: Spatially-aware quality control for spatial transcriptomics
Version: 1.1.2
Date: 2024-4-10
Authors@R: c(
    person("Michael", "Totty", ,"mictott@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-9292-8556")),
               person("Stephanie", "Hicks", ,email = "shicks19@jhu.edu", role = c("aut"),
           comment = c(ORCID = "0000-0002-7858-0231")),
    person("Boyi", "Guo", ,email = "boyi.guo.work@gmail.com", role = c("aut"),
           comment = c(ORCID = "0000-0003-2950-2349")))
Description: Spatially-aware quality control (QC) software for both spot-level 
    and artifact-level QC in spot-based spatial transcripomics, such as 10x 
    Visium. These methods calculate local (nearest-neighbors) mean and variance 
    of standard QC metrics (library size, unique genes, and mitochondrial 
    percentage) to identify outliers spot and large technical artifacts.
License: MIT + file LICENSE
URL: https://github.com/MicTott/SpotSweeper
BugReports: https://support.bioconductor.org/tag/SpotSweeper
biocViews: 
    Software,
    Spatial,
    Transcriptomics, 
    QualityControl,
    GeneExpression, 
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
Depends:
    R (>= 4.4.0)
Imports:
    SpatialExperiment,
    SummarizedExperiment,
    BiocNeighbors,
    SingleCellExperiment,
    stats,
    escheR,
    MASS,
    ggplot2,
    spatialEco,
    grDevices
Suggests:
    knitr,
    BiocStyle,
    rmarkdown,
    scuttle,
    STexampleData,
    ggpubr,
    testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
LazyData: False