Package: SpotSweeper
Title: Spatially-aware quality control for spatial transcriptomics
Version: 1.0.2
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
git_url: https://git.bioconductor.org/packages/SpotSweeper
git_branch: RELEASE_3_19
git_last_commit: 7bebba3
git_last_commit_date: 2024-07-08
Repository: Bioconductor 3.19
Date/Publication: 2024-07-21
NeedsCompilation: no
Packaged: 2024-07-22 02:21:32 UTC; biocbuild
Author: Michael Totty [aut, cre] (<https://orcid.org/0000-0002-9292-8556>),
  Stephanie Hicks [aut] (<https://orcid.org/0000-0002-7858-0231>),
  Boyi Guo [aut] (<https://orcid.org/0000-0003-2950-2349>)
Maintainer: Michael Totty <mictott@gmail.com>
Built: R 4.4.1; ; 2024-07-22 13:17:44 UTC; windows
