Package: BatchSVG
Type: Package
Title: Identify Batch-Biased Spatially Variable Genes
Version: 1.4.0
Authors@R: 
    c(person(
        given = "Christine",
        family = "Hou",
        role = c("aut"),
        email = "chris2018hou@gmail.com",
        comment = c(ORCID = "0009-0001-5350-0629")
    ),
    c(person(
        given = "Kinnary",
        family = "Shah",
        role = c("aut", "cre"),
        email = "kinnaryshahh@gmail.com")
    ),    
    person(
        given = "Jacqueline R.",
        family = "Thompson",
        role = "aut",
        email = "jthom338@jh.edu"
    ),
    person(
        given = "Stephanie C.", 
        family = "Hicks", 
        role = c("aut","fnd"),
        email = "shicks19@jhu.edu", 
        comment = c(ORCID = "0000-0002-7858-0231"))
    )
Description: BatchSVG is a method to identify batch-biased spatially
        variable genes (SVGs) in spatial transcriptomics data. The
        batch variable can be defined as sample, donor sex, or other
        batch effects of interest. The BatchSVG method is based on the
        binomial deviance model (Townes et al, 2019).
License: Artistic-2.0
Imports: scry, dplyr, stats, rlang, cowplot, ggrepel, ggplot2,
        RColorBrewer, scales, SummarizedExperiment
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Depends: R (>= 4.5.0)
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle, spatialLIBD
VignetteBuilder: knitr
biocViews: Spatial, Transcriptomics, BatchEffect, QualityControl
URL: https://github.com/christinehou11/BatchSVG,
        https://christinehou11.github.io/BatchSVG
BugReports: https://github.com/christinehou11/BatchSVG/issues
Config/testthat/edition: 3
LazyData: false
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:04:54 UTC
RemoteUrl: https://github.com/bioc/BatchSVG
RemoteRef: RELEASE_3_23
RemoteSha: 402c3bd7e37792e0763d951076f063789d3ee88b
NeedsCompilation: no
Packaged: 2026-05-09 09:09:46 UTC; root
Author: Christine Hou [aut] (ORCID: <https://orcid.org/0009-0001-5350-0629>),
  Kinnary Shah [aut, cre],
  Jacqueline R. Thompson [aut],
  Stephanie C. Hicks [aut, fnd] (ORCID:
    <https://orcid.org/0000-0002-7858-0231>)
Maintainer: Kinnary Shah <kinnaryshahh@gmail.com>
Built: R 4.6.0; ; 2026-05-09 09:40:31 UTC; windows
