Package: BatchSVG
Type: Package
Title: Identify Batch-Biased Spatially Variable Genes
Version: 1.3.4
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 (>= 4.4.0)
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.r-universe.dev
Date/Publication: 2025-12-04 22:48:47 UTC
RemoteUrl: https://github.com/bioc/BatchSVG
RemoteRef: HEAD
RemoteSha: 1a3f7ad9fcaee3289f4d1c5c2b75a798bbcb1687
NeedsCompilation: no
Packaged: 2026-01-16 08:36:09 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; ; 2026-01-16 08:39:02 UTC; windows
