Package: clustSIGNAL
Type: Package
Title: ClustSIGNAL: a spatial clustering method
Version: 1.4.1
Authors@R: c(
    person("Pratibha", "Panwar", email = "pratibhapanwar.4@gmail.com", 
    role = c("cre", "aut", "ctb"), comment = c(ORCID = "0000-0002-7437-7084")),
    person("Boyi", "Guo", email = "boyi.guo.work@gmail.com", role = "aut"),
    person("Haowen", "Zhao", email = "haowen.zhou19@gmail.com", role = "aut"),
    person("Stephanie", "Hicks", email = "shicks19@jhu.edu", role = "aut"),
    person("Shila", "Ghazanfar", email = "shazanfar@gmail.com", 
    role = c("aut", "ctb"), comment = c(ORCID = "0000-0001-7861-6997")))
Description: clustSIGNAL: clustering of Spatially Informed Gene
        expression with Neighbourhood Adapted Learning. A tool for
        adaptively smoothing and clustering gene expression data.
        clustSIGNAL uses entropy to measure heterogeneity of cell
        neighbourhoods and performs a weighted, adaptive smoothing,
        where homogeneous neighbourhoods are smoothed more and
        heterogeneous neighbourhoods are smoothed less. This not only
        overcomes data sparsity but also incorporates spatial context
        into the gene expression data. The resulting smoothed gene
        expression data is used for clustering and could be used for
        other downstream analyses.
License: GPL-2
Encoding: UTF-8
URL: https://sydneybiox.github.io/clustSIGNAL/
BugReports: https://github.com/sydneybiox/clustSIGNAL/issues
biocViews: Clustering, Software, GeneExpression, Spatial,
        Transcriptomics, SingleCell
RoxygenNote: 7.3.3
Depends: R (>= 4.4.0), SpatialExperiment
Imports: BiocParallel, BiocNeighbors, bluster (>= 1.16.0), scater,
        harmony, SingleCellExperiment, SummarizedExperiment, methods,
        Matrix, reshape2
Suggests: knitr, BiocStyle, testthat (>= 3.0.0), aricode, ggplot2,
        patchwork, dplyr, scattermore
VignetteBuilder: knitr
Config/pak/sysreqs: libglpk-dev libmagick++-dev gsfonts libicu-dev
        libxml2-dev libssl-dev zlib1g-dev
Repository: Bioconductor 3.23
Date/Publication: 2026-09-09 04:31:18 UTC
RemoteUrl: https://github.com/bioc/clustSIGNAL
RemoteRef: RELEASE_3_23
RemoteSha: 1722f127e524ab367fc67448789ceff6409557f0
NeedsCompilation: no
Packaged: 2026-09-09 14:53:03 UTC; root
Author: Pratibha Panwar [cre, aut, ctb] (ORCID:
    <https://orcid.org/0000-0002-7437-7084>),
  Boyi Guo [aut],
  Haowen Zhao [aut],
  Stephanie Hicks [aut],
  Shila Ghazanfar [aut, ctb] (ORCID:
    <https://orcid.org/0000-0001-7861-6997>)
Maintainer: Pratibha Panwar <pratibhapanwar.4@gmail.com>
Built: R 4.6.1; ; 2026-09-09 15:06:52 UTC; unix
