Package: ClusterGVis
Title: One-Step to Cluster and Visualize Gene Expression Data
Version: 0.99.9
Authors@R: 
  person(given = "Jun", 
        family = "Zhang",    
        email = "1138976957@qq.com", 
        role  = c("aut", "cre", "cph"), 
        comment = c(ORCID = "0000-0001-7692-9105"))
Description: Provides a streamlined workflow for clustering and visualizing 
  gene expression patterns, particularly from time-series RNA-Seq and 
  single-cell experiments. The package is designed to integrate seamlessly 
  within the Bioconductor ecosystem by operating directly on standard data 
  classes such as `SummarizedExperiment` and `SingleCellExperiment`. It 
  implements common clustering algorithms (e.g., k-means, fuzzy c-means) 
  and generates a suite of publication-ready visualizations to explore 
  co-expressed gene modules. Functions are also included to facilitate 
  the visualization of clustering results derived from other popular tools.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Depends: 
    R (>= 4.5)
Imports: 
    colorRamps,
    dplyr,
    e1071,
    factoextra,
    ggplot2,
    grDevices,
    grid,
    Matrix,
    methods,
    purrr,
    reshape2,
    scales,
    stats,
    tibble,
    SingleCellExperiment,
    SummarizedExperiment,
    igraph,
    VGAM,
    scuttle
Suggests: 
    Biobase,
    ComplexHeatmap,
    clusterProfiler,
    TCseq,
    org.Mm.eg.db,
    circlize,
    knitr,
    monocle,
    pheatmap,
    rmarkdown,
    Seurat,
    WGCNA,
    utils,
    BiocManager,
    S4Vectors,
    pheatmap,
    testthat (>= 3.0.0)
biocViews: RNASeq,Transcriptomics,Visualization,SingleCell,GeneExpression,Clustering
URL: https://github.com/junjunlab/ClusterGVis/, 
  https://junjunlab.github.io/ClusterGvis-manual/
BugReports: https://github.com/junjunlab/ClusterGVis/issues
VignetteBuilder: knitr
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/ClusterGVis
git_branch: devel
git_last_commit: 15fc470
git_last_commit_date: 2025-11-12
Repository: Bioconductor 3.23
