Package: broadSeq
Title: broadSeq : for streamlined exploration of RNA-seq data
Version: 1.5.0
Authors@R: 
    person("Rishi", "Das Roy", , "rishi.dasroy@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-3276-7279"))
Description: This package helps user to do easily RNA-seq data analysis with multiple 
    methods (usually which needs many different input formats). Here the user will 
    provid the expression data as a SummarizedExperiment object and will get results 
    from different methods. It will help user to quickly evaluate different methods. 
License: MIT + file LICENSE
URL: https://github.com/dasroy/broadSeq
BugReports: https://github.com/dasroy/broadSeq/issues
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
biocViews: GeneExpression, DifferentialExpression, RNASeq, 
        Transcriptomics, Sequencing, Coverage, 
        GeneSetEnrichment, GO
Suggests: 
    knitr,
    limma (>= 3.54.0),
    rmarkdown,
    stats (>= 4.2.2),
    samr
Depends: 
    dplyr,
    ggpubr,
    SummarizedExperiment 
Imports: 
    BiocStyle,
    DELocal,
    EBSeq (>= 1.38.0),
    DESeq2 (>= 1.38.2),
    NOISeq,
    forcats (>= 1.0.0),
    genefilter,
    ggplot2,
    ggplotify,
    plyr,
    clusterProfiler (>= 4.8.2),
    pheatmap,
    sechm (>= 1.6.0),
    stringr,
    purrr (>= 0.3.5),
    edgeR (>= 3.40.1)
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/broadSeq
git_branch: devel
git_last_commit: f8280c0
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
