Package: sSNAPPY
Title: Single Sample directioNAl Pathway Perturbation analYsis
Version: 1.15.0
Authors@R: c(
    person(
        "Wenjun", "Liu", , "wenjun.liu@adelaide.edu.au", role = c("aut", "cre"),
        comment = c(ORCID = "0000-0002-8185-3069")),
    person(
        "Stephen", "Pederson", email = "stephen.pederson.au@gmail.com", 
        role = "aut", comment = c(ORCID = "0000-0001-8197-3303")))
Description: A single sample pathway perturbation testing method for RNA-seq 
    data. The method propagates changes in gene expression down gene-set 
    topologies to compute single-sample directional pathway perturbation scores 
    that reflect potential direction of change. Perturbation scores can be 
    used to test significance of pathway perturbation at both individual-sample 
    and treatment levels.  
License: GPL-3
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Suggests: 
    BiocManager,
    BiocStyle,
    colorspace,
    cowplot,
    DT,
    htmltools,
    knitr,
    pander,
    patchwork,
    rmarkdown,
    spelling,
    testthat (>= 3.0.0),
    tidyverse
Config/testthat/edition: 3
SystemRequirements: C++11
LazyData: false
Imports: 
    dplyr (>= 1.1),
    magrittr,
    rlang,
    stats,
    graphite,
    tibble,
    ggraph,
    igraph,
    reshape2,
    org.Hs.eg.db,
    SummarizedExperiment,
    edgeR,
    methods,
    ggforce,
    pheatmap,
    utils,
    stringr,
    gtools,
    tidyr
Depends: 
    R (>= 4.3.0),
    ggplot2
biocViews:
    Software, GeneExpression, GeneSetEnrichment, GeneSignaling
URL: https://wenjun-liu.github.io/sSNAPPY/
VignetteBuilder: knitr
BugReports: https://github.com/Wenjun-Liu/sSNAPPY/issues
Language: en-US
git_url: https://git.bioconductor.org/packages/sSNAPPY
git_branch: devel
git_last_commit: a86fed1
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
