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
Config/pak/sysreqs: libfontconfig1-dev libfreetype6-dev libglpk-dev
        libicu-dev libpng-dev libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:16:30 UTC
RemoteUrl: https://github.com/bioc/sSNAPPY
RemoteRef: HEAD
RemoteSha: a86fed10352d5f5d4cf6140ba276d68e9144bfda
NeedsCompilation: no
Packaged: 2026-02-21 06:37:58 UTC; root
Author: Wenjun Liu [aut, cre] (ORCID: <https://orcid.org/0000-0002-8185-3069>),
  Stephen Pederson [aut] (ORCID: <https://orcid.org/0000-0001-8197-3303>)
Maintainer: Wenjun Liu <wenjun.liu@adelaide.edu.au>
Built: R 4.6.0; ; 2026-02-21 06:40:17 UTC; windows
