Package: netgsa
Type: Package
Title: Network-Based Gene Set Analysis
Version: 4.0.3
Date: 2021-12-07
Authors@R: c(
    person("Michael", "Hellstern", email = "mikeh1@uw.edu", role = c("aut","cre")),
    person("Ali", "Shojaie", email = "ashojaie@uw.edu", role = c("aut")),
    person("Jing", "Ma", role = "aut"),
    person("Kun", "Yue", role = "aut"))
Description: Carry out Network-based Gene Set Analysis by incorporating
        external information about interactions among genes, as well as
        novel interactions learned from data. Implements methods
        described in Shojaie A, Michailidis G (2010)
        <doi:10.1093/biomet/asq038>, Shojaie A, Michailidis G (2009)
        <doi:10.1089/cmb.2008.0081>, and Ma J, Shojaie A, Michailidis G
        (2016) <doi:10.1093/bioinformatics/btw410>
Depends: R (>= 3.5.0)
biocViews:
Imports: AnnotationDbi, corpcor, data.table, dplyr, graph, graphite,
        glmnet, glassoFast, igraph, magrittr, Matrix, msigdbr,
        org.Hs.eg.db, quadprog, RCy3, rlang, Rcpp (>= 1.0.2), RcppEigen
        (>= 0.3.3.5.0)
Suggests: knitr, MASS, ndexr, rmarkdown
License: GPL (>=3)
LinkingTo: Rcpp, RcppEigen
LazyLoad: yes
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/mikehellstern/netgsa
RoxygenNote: 7.1.1
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev python3 libzmq3-dev
        zlib1g-dev
Repository: https://mikehellstern.r-universe.dev
Date/Publication: 2021-12-07 18:46:18 UTC
RemoteUrl: https://github.com/mikehellstern/netgsa
RemoteRef: HEAD
RemoteSha: 2769cf0806bebe23489b197fda6b18f54e4d9a14
NeedsCompilation: yes
Packaged: 2026-10-23 06:41:59 UTC; root
Author: Michael Hellstern [aut, cre],
  Ali Shojaie [aut],
  Jing Ma [aut],
  Kun Yue [aut]
Maintainer: Michael Hellstern <mikeh1@uw.edu>