netgsa: Network-Based Gene Set Analysis

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>.

Version: 4.0.4
Depends: R (≥ 3.5.0)
Imports: AnnotationDbi, corpcor, data.table, dplyr, genefilter, graph, graphite, glmnet, glassoFast, httr, igraph, jsonlite, magrittr, Matrix, msigdbr,, quadprog, RCy3, reshape2, rlang, Rcpp (≥ 1.0.2)
LinkingTo: Rcpp, RcppEigen
Suggests: knitr, MASS, ndexr, rmarkdown
Published: 2022-10-25
Author: Michael Hellstern [aut, cre], Ali Shojaie [aut], Jing Ma [aut], Kun Yue [aut]
Maintainer: Michael Hellstern <mikeh1 at>
License: GPL (≥ 3)
NeedsCompilation: yes
Materials: README NEWS
In views: Omics
CRAN checks: netgsa results


Reference manual: netgsa.pdf
Vignettes: Introduction to netgsa


Package source: netgsa_4.0.4.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): netgsa_4.0.4.tgz, r-oldrel (arm64): netgsa_4.0.4.tgz, r-release (x86_64): netgsa_4.0.4.tgz, r-oldrel (x86_64): netgsa_4.0.4.tgz
Old sources: netgsa archive


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