netgsa: Network-Based Gene Set Analysis (original) (raw)
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: | 4.0.5 |
|---|---|
| Depends: | R (≥ 3.5.0) |
| Imports: | AnnotationDbi, corpcor, data.table, dplyr, genefilter, graph, graphite, glmnet, glassoFast, httr, igraph, magrittr, Matrix, msigdbr, org.Hs.eg.db, quadprog, RCy3, reshape2, rlang, Rcpp (≥ 1.0.2) |
| LinkingTo: | Rcpp, RcppEigen |
| Suggests: | knitr, MASS, rmarkdown |
| Published: | 2023-11-14 |
| DOI: | 10.32614/CRAN.package.netgsa |
| Author: | Michael Hellstern [aut, cre], Ali Shojaie [aut], Jing Ma [aut], Kun Yue [aut] |
| Maintainer: | Michael Hellstern |
| License: | GPL (≥ 3) |
| URL: | https://github.com/mikehellstern/netgsa |
| NeedsCompilation: | yes |
| Materials: | README NEWS |
| In views: | Omics |
| CRAN checks: | netgsa results |
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