Gene Set Analysis Exploiting Pathway Topology R package topologyGSA version 1.5.0 CRAN Task View: Omics (https://CRAN.R-project.org/view=Omics) Using Gaussian graphical models we propose a novel approach to perform pathway analysis using gene expression. Given the structure of a graph (a pathway) we introduce two statistical tests to compare the mean and the concentration matrices between two groups. Specifically, these tests can be performed on the graph and on its connected components (cliques). The package is based on the method described in Massa M.S., Chiogna M., Romualdi C. (2010) <doi:10.1186/1752-0509-4-121>. Software Imports: graph, gRbase (>= 2.0), qpgraph, fields, methods, igraph Suggests: Rgraphviz Gabriele Sales <gabriele.sales@unipd.it> Comprehensive R Archive Network (CRAN) Sofia Massa, Gabriele Sales GPL-3 2023-09-25 application/tgz https://CRAN.R-project.org/package=topologyGSA doi:10.32614/CRAN.package.topologyGSA