{ "_id": "6ac0bbe591601a2ad2997f80", "Package": "topologyGSA", "Version": "1.5.0", "Date": "2023-09-25", "Title": "Gene Set Analysis Exploiting Pathway Topology", "Author": "Sofia Massa, Gabriele Sales", "Maintainer": "Gabriele Sales ", "Description": "Using Gaussian graphical models we propose a novel\napproach to perform pathway analysis using gene expression.\nGiven the structure of a graph (a pathway) we introduce two\nstatistical tests to compare the mean and the concentration\nmatrices between two groups. Specifically, these tests can be\nperformed on the graph and on its connected components\n(cliques). The package is based on the method described in\nMassa M.S., Chiogna M., Romualdi C. (2010)\n.", "License": "GPL-3", "LazyLoad": "yes", "biocViews": "", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-03 08:19:21 UTC", "User": "root" }, "Config/pak/sysreqs": "libbz2-dev liblzma-dev libssl-dev xz-utils\nzlib1g-dev", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2023-09-25 19:30:42 UTC", "RemoteUrl": "https://github.com/cran/topologyGSA", "RemoteRef": "HEAD", "RemoteSha": "68c5de177606a4fc304a133147664c13b5bc3f98", "_user": "cran", "_type": "src", "_file": "topologyGSA_1.5.0.tar.gz", "_fileid": "https://r2.ropensci.org/fbd2b07b2cf77109b0ae16bf0cd141261aebef403dfc3fc0762e1e13aa6c091b", "_filesize": 164905, "_sha256": "fbd2b07b2cf77109b0ae16bf0cd141261aebef403dfc3fc0762e1e13aa6c091b", "_expires": "2027-01-11T08:25:07.000Z", "_created": "2026-10-03T08:19:21.000Z", "_published": "2026-10-03T08:25:09.697Z", "_jobs": [ { "job": 111164077900, "time": 278, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11268639911" }, { 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"extra/contents.json", "extra/manual.pdf", "extra/topologyGSA.html" ], "_realowner": "cran", "_cranurl": false, "_releases": [ { "version": "1.0", "date": "2011-06-24" }, { "version": "1.0.2", "date": "2011-11-10" }, { "version": "1.0.3", "date": "2011-12-22" }, { "version": "1.1.0", "date": "2012-07-18" }, { "version": "1.2.0", "date": "2013-03-01" }, { "version": "1.2.1", "date": "2013-06-26" }, { "version": "1.4.0", "date": "2013-10-23" }, { "version": "1.4.1", "date": "2013-11-19" }, { "version": "1.4.2", "date": "2013-12-12" }, { "version": "1.4.3", "date": "2014-03-26" }, { "version": "1.4.4", "date": "2014-08-02" }, { "version": "1.4.5", "date": "2015-07-09" }, { "version": "1.4.6", "date": "2016-09-22" }, { "version": "1.4.7", "date": "2021-07-07" }, { "version": "1.5.0", "date": "2023-09-25" } ], "_exports": [ "clique.mean.test", "clique.var.test", "pathway.mean.test", "pathway.var.test", "render.significant.cliques" ], "_datasets": [ { "name": "dag_bcell", "title": "DAG 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"NFAT", "GRB2", "SOS", "RaSGRP3", "Ras", "Raf", "MEK12", "ERK", "AP1", "PKCB", "BCL10", "IKK", "IKB", "NFKB", "FcgRIIB", "SHIP", "PI3K", "AKT", "GSK3B", "CD19", "CD21", "CD81", "LEU13" ], "rows": 41, "table": true, "tojson": true } ], "_help": [ { "page": "clique.mean.test", "title": "Comparison of all the cliques of a pathway.", "topics": [ "clique.mean.test" ] }, { "page": "clique.var.test", "title": "Testing the concentration matrices of all cliques of a pathway.", "topics": [ "clique.var.test" ] }, { "page": "dag_bcell", "title": "DAG representation of the B cell receptor signaling pathway", "topics": [ "dag_bcell" ] }, { "page": "pathway.mean.test", "title": "Testing the means of a pathway.", "topics": [ "pathway.mean.test" ] }, { "page": "pathway.var.test", "title": "Testing the concentration matrices of a pathway.", "topics": [ "pathway.var.test" ] }, { "page": "print", "title": "Print results of statistical tests.", "topics": [ "print.clique.mean.test", "print.clique.var.test", 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