{ "_id": "6a17e0c9acfb0bcc41d9ee72", "Type": "Package", "Package": "decoupleR", "Title": "decoupleR: Ensemble of computational methods to infer biological\nactivities from omics data", "Version": "2.19.0", "Authors@R": "c(person(given = \"Pau\",\nfamily = \"Badia-i-Mompel\",\nrole = c(\"aut\",\"cre\"),\nemail = \"pau.badia@uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-1004-3923\")),\nperson(given = \"Jesús\",\nfamily = \"Vélez-Santiago\",\nrole = c(\"aut\"),\nemail = \"jvelezmagic@gmail.com\",\ncomment = c(ORCID = \"0000-0001-5128-3838\")),\nperson(given = \"Jana\",\nfamily = \"Braunger\",\nrole = c(\"aut\"),\nemail = \"jana.bc@gmx.de\",\ncomment = c(ORCID = \"0000-0003-0820-9987\")),\nperson(given = \"Celina\",\nfamily = \"Geiss\",\nrole = c(\"aut\"),\nemail = \"celina.geiss@stud.uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-8740-706X\")),\nperson(given = \"Daniel\",\nfamily = \"Dimitrov\",\nrole = c(\"aut\"),\nemail = \"daniel.dimitrov@uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-5197-2112\")),\nperson(given = \"Sophia\",\nfamily = \"Müller-Dott\",\nrole = c(\"aut\"),\nemail = \"sophia.mueller-dott@uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-9710-1865\")),\nperson(given = \"Petr\",\nfamily = \"Taus\",\nrole = c(\"aut\"),\nemail = \"petr.taus@ceitec.muni.cz\",\ncomment = c(ORCID = \"0000-0003-3764-9033\")),\nperson(given = \"Aurélien\",\nfamily = \"Dugourd\",\nrole = c(\"aut\"),\nemail = \"aurelien.dugourd@bioquant.uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-0714-028X\")),\nperson(given = \"Christian H.\",\nfamily = \"Holland\",\nrole = \"aut\",\nemail = \"cholland2408@gmail.com\",\ncomment = c(ORCID = \"0000-0002-3060-5786\")),\nperson(given = \"Ricardo O.\",\nfamily = \"Ramirez Flores\",\nrole = c(\"aut\"),\nemail = \"roramirezf@uni-heidelberg.de \",\ncomment = c(ORCID = \"0000-0003-0087-371X\")),\nperson(given = \"Julio\",\nfamily = \"Saez-Rodriguez\",\nrole = c(\"aut\"),\nemail = \"pub.saez@uni-heidelberg.de\",\ncomment = c(ORCID = \"0000-0002-8552-8976\"))\n)", "Description": "Many methods allow us to extract biological activities\nfrom omics data using information from prior knowledge\nresources, reducing the dimensionality for increased\nstatistical power and better interpretability. Here, we present\ndecoupleR, a Bioconductor package containing different\nstatistical methods to extract these signatures within a\nunified framework. decoupleR allows the user to flexibly test\nany method with any resource. It incorporates methods that take\ninto account the sign and weight of network interactions.\ndecoupleR can be used with any omic, as long as its features\ncan be linked to a biological process based on prior knowledge.\nFor example, in transcriptomics gene sets regulated by a\ntranscription factor, or in phospho-proteomics phosphosites\nthat are targeted by a kinase.", "License": "GPL-3 + file LICENSE", "URL": "https://saezlab.github.io/decoupleR/", "BugReports": "https://github.com/saezlab/decoupleR/issues", "VignetteBuilder": "knitr", "biocViews": "DifferentialExpression, FunctionalGenomics, GeneExpression,\nGeneRegulation, Network, Software, StatisticalMethod,\nTranscription,", "Config/testthat/edition": "3", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.0", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:56:10 UTC", "RemoteUrl": "https://github.com/bioc/decoupleR", "RemoteRef": "HEAD", "RemoteSha": "1c21c614714eb6d0d30a7eca81d9a4f5c6f81e04", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-28 06:20:14 UTC", "User": "root" }, "Author": "Pau Badia-i-Mompel [aut, cre] (ORCID:\n),\nJesús Vélez-Santiago [aut] (ORCID:\n),\nJana Braunger [aut] (ORCID: ),\nCelina Geiss [aut] (ORCID: ),\nDaniel Dimitrov [aut] (ORCID: ),\nSophia Müller-Dott [aut] (ORCID:\n),\nPetr Taus [aut] (ORCID: ),\nAurélien Dugourd [aut] (ORCID: ),\nChristian H. Holland [aut] (ORCID:\n),\nRicardo O. Ramirez Flores [aut] (ORCID:\n),\nJulio Saez-Rodriguez [aut] (ORCID:\n)", "Maintainer": "Pau Badia-i-Mompel ", "MD5sum": "2e32f803e89fd40645fa20295f48729c", "_user": "bioc", "_type": "src", "_file": "decoupleR_2.19.0.tar.gz", "_fileid": "9f5879c287daa1cb143ea10aad44db7a1e23258f02652f0b8cbd0e95e27c5ba3", "_filesize": 3425508, "_sha256": "9f5879c287daa1cb143ea10aad44db7a1e23258f02652f0b8cbd0e95e27c5ba3", "_created": "2026-05-28T06:20:14.000Z", "_published": "2026-05-28T06:29:29.000Z", "_jobs": [ { "job": 78235177195, "time": 224, "config": "bioc-checks", "r": "4.6.0", "check": "WARNING", "artifact": "7259075155" }, { "job": 78235177188, "time": 515, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7259142618" }, { "job": 78235177134, "time": 492, "config": "linux-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7259137705" }, { "job": 78235177148, "time": 268, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "7259099035" 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