{ "_id": "6ac28c53d743750d376d8bfa", "Package": "recountWorkflow", "Title": "recount workflow: accessing over 70,000 human RNA-seq samples\nwith Bioconductor", "Version": "1.36.0", "Date": "2024-05-21", "Authors@R": "c(person(\"Leonardo\", \"Collado-Torres\", role = c(\"aut\", \"cre\"),\nemail = \"lcolladotor@gmail.com\"), person(\"Abhinav\", \"Nellore\", role = \"ctb\",\nemail = \"anellore@gmail.com\"), person(c(\"Andrew\", \"E.\"), \"Jaffe\",\nrole = \"ctb\", email = \"andrew.jaffe@libd.org\"))", "Description": "The recount2 resource is composed of over 70,000 uniformly\nprocessed human RNA-seq samples spanning TCGA and SRA,\nincluding GTEx. The processed data can be accessed via the\nrecount2 website and the recount Bioconductor package. This\nworkflow explains in detail how to use the recount package and\nhow to integrate it with other Bioconductor packages for\nseveral analyses that can be carried out with the recount2\nresource. In particular, we describe how the coverage count\nmatrices were computed in recount2 as well as different ways of\nobtaining public metadata, which can facilitate downstream\nanalyses. Step-by-step directions show how to do a gene level\ndifferential expression analysis, visualize base-level genome\ncoverage data, and perform an analyses at multiple feature\nlevels. This workflow thus provides further information to\nunderstand the data in recount2 and a compendium of R code to\nuse the data.", "License": "Artistic-2.0", "Encoding": "UTF-8", "biocViews": "Workflow, ResourceQueryingWorkflow", "VignetteBuilder": "knitr", "NeedsCompilation": "no", "Workflow": "true", "URL": "https://github.com/LieberInstitute/recountWorkflow", "BugReports": "https://support.bioconductor.org/t/recountWorkflow/", "RoxygenNote": "7.2.3", "Config/pak/sysreqs": "libcairo2-dev cmake libfontconfig1-dev\nlibfreetype6-dev libglpk-dev make libbz2-dev libicu-dev\nliblzma-dev libpng-dev libuv1-dev libxml2-dev libssl-dev\nlibx11-dev xz-utils zlib1g-dev", "Repository": "Bioconductor 3.23", "Date/Publication": "2026-04-28 12:43:06 UTC", "RemoteUrl": "https://github.com/bioc/recountWorkflow", "RemoteRef": "RELEASE_3_23", "RemoteSha": "6ce0aaf55da837ec84d44daa78b0c92a6e5cf999", "Packaged": { "Date": "2026-10-04 17:14:38 UTC", "User": "root" }, "Author": "Leonardo Collado-Torres [aut, cre],\nAbhinav Nellore [ctb],\nAndrew E. 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