{ "_id": "6a1acda61d7bb097a09df50c", "Package": "GOexpress", "Title": "Visualise microarray and RNAseq data using gene ontology\nannotations", "Version": "1.47.0", "Date": "2025-09-03", "Authors@R": "c(\nperson(given=\"Kevin\", family=\"Rue-Albrecht\",\nrole = c(\"aut\", \"cre\"), email = \"kevinrue67@gmail.com\"),\nperson(give=c(\"Tharvesh\", \"M.L.\"), family=\"Ali\", role = c(\"ctb\")),\nperson(given=c(\"Paul\", \"A.\"), family=\"McGettigan\", role = c(\"ctb\")),\nperson(given=\"Belinda\", family=\"Hernandez\", role = c(\"ctb\")),\nperson(given=\"David A.\", family=\"Magee\", role = c(\"ctb\")),\nperson(given=\"Nicolas C.\", family=\"Nalpas\", role = c(\"ctb\")),\nperson(given=\"Andrew\", family=\"Parnell\", role = c(\"ctb\")),\nperson(given=c(\"Stephen\", \"V.\"), family=\"Gordon\", role = c(\"ths\")),\nperson(given=c(\"David\", \"E.\"), family=\"MacHugh\", role = c(\"ths\")),\nperson(given=\"Hugo\", family=\"Gruson\", role = c(\"ctb\")))", "Description": "The package contains methods to visualise the expression\nprofile of genes from a microarray or RNA-seq experiment, and\noffers a supervised clustering approach to identify GO terms\ncontaining genes with expression levels that best classify two\nor more predefined groups of samples. Annotations for the genes\npresent in the expression dataset may be obtained from Ensembl\nthrough the biomaRt package, if not provided by the user. The\ndefault random forest framework is used to evaluate the\ncapacity of each gene to cluster samples according to the\nfactor of interest. Finally, GO terms are scored by averaging\nthe rank (alternatively, score) of their respective gene sets\nto cluster the samples. P-values may be computed to assess the\nsignificance of GO term ranking. Visualisation function include\ngene expression profile, gene ontology-based heatmaps, and\nhierarchical clustering of experimental samples using gene\nexpression data.", "License": "GPL (>= 3)", "biocViews": "Software, GeneExpression, Transcription,\nDifferentialExpression, GeneSetEnrichment, DataRepresentation,\nClustering, TimeCourse, Microarray, Sequencing, RNASeq,\nAnnotation, MultipleComparison, Pathways, GO, Visualization,\nImmunoOncology", "URL": "https://github.com/kevinrue/GOexpress", "LazyData": "true", "Config/pak/sysreqs": "make libicu-dev libpng-dev libxml2-dev libssl-dev\nzlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:39:46 UTC", "RemoteUrl": "https://github.com/bioc/GOexpress", "RemoteRef": "HEAD", "RemoteSha": "7e872b08cdb2dd3051e10e39f5380d74229a94de", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 08:09:46 UTC", "User": "root" }, "Author": "Kevin Rue-Albrecht [aut, cre],\nTharvesh M.L. Ali [ctb],\nPaul A. McGettigan [ctb],\nBelinda Hernandez [ctb],\nDavid A. Magee [ctb],\nNicolas C. Nalpas [ctb],\nAndrew Parnell [ctb],\nStephen V. Gordon [ths],\nDavid E. MacHugh [ths],\nHugo Gruson [ctb]", "Maintainer": "Kevin Rue-Albrecht ", "MD5sum": "77b00afce924c85525b65d482c233ade", "_user": "bioc", "_type": "src", "_file": "GOexpress_1.47.0.tar.gz", "_fileid": "5fe15549be2f10c7e251793e215ff761bac483f3566d8a2dcf731abb6c288729", "_filesize": 2686340, "_sha256": "5fe15549be2f10c7e251793e215ff761bac483f3566d8a2dcf731abb6c288729", "_created": "2026-05-30T08:09:46.000Z", "_published": "2026-05-30T11:44:38.354Z", "_jobs": [ { "job": 78635665135, "time": 198, "config": "bioc-checks", "r": "4.6.0", "check": "WARNING", "artifact": "7306742173" }, { "job": 78635665147, "time": 277, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7306749529" }, { "job": 78635665125, "time": 294, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7306751141" }, { "job": 78635665133, "time": 213, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7307931396" }, { "job": 78635665117, "time": 153, 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Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379986 }, "_maintainer": { "name": "Kevin Rue-Albrecht", "email": "kevinrue67@gmail.com", "login": "kevinrue", "mastodon": "@kevinrue@fosstodon.org", "description": "Ingénieur diplômé;\nComputational Biologist; \nSoftware engineer;\nBioconductor contributor", "uuid": 5769108 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.4", "role": "Depends" }, { "package": "grid", "role": "Depends" }, { "package": "stats", "role": "Depends" }, { "package": "graphics", "role": "Depends" }, { "package": "Biobase", "version": ">= 2.22.0", "role": "Depends" }, { "package": "biomaRt", "version": ">= 2.18.0", "role": "Imports" }, { "package": "stringr", "version": ">= 0.6.2", "role": "Imports" }, { "package": "ggplot2", "version": ">= 0.9.0", "role": "Imports" }, { "package": "RColorBrewer", "version": ">= 1.0", "role": 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