{ "_id": "6a59ba2209eb0996dd68d058", "Package": "meshr", "Title": "Tools for conducting enrichment analysis of MeSH", "Description": "A set of annotation maps describing the entire MeSH\nassembled using data from MeSH.", "Version": "2.19.0", "Author": "Koki Tsuyuzaki, Itoshi Nikaido, Gota Morota", "Maintainer": "Koki Tsuyuzaki ", "License": "Artistic-2.0", "biocViews": "AnnotationData, FunctionalAnnotation, Bioinformatics,\nStatistics, Annotation, MultipleComparisons, MeSHDb", "VignetteBuilder": "knitr", "BugReports": "https://github.com/rikenbit/meshr/issues", "Config/pak/sysreqs": "cmake make libpng-dev libuv1-dev libxml2-dev\nlibssl-dev zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:39:05 UTC", "RemoteUrl": "https://github.com/bioc/meshr", "RemoteRef": "HEAD", "RemoteSha": "530ff4e6094243d2cbeca547982788e57724c348", "NeedsCompilation": "no", "Packaged": { "Date": "2026-07-17 05:01:19 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "meshr_2.19.0.tar.gz", "_fileid": "https://r2.ropensci.org/967c80bbf064c44adbe23b786377b7e74d1db2a335ce0aaf221bbda28c0cf1bb", "_filesize": 916939, "_sha256": "967c80bbf064c44adbe23b786377b7e74d1db2a335ce0aaf221bbda28c0cf1bb", "_expires": "2026-10-25T05:14:08.000Z", "_created": "2026-07-17T05:01:19.000Z", "_published": "2026-07-17T05:14:09.916Z", "_bioccheck": { "error": 2, "warning": 7, "note": 9 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352", "_status": "success", "_upstream": "https://github.com/bioc/meshr", "_commit": { "id": "530ff4e6094243d2cbeca547982788e57724c348", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379945 }, "_maintainer": { "name": "Koki Tsuyuzaki", "email": "k.t.the-answer@hotmail.co.jp", "login": "kokitsuyuzaki", "description": "", "uuid": 2173745 }, "_distro": "resolute", "_jobs": [ { "job": 87808910777, "time": 172, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "8397562998" }, { "job": 87808910819, "time": 333, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "8397604372" }, { "job": 87808910786, "time": 317, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "8397600516" }, { "job": 87808910794, "time": 161, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "8397710818" }, { "job": 87808910801, "time": 129, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "8397695993" }, { "job": 87808343587, "time": 263, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8397519530" }, { "job": 87808910785, "time": 162, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8397560689" }, { "job": 87808910885, "time": 161, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "8397560214" }, { "job": 87808910793, "time": 183, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "8397566052" }, { "job": 87808910789, "time": 178, "config": "windows-release", "r": "4.6.1", "check": "NOTE", "artifact": "8397564691" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "markdown", "role": "Imports" }, { "package": "rmarkdown", "role": "Imports" }, { "package": "BiocStyle", "role": "Imports" }, { "package": "knitr", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "fdrtool", "role": "Imports" }, { "package": "MeSHDbi", "role": "Imports" }, { "package": "Category", "role": "Imports" }, { "package": "S4Vectors", "role": "Imports" }, { "package": "BiocGenerics", "role": "Imports" }, { "package": "RSQLite", "role": "Imports" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 1, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "2.19.0", "bioc": "3.24" }, { "branch": "release", "version": "2.18.0", "bioc": "3.23" } ], "_topics": [ "annotationdata", "functionalannotation", "bioinformatics", "statistics", "annotation", "multiplecomparisons", "meshdb" ], "_stars": 1, "_contributors": [ { "user": "kokitsuyuzaki", "count": 33, "uuid": 2173745 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 447, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 517, "source": "https://www.bioconductor.org/packages/stats/bioc/meshr" }, "_mentions": 6, "_devurl": "https://github.com/rikenbit/meshr", "_searchresults": 14, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/meshr.html", "extra/NEWS.html", "extra/NEWS.txt", "manual.pdf" ], "_homeurl": "https://github.com/rikenbit/meshr", "_realowner": "bioc", "_cranurl": false, "_exports": [ "annotation", "annotation<-", "category", "category<-", "database", "database<-", "geneIds", "initialize", "makeValidParams", "meshAnnotation", "meshCategory", "meshDatabase", "meshHyperGTest", "meshIds", "pAdjust", "pAdjust<-", "pvalueCutoff", "pvalueCutoff<-", "show", "summary", "universeGeneIds", "universeGeneIds<-" ], "_help": [ { "page": "meshr-package", "title": "Enrichment analysis for MeSH terms.", "topics": [ "meshr-package", "meshr" ] }, { "page": "category", "title": "A function to return the name of MeSH category", "topics": [ "category", "category,MeSHHyperGParams-method", "category<-", "category<-,MeSHHyperGParams,character-method", "generic,category" ] }, { "page": "database", "title": "A function to return the name of MeSH database", "topics": [ "database", "database,MeSHHyperGParams-method", "database<-", "database<-,MeSHHyperGParams,character-method", "generic,database" ] }, { "page": "MeSHHyperGParams-class", "title": "Class \"MeSHHyperGParams\"", "topics": [ "annotation,MeSHHyperGParams-method", "annotation<-,MeSHHyperGParams,character-method", "geneIds,MeSHHyperGParams-method", "geneIds<-,MeSHHyperGParams,ANY-method", "geneIds<-,MeSHHyperGParams,logical-method", "initialize,MeSHHyperGParams-method", "makeValidParams,MeSHHyperGParams-method", "MeSHHyperGParams-class", "pAdjust", "pAdjust,MeSHHyperGParams-method", "pAdjust<-", "pAdjust<-,MeSHHyperGParams,character-method", "pvalueCutoff,MeSHHyperGParams-method", "pvalueCutoff<-,MeSHHyperGParams-method", "universeGeneIds", "universeGeneIds,MeSHHyperGParams-method", "universeGeneIds<-", "universeGeneIds<-,MeSHHyperGParams,ANY-method", "universeGeneIds<-,MeSHHyperGParams,logical-method", "universeGeneIds<-,MeSHHyperGParams-method" ] }, { "page": "MeSHHyperGResult-class", "title": "Class \"MeSHHyperGResult\"", "topics": [ "meshAnnotation", "meshAnnotation,MeSHHyperGResult-method", "meshCategory", "meshCategory,MeSHHyperGResult-method", "meshDatabase", "meshDatabase,MeSHHyperGResult-method", "MeSHHyperGResult-class", "meshIds", "meshIds,MeSHHyperGResult-method", "meshTerms", "meshTerms,MeSHHyperGResult-method", "pvalues", "pvalues,MeSHHyperGResult-method", "show", "show,MeSHHyperGResult-method", "summary", "summary,MeSHHyperGResult-method" ] }, { "page": "meshHyperGTest", "title": "Hypergeometric Tests for MeSH term association", "topics": [ "meshHyperGTest", "meshHyperGTest,MeSHHyperGParams-method" ] } ], "_rundeps": [ "annotate", "AnnotationDbi", "askpass", "base64enc", "BH", "Biobase", "BiocGenerics", "BiocManager", "BiocStyle", "Biostrings", "bit", "bit64", "blob", "bookdown", "bslib", "cachem", "Category", "cli", "commonmark", "cpp11", "crayon", "curl", "DBI", "digest", "evaluate", "fastmap", "fdrtool", "fontawesome", "fs", "genefilter", "generics", "glue", "graph", "GSEABase", "highr", "htmltools", "httr", "IRanges", "jquerylib", "jsonlite", "KEGGREST", "knitr", "lattice", "lifecycle", "litedown", "markdown", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "MeSHDbi", "mime", "openssl", "pkgconfig", "png", "R6", "rappdirs", "RBGL", "rlang", "rmarkdown", "RSQLite", "S4Vectors", "sass", "Seqinfo", "survival", "sys", "tinytex", "vctrs", "xfun", "XML", "xtable", "XVector", "yaml" ], "_vignettes": [ { "source": "MeSH.Rmd", "filename": "MeSH.html", "title": "AnnotationHub-style MeSH ORA Framework from BioC 3.14", "author": "Koki Tsuyuzaki, Gota Morota, Manabu Ishii, Takeru Nakazato, Itoshi Nikaido", "engine": "knitr::rmarkdown", "headings": [ "What is MeSH?", "What is MeSH ORA Framework?", "Specification change of MeSH ORA Framework from BioC 3.14 (Nov. 2021)", "Access to MeSH data on AnnotationHub", "MeSH Enrichment Analysis", "Session Information" ], "created": "2021-08-20 08:34:12", "modified": "2021-10-18 09:26:09", "commits": 2 } ], "_score": 4.702430536445525, "_indexed": true, "_nocasepkg": "meshr", "_universes": [ "bioc", "kokitsuyuzaki", "rikenbit" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.19.0", "date": "2026-07-17T05:05:37.000Z", "distro": "resolute", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/3332ba38b7c43474ad50b3151f7a54110cdfc61408b22480a10383e2bf4c54a2", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.6.1", "os": "linux", "version": "2.19.0", "date": "2026-07-17T05:05:24.000Z", "distro": "resolute", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/2d2c61ddcc122f7429c354a37925420033383e0a38db49763bb36766f58bd835", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.5.3", "os": "mac", "version": "2.19.0", "date": "2026-07-17T05:12:42.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/9774f83757f8d27a100eb1eb865d67e1dae60fc13a1167d9262b80650bd501cf", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.6.1", "os": "mac", "version": "2.19.0", "date": "2026-07-17T05:11:54.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/5d9dae95ae33d59cff6fc0a4d0e6c0354bfcee8f27f3125f8068d2fdd8d0214e", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.6.0", "os": "wasm", "version": "2.19.0", "date": "2026-07-17T05:04:27.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/d68a5fd46af0ae1742061bbc85476da66b4ebfe8f637473469c1aa7f93530762", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.7.0", "os": "win", "version": "2.19.0", "date": "2026-07-17T05:03:02.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/5a7d21007157d711d18e3bb7d4b02151b7853ea4ad9d834ad9900bf466ee0f77", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.5.3", "os": "win", "version": "2.19.0", "date": "2026-07-17T05:03:06.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/8a1b07eca07e4d89d2e3c42ebe636594f3c5db2691fe999bfc2f1cd1aebaf7b0", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" }, { "r": "4.6.1", "os": "win", "version": "2.19.0", "date": "2026-07-17T05:03:02.000Z", "commit": "530ff4e6094243d2cbeca547982788e57724c348", "fileid": "https://r2.ropensci.org/2ceab56f471474916f703ea5c2e6bb6dae098a9fc44f2e8acff39cb22e32f553", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29556080352" } ] }