{ "_id": "6ac20594773a0037682c0a6b", "Package": "ClueR", "Type": "Package", "Title": "Cluster Evaluation", "Version": "1.4.2", "Date": "2023-11-14", "Author": "Pengyi Yang", "Maintainer": "Pengyi Yang ", "Description": "CLUster Evaluation (CLUE) is a computational method for\nidentifying optimal number of clusters in a given time-course\ndataset clustered by cmeans or kmeans algorithms and\nsubsequently identify key kinases or pathways from each\ncluster. Its implementation in R is called ClueR. See README on\n for more details. P Yang et\nal. (2015) .", "License": "GPL-3", "Encoding": "UTF-8", "RoxygenNote": "7.2.3", "Repository": "https://pyanglab.r-universe.dev", "Date/Publication": "2023-11-14 09:49:09 UTC", "RemoteUrl": "https://github.com/pyanglab/cluer", "RemoteRef": "HEAD", "RemoteSha": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-04 07:37:57 UTC", "User": "root" }, "_user": "pyanglab", "_type": "src", "_file": "ClueR_1.4.2.tar.gz", "_fileid": "https://r2.ropensci.org/eba2c3b244b41e79576737da78cc8e98b07295a8bab70d5598a83b739e8b40b1", "_filesize": 3404208, "_sha256": "eba2c3b244b41e79576737da78cc8e98b07295a8bab70d5598a83b739e8b40b1", "_expires": "2027-01-12T07:51:46.000Z", "_created": "2026-10-04T07:37:57.000Z", "_published": "2026-10-04T07:51:48.828Z", "_jobs": [ { "job": 111389100786, "time": 91, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11297167960" }, { "job": 111389100855, "time": 90, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11297192856" }, { "job": 111389100779, "time": 114, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "11298040000" }, { "job": 111389100816, "time": 178, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "11297421637" }, { "job": 111388749577, "time": 134, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11297167820" }, { "job": 111389100782, "time": 70, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11297450409" }, { "job": 111389100835, "time": 68, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11296404294" }, { "job": 111389100819, "time": 65, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "11296279757" }, { "job": 111389100868, "time": 50, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11297177905" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096", "_status": "success", "_upstream": "https://github.com/pyanglab/cluer", "_commit": { "id": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "author": "PengyiYang ", "committer": "PengyiYang ", "message": "fix the date\n", "time": 1699955349 }, "_maintainer": { "name": "Pengyi Yang", "email": "yangpy7@gmail.com", "login": "pyanglab", "description": "A central repository for projects of the Computational Systems Biology (CSB) group.", "uuid": 10148940 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10.0", "role": "Depends" }, { "package": "e1071", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" } ], "_owner": "pyanglab", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 11, "_contributors": [ { "user": "pengyiyang", "count": 35, "uuid": 90130745 }, { "user": "pyanglab", "count": 20, "uuid": 10148940 }, { "user": "taiyunkim", "count": 3, "uuid": 32530182 } ], "_userbio": { "uuid": 10148940, "type": "user", "name": "CSB Yang Laboratory", "followers": 73, "description": "A central repository for projects of the Computational Systems Biology (CSB) group." }, "_downloads": { "count": 430, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ClueR" }, "_devurl": "https://github.com/pyanglab/cluer", "_searchresults": 21, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/ClueR.html", "extra/contents.json", "extra/manual.pdf", "extra/readme.html", "extra/readme.md" ], "_homeurl": "https://github.com/pyanglab/cluer", "_realowner": "pyanglab", "_cranurl": true, "_releases": [ { "version": "1.0", "date": "2015-02-04" }, { "version": "1.1", "date": "2015-10-27" }, { "version": "1.2", "date": "2017-04-30" }, { "version": "1.3", "date": "2018-06-11" }, { "version": "1.4", "date": "2018-09-29" }, { "version": "1.4.2", "date": "2023-11-15" } ], "_exports": [ "clustEnrichment", "clustOptimal", "enrichmentTest", "fuzzPlot", "runClue", "temporalSimu" ], "_datasets": [ { "name": "adipocyte", "title": "Mouse adipocyte differentiation gene expression (microarray) data", "object": "adipocyte", "file": "adipocyte.rda", "class": [ "matrix", "array" ], "fields": [ "t0", "t05", "t1", "t2", "t4", "t48", "t8", "DE" ], "rows": 24213, "table": true, "tojson": true }, { "name": "hES", "title": "Human embryonic stem cell phosphoproteomics data", "object": "hES", "file": "hES.rda", "class": [ "matrix", "array" ], "fields": [ "0", "30m", "1hr", "6hrs", "24hrs" ], "rows": 3416, "table": true, "tojson": true }, { "name": "Pathways.biocarta", "title": "Biocarta pathway annotations", "object": "Pathways", "file": "Pathways.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "Pathways.DAVID", "title": "DAVID pathway annotations", "object": "Pathways", "file": "Pathways.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "Pathways.KEGG", "title": "KEGG pathway annotations", "object": "Pathways", "file": "Pathways.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "Pathways.reactome", "title": "Reactome pathway annotations", "object": "Pathways", "file": "Pathways.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "PhosphoELM.human", "title": "Phospho.ELM annotations for human", "object": "PhosphoELM", "file": "PhosphoELM.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "PhosphoELM.mouse", "title": "Phospho.ELM annotations for mouse", "object": "PhosphoELM", "file": "PhosphoELM.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "PhosphoSite.human", "title": "PhosphoSitePlus annotations for human", "object": "PhosphoSite", "file": "PhosphoSite.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "PhosphoSite.mouse", "title": "PhosphoSitePlus annotations for mouse", "object": "PhosphoSite", "file": "PhosphoSite.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "ClueR-package", "title": "CLUster Evaluation R package", "topics": [ "ClueR-package", "CLUE", "ClueR" ] }, { "page": "adipocyte", "title": "Mouse adipocyte differentiation gene expression (microarray) data", "topics": [ "adipocyte" ] }, { "page": "clustEnrichment", "title": "Cluster enrichment test", "topics": [ "clustEnrichment" ] }, { "page": "clustOptimal", "title": "Generate optimal clustering", "topics": [ "clustOptimal" ] }, { "page": "enrichmentTest", "title": "Fisher's exact test-based enrichment test", "topics": [ "enrichmentTest" ] }, { "page": "fuzzPlot", "title": "Visualize fuzzy clustering results", "topics": [ "fuzzPlot" ] }, { "page": "hES", "title": "Human embryonic stem cell phosphoproteomics data", "topics": [ "hES" ] }, { "page": "Pathways.biocarta", "title": "Biocarta pathway annotations", "topics": [ "Pathways.biocarta" ] }, { "page": "Pathways.DAVID", "title": "DAVID pathway annotations", "topics": [ "Pathways.DAVID" ] }, { "page": "Pathways.KEGG", "title": "KEGG pathway annotations", "topics": [ "Pathways.KEGG" ] }, { "page": "Pathways.reactome", "title": "Reactome pathway annotations", "topics": [ "Pathways.reactome" ] }, { "page": "PhosphoELM.human", "title": "Phospho.ELM annotations for human", "topics": [ "PhosphoELM.human" ] }, { "page": "PhosphoELM.mouse", "title": "Phospho.ELM annotations for mouse", "topics": [ "PhosphoELM.mouse" ] }, { "page": "PhosphoSite.human", "title": "PhosphoSitePlus annotations for human", "topics": [ "PhosphoSite.human" ] }, { "page": "PhosphoSite.mouse", "title": "PhosphoSitePlus annotations for mouse", "topics": [ "PhosphoSite.mouse" ] }, { "page": "runClue", "title": "Run CLUster Evaluation", "topics": [ "runClue" ] }, { "page": "temporalSimu", "title": "Temporal data simulation", "topics": [ "temporalSimu" ] } ], "_readme": "https://github.com/pyanglab/cluer/raw/HEAD/README.md", "_rundeps": [ "class", "e1071", "proxy" ], "_score": 4.363611979892144, "_indexed": true, "_nocasepkg": "cluer", "_universes": [ "pyanglab" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.4.2", "date": "2026-10-04T07:39:33.000Z", "distro": "resolute", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/af53ee08d7d97f8d42a16c52ef5411e87ea714060fa0ac03ed200292b5816194", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.6.1", "os": "linux", "version": "1.4.2", "date": "2026-10-04T07:39:32.000Z", "distro": "resolute", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/14cab33206be2af6aabf80e9ef44cdcdc3f4cee26c66bc73f9e1d587dc13a8e2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.5.3", "os": "mac", "version": "1.4.2", "date": "2026-10-04T07:48:33.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/6d4a84e18dc4001e1aeef998e8dbabe58bb50c29f89903d13b2b5e9ae3304479", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.6.1", "os": "mac", "version": "1.4.2", "date": "2026-10-04T07:50:22.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/9d3d06fcbb0d7b1ff43a4a89e003175feae7e6ae03f4efea6ddcf8b56b88e126", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.6.0", "os": "wasm", "version": "1.4.2", "date": "2026-10-04T07:39:27.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/9abe1fe4f41bc76f87d7a9ff3b13defc4b95d605618a29c4d5e3dac230c554bd", "status": "success", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.7.0", "os": "win", "version": "1.4.2", "date": "2026-10-04T07:39:02.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/5be995085dbc3cb5ba2c8268dea0e90e0da10c73302bac5998aa4b911a6b549b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.5.3", "os": "win", "version": "1.4.2", "date": "2026-10-04T07:38:57.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/18a93e5c3a531e654b59ec9c81abe347c2270282e0da23b78121d80a62b3fe6d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" }, { "r": "4.6.1", "os": "win", "version": "1.4.2", "date": "2026-10-04T07:38:52.000Z", "commit": "6dbfcaa079c58e11918e944c8ecd0b3392bbc619", "fileid": "https://r2.ropensci.org/7dcb48dbae12dabc338d7c9b6fa2b7c1de3237f2bc49d41390bc6139080660a1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/pyanglab/actions/runs/37186263096" } ] }