{ "_id": "6a267efe794753ddbc3f0338", "Package": "isatabr", "Type": "Package", "Date": "2022-08-19", "Title": "Implementation for the ISA Abstract Model", "Version": "1.0.1.9000", "Description": "ISA is a metadata framework to manage an increasingly\ndiverse set of life science, environmental and biomedical\nexperiments. In isatabr methods for reading, modifying and\nwriting of files in the ISA-Tab format are implemented. It also\ncontains methods for processing assay data.", "Authors@R": "c(\nperson(\"Bart-Jan\", \"van Rossum\", role = c(\"aut\", \"cre\"),\nemail = \"bart-jan.vanrossum@wur.nl\",\ncomment = c(ORCID = \"0000-0002-8673-2514\")),\nperson(\"Maikel\", \"Verouden\", role = c(\"aut\"),\nemail = \"maikel.verouden@wur.nl\",\ncomment = c(ORCID = \"0000-0002-4893-3323\")))", "Encoding": "UTF-8", "License": "GPL-3", "URL": "https://github.com/Biometris/isatabr/", "BugReports": "https://github.com/Biometris/isatabr/issues", "RoxygenNote": "7.2.3", "Roxygen": "list(markdown = TRUE)", "VignetteBuilder": "knitr", "Repository": "https://biometris.r-universe.dev", "Date/Publication": "2023-08-25 07:58:32 UTC", "RemoteUrl": "https://github.com/biometris/isatabr", "RemoteRef": "HEAD", "RemoteSha": "1a17b87454b42449b5f7bd76c89456089cd7a2a5", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-08 08:32:16 UTC", "User": "root" }, "Author": "Bart-Jan van Rossum [aut, cre] (ORCID:\n),\nMaikel Verouden [aut] (ORCID: )", "Maintainer": "Bart-Jan van Rossum ", "MD5sum": "17cacc6ba3ec2d2f2a8a04e6e6a6a18d", "_user": "biometris", "_type": "src", "_file": "isatabr_1.0.1.9000.tar.gz", "_fileid": "d90768f09bc7e173a6cb1a148b6f6cef76ff0ebd4f3c2ed68e22ee15a27b184c", "_filesize": 1688872, "_sha256": "d90768f09bc7e173a6cb1a148b6f6cef76ff0ebd4f3c2ed68e22ee15a27b184c", "_created": "2026-06-08T08:32:16.000Z", "_published": "2026-06-08T08:36:14.135Z", "_distro": "noble", "_jobs": [ { "job": 80053067054, "time": 184, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7475169477" }, { "job": 80053067103, "time": 187, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7475170442" }, { "job": 80053067085, "time": 194, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7475172070" }, { "job": 80053067256, "time": 107, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7475141852" }, { "job": 80052378349, "time": 242, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7475103391" }, { "job": 80053067039, "time": 141, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7475154435" }, { "job": 80053067089, "time": 123, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7475147772" }, { "job": 80053067066, "time": 137, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7475153213" }, { "job": 80053067115, "time": 136, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7475152526" } ], "_buildurl": "https://github.com/r-universe/biometris/actions/runs/27125319849", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/biometris/isatabr", "_commit": { "id": "1a17b87454b42449b5f7bd76c89456089cd7a2a5", "author": "Bart-Jan van Rossum ", "committer": "Bart-Jan van Rossum ", "message": "Small fix\n", "time": 1692950312 }, "_maintainer": { "name": "Bart-Jan van Rossum", "email": "bart-jan.vanrossum@wur.nl", "login": "bartjanvanrossum", "description": "", "uuid": 28725410, "orcid": "0000-0002-8673-2514" }, "_registered": true, "_dependencies": [ { "package": "methods", "role": "Depends" }, { "package": "tinytest", "role": "Suggests" }, { "package": "affy", "role": "Suggests" }, { "package": "Biobase", "role": "Suggests" }, { "package": "xcms", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "biometris", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_topics": [ "isa", "isatab" ], "_stars": 0, "_contributors": [ { "user": "bartjanvanrossum", "count": 97, "uuid": 28725410 }, { "user": "mverouden", "count": 6, "uuid": 10537455 } ], "_userbio": { "uuid": 60092315, "type": "organization", "name": "Wageningen Universtiy & Research, Biometris", "description": "Biometris develops statistical and mathematical methods for the quantification of biological processes and processes in our living environment." }, "_downloads": { "count": 206, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/isatabr" }, "_devurl": "https://github.com/biometris/isatabr", "_searchresults": 3, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/isatabr.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/biometris/isatabr", "_realowner": "biometris", "_cranurl": true, "_releases": [ { "version": "1.0.0", "date": "2021-07-16" }, { "version": "1.0.1", "date": "2022-08-19" } ], "_exports": [ "aFiles", "aFiles<-", "getAssayFileNames", "getAssayTabs", "getStudyFileNames", "iContacts", "iContacts<-", "iFileName", "iFileName<-", "initialize", "invest", "invest<-", "iPubs", "iPubs<-", "isaPath", "isaPath<-", "oSR", "oSR<-", "processAssay", "readISATab", "sAssays", "sAssays<-", "sContacts", "sContacts<-", "sDD", "sDD<-", "sFacts", "sFacts<-", "sFiles", "sFiles<-", "sProts", "sProts<-", "sPubs", "sPubs<-", "study", "study<-", "validISAObject", "writeAssayFiles", "writeInvestigationFile", "writeISAtab", "writeStudyFiles" ], "_help": [ { "page": "aFiles", "title": "Get and set aFiles.", "topics": [ "aFiles", "aFiles,ISA-method", "aFiles<-", "aFiles<-,ISA-method" ] }, { "page": "assayTab-class", "title": "S4 Class assayTab, initialization methods", "topics": [ "assayTab", "assayTab-class", "microarrayAssayTab", "microarrayAssayTab-class", "msAssayTab", "msAssayTab-class" ] }, { "page": "getAssayFileNames", "title": "Retrieve the Assay File Name(s) per Study from an ISA object.", "topics": [ "getAssayFileNames" ] }, { "page": "getAssayTabs", "title": "Retrieve Assay Tables from an ISA object.", "topics": [ "getAssayTabs" ] }, { "page": "getStudyFileNames", "title": "Retrieve the Study Identifier(s) and Study File Name(s) from an ISA object.", "topics": [ "getStudyFileNames" ] }, { "page": "iContacts", "title": "Get and set iContacts.", "topics": [ "iContacts", "iContacts,ISA-method", "iContacts<-", "iContacts<-,ISA-method" ] }, { "page": "iFileName", "title": "Get and set iFileName", "topics": [ "iFileName", "iFileName,ISA-method", "iFileName<-", "iFileName<-,ISA-method" ] }, { "page": "invest", "title": "Get and set invest.", "topics": [ "invest", "invest,ISA-method", "invest<-", "invest<-,ISA-method" ] }, { "page": "iPubs", "title": "Get and set iPubs.", "topics": [ "iPubs", "iPubs,ISA-method", "iPubs<-", "iPubs<-,ISA-method" ] }, { "page": "ISA-class", "title": "S4 Class ISA, initialization method", "topics": [ "initialize,ISA-method", "ISA", "ISA-class", "ISA-initialize" ] }, { "page": "isaPath", "title": "Get and set path", "topics": [ "isaPath", "isaPath,ISA-method", "isaPath<-", "isaPath<-,ISA-method" ] }, { "page": "oSR", "title": "Get and set oSR", "topics": [ "oSR", "oSR,ISA-method", "oSR<-", "oSR<-,ISA-method" ] }, { "page": "processAssay-methods", "title": "Process assay tab data", "topics": [ "processAssay", "processAssay,ISA,assayTab,character-method", "processAssay,ISA,assayTab-method", "processAssay,ISA,microarrayAssayTab,character-method", "processAssay,ISA,msAssayTab,character-method", "processAssay,ISA,msAssayTab-method" ] }, { "page": "readISATab", "title": "Read an ISA-Tab dataset into an R object.", "topics": [ "readISATab" ] }, { "page": "sAssays", "title": "Get and set sAssays.", "topics": [ "sAssays", "sAssays,ISA-method", "sAssays<-", "sAssays<-,ISA-method" ] }, { "page": "sContacts", "title": "Get and set sContacts.", "topics": [ "sContacts", "sContacts,ISA-method", "sContacts<-", "sContacts<-,ISA-method" ] }, { "page": "sDD", "title": "Get and set sDD.", "topics": [ "sDD", "sDD,ISA-method", "sDD<-", "sDD<-,ISA-method" ] }, { "page": "sFacts", "title": "Get and set sFacts.", "topics": [ "sFacts", "sFacts,ISA-method", "sFacts<-", "sFacts<-,ISA-method" ] }, { "page": "sFiles", "title": "Get and set sFiles.", "topics": [ "sFiles", "sFiles,ISA-method", "sFiles<-", "sFiles<-,ISA-method" ] }, { "page": "sProts", "title": "Get and set sProts.", "topics": [ "sProts", "sProts,ISA-method", "sProts<-", "sProts<-,ISA-method" ] }, { "page": "sPubs", "title": "Get and set sPubs.", "topics": [ "sPubs", "sPubs,ISA-method", "sPubs<-", "sPubs<-,ISA-method" ] }, { "page": "study", "title": "Get and set study.", "topics": [ "study", "study,ISA-method", "study<-", "study<-,ISA-method" ] }, { "page": "validISAObject", "title": "Check the validity of an object of class ISA.", "topics": [ "validISAObject" ] }, { "page": "writeISAtab", "title": "Write ISA-Tab object.", "topics": [ "writeAssayFiles", "writeInvestigationFile", "writeISAtab", "writeStudyFiles" ] } ], "_readme": "https://github.com/biometris/isatabr/raw/HEAD/README.md", "_rundeps": [], "_vignettes": [ { "source": "isatabr.Rmd", "filename": "isatabr.html", "title": "An introduction to the isatabr package", "author": "Bart-Jan van Rossum", "engine": "knitr::rmarkdown", "headings": [ "The isatabr package", "The ISA tab structure", "The Investigation file", "The Study file", "The Assay file", "Example data", "Reading files in the ISA-Tab format", "Accessing and updating ISA objects.", "Processing assay files", "Mass spectrometry assay files", "Microarray assay files", "Writing files in the ISA-Tab format.", "References" ], "created": "2021-06-18 13:45:55", "modified": "2021-07-14 07:26:15", "commits": 12 } ], "_score": 3.6989700043360187, "_indexed": true, "_nocasepkg": "isatabr", "_universes": [ "biometris", "bartjanvanrossum" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.1.9000", "date": "2026-06-08T08:35:04.000Z", "distro": "noble", "commit": "1a17b87454b42449b5f7bd76c89456089cd7a2a5", "fileid": "bf33d84615d164ec06af9e82ce02f189461539967a0bf9b3753226a64159999e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/biometris/actions/runs/27125319849" }, { "r": 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