{ "_id": "6a1947b5acfb0bcc41dda0f6", "Package": "flowPlots", "Type": "Package", "Version": "1.60.0", "Title": "flowPlots: analysis plots and data class for gated flow\ncytometry data", "Description": "Graphical displays with embedded statistical tests for\ngated ICS flow cytometry data, and a data class which stores\n\"stacked\" data and has methods for computing summary measures\non stacked data, such as marginal and polyfunctional degree\ndata.", "Author": "N. Hawkins, S. Self", "Maintainer": "N. Hawkins ", "LazyData": "yes", "License": "Artistic-2.0", "biocViews": "ImmunoOncology, FlowCytometry, CellBasedAssays,\nVisualization, DataRepresentation", "Repository": "https://bioc-release.r-universe.dev", "Date/Publication": "2026-04-28 12:35:14 UTC", "RemoteUrl": "https://github.com/bioc/flowPlots", "RemoteRef": "RELEASE_3_23", "RemoteSha": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-29 06:58:45 UTC", "User": "root" }, "MD5sum": "60317712ee4b59e996ad8bcab5f74b7c", "_user": "bioc-release", "_type": "src", "_file": "flowPlots_1.60.0.tar.gz", "_fileid": "43885122266b15814320a2dad20291f9974d24a6f0c9a0eec01ea931c1565988", "_filesize": 624155, "_sha256": "43885122266b15814320a2dad20291f9974d24a6f0c9a0eec01ea931c1565988", "_created": "2026-05-29T06:58:45.000Z", "_published": "2026-05-29T08:00:53.347Z", "_jobs": [ { "job": 78453375333, "time": 137, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7284960569" }, { "job": 78453375341, "time": 181, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7284971287" }, { "job": 78453375400, "time": 138, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7284960735" }, { "job": 78453375379, "time": 78, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7285928090" }, { "job": 78453375406, "time": 84, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7285934439" }, { "job": 78453031727, "time": 166, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7284927081" }, { "job": 78453375388, "time": 87, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7284948321" }, { "job": 78453375439, "time": 83, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7284947284" }, { "job": 78453375375, "time": 72, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7284944849" }, { "job": 78453375393, "time": 71, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7284944327" } ], "_bioccheck": { "error": 1, "warning": 4, "note": 15 }, "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/flowPlots", "_commit": { "id": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n", "time": 1777379714 }, "_maintainer": { "name": "N. Hawkins", "email": "hawkins@fhcrc.org" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.13.0", "role": "Depends" }, { "package": "methods", "role": "Depends" }, { "package": "vcd", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 1 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.61.0", "bioc": "3.24" }, { "branch": "release", "version": "1.60.0", "bioc": "3.23" } ], "_topics": [ "immunooncology", "flowcytometry", "cellbasedassays", "visualization", "datarepresentation" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 350, "source": "https://www.bioconductor.org/packages/stats/bioc/flowPlots" }, "_searchresults": 1, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/flowPlots.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "computeMarginalData", "computeMarkers", "computePFDData", "computePFDGroupStatsList", "computePFDPartsData", "computeProfileData", "GroupListBoxplot", "legendPFDStatsGroupNames", "makeBarplotData", "makeDataList", "makeTernaryData", "marginalData", "marginalData<-", "markers", "markers<-", "pfdData", "pfdData<-", "pfdPartsData", "pfdPartsData<-", "profileData", "profileData<-", "readStackedData", "stackedData", "stackedData<-" ], "_datasets": [ { "name": "adultsNeonates", "title": "The adultsNeonates example data set of \"stacked\" data.", "object": "adultsNeonates", "class": [ "data.frame" ], "fields": [ "id", "group", "stim", "concGroup", "cell", "percentAll", "count", "totalCount", "percentReactive", "cytCombo" ], "rows": 6912, "table": true, "tojson": true }, { "name": "marginalDF", "title": "An example of marginalData", "object": "marginalDF", "class": [ "data.frame" ], "fields": [ "TNFa", "IL6", "IL12", "IFNa", "AnyMarker", "stim", "concGroup", "cell", "groups", "subjectId", "group" ], "rows": 432, "table": true, "tojson": true }, { "name": "markerMatrix", "title": "An example of the markers data.", "object": "markerMatrix", "class": [ "matrix", "array" ], "fields": [ "TNFa", "IL6", "IL12", "IFNa" ], "rows": 16, "table": true, "tojson": true }, { "name": "pfdDF", "title": "An example of pfdData", "object": "pfdDF", "class": [ "data.frame" ], "fields": [ "PFD1", "PFD2", "PFD3", "PFD4", "stim", "concGroup", "cell", "groups", "subjectId", "group" ], "rows": 432, "table": true, "tojson": true }, { "name": "pfdPartsList", "title": "An example of pfdPartsData", "object": "pfdPartsList", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "profileDF", "title": "An example of profileData", "object": "profileDF", "class": [ "data.frame" ], "fields": [ "TNFa+IL6+IL12+IFNa+", "TNFa+IL6+IL12+IFNa-", "TNFa+IL6+IL12-IFNa+", "TNFa+IL6+IL12-IFNa-", "TNFa+IL6-IL12+IFNa+", "TNFa+IL6-IL12+IFNa-", "TNFa+IL6-IL12-IFNa+", "TNFa+IL6-IL12-IFNa-", "TNFa-IL6+IL12+IFNa+", "TNFa-IL6+IL12+IFNa-", "TNFa-IL6+IL12-IFNa+", "TNFa-IL6+IL12-IFNa-", "TNFa-IL6-IL12+IFNa+", "TNFa-IL6-IL12+IFNa-", "TNFa-IL6-IL12-IFNa+", "TNFa-IL6-IL12-IFNa-", "stim", "concGroup", "cell", "groups", "subjectId", "group" ], "rows": 432, "table": true, "tojson": true } ], "_help": [ { "page": "adultsNeonates", "title": "The adultsNeonates example data set of \"stacked\" data.", "topics": [ "adultsNeonates" ] }, { "page": "computeMarginalData-methods", "title": "Method computeMarginalData from Class \"StackedData\"", "topics": [ "computeMarginalData", "computeMarginalData,StackedData,character,character,character,character-method", "computeMarginalData-methods" ] }, { "page": "computeMarkers-methods", "title": "Method computeMarkers from Class \"StackedData\"", "topics": [ "computeMarkers", "computeMarkers,character,logical-method", "computeMarkers-methods" ] }, { "page": "computePFDData-methods", "title": "Method computePFDData from Class \"StackedData\"", "topics": [ "computePFDData", "computePFDData,StackedData,character,character,character,character-method", "computePFDData-methods" ] }, { "page": "computePFDGroupStatsList", "title": "Compute Group Stats on PFD Data to Be Used In a Legend", "topics": [ "computePFDGroupStatsList" ] }, { "page": "computePFDPartsData-methods", "title": "Method computePFDPartsData from Class \"StackedData\"", "topics": [ "computePFDPartsData", "computePFDPartsData,StackedData,character,character,character,character-method", "computePFDPartsData-methods" ] }, { "page": "computeProfileData-methods", "title": "Method computeProfileData from Class \"StackedData\"", "topics": [ "computeProfileData", "computeProfileData,StackedData,character,character,character,character-method", "computeProfileData-methods" ] }, { "page": "GroupListBoxplot", "title": "A Boxplot Function With Embedded Statistical Tests for Comparing Groups", "topics": [ "GroupListBoxplot" ] }, { "page": "legendPFDStatsGroupNames", "title": "Create Group Names With Embedded Stats to Use in a Plot Legend", "topics": [ "legendPFDStatsGroupNames" ] }, { "page": "makeBarplotData", "title": "Prepare Profile Data for a Call to Barplot()", "topics": [ "makeBarplotData" ] }, { "page": "makeDataList", "title": "Prepare Data in a Data Frame for a Call to GroupListBoxplot()", "topics": [ "makeDataList" ] }, { "page": "makeTernaryData", "title": "Prepare PFD Data for a Call to ternaryplot()", "topics": [ "makeTernaryData" ] }, { "page": "marginalData-methods", "title": "Method marginalData from Class \"StackedData\"", "topics": [ "marginalData", "marginalData,StackedData-method", "marginalData-methods", "marginalData<-", "marginalData<-,StackedData-method", "marginalData<--methods" ] }, { "page": "marginalDF", "title": "An example of marginalData", "topics": [ "marginalDF" ] }, { "page": "markerMatrix", "title": "An example of the markers data.", "topics": [ "markerMatrix" ] }, { "page": "markers-methods", "title": "Method markers from Class \"StackedData\"", "topics": [ "markers", "markers,StackedData-method", "markers-methods", "markers<-", "markers<-,StackedData-method", "markers<--methods" ] }, { "page": "pfdData-methods", "title": "Method pfdData from Class \"StackedData\"", "topics": [ "pfdData", "pfdData,StackedData-method", "pfdData-methods", "pfdData<-", "pfdData<-,StackedData-method", "pfdData<--methods" ] }, { "page": "pfdDF", "title": "An example of pfdData", "topics": [ "pfdDF" ] }, { "page": "pfdPartsData-methods", "title": "Method pfdPartsData from Class \"StackedData\"", "topics": [ "pfdPartsData", "pfdPartsData,StackedData-method", "pfdPartsData-methods", "pfdPartsData<-", "pfdPartsData<-,StackedData-method", "pfdPartsData<--methods" ] }, { "page": "pfdPartsList", "title": "An example of pfdPartsData", "topics": [ "pfdPartsList" ] }, { "page": "profileData-methods", "title": "Method profileData from Class \"StackedData\"", "topics": [ "profileData", "profileData,StackedData-method", "profileData-methods", "profileData<-", "profileData<-,StackedData-method", "profileData<--methods" ] }, { "page": "profileDF", "title": "An example of profileData", "topics": [ "profileDF" ] }, { "page": "readStackedData-methods", "title": "Method readStackedData from Class \"StackedData\"", "topics": [ "readStackedData", "readStackedData,character-method" ] }, { "page": "StackedData-class", "title": "Class \"StackedData\"", "topics": [ "StackedData", "StackedData-class" ] }, { "page": "stackedData-methods", "title": "Method stackedData from Class \"StackedData\"", "topics": [ "stackedData", "stackedData,StackedData-method", "stackedData-methods", "stackedData<-", "stackedData<-,StackedData-method", "stackedData<--methods" ] } ], "_rundeps": [], "_vignettes": [ { "source": "flowPlots.Rnw", "filename": "flowPlots.pdf", "title": "Plots with Embedded Tests for Gated Flow Cytometry Data", "engine": "utils::Sweave", "headings": [], "created": "2013-11-01 20:17:44", "modified": "2013-11-01 20:17:44", "commits": 1 } ], "_score": 3.3010299956639813, "_indexed": false, "_nocasepkg": "flowplots", "_universes": [ "bioc-release" ], "_indexurl": "https://bioc.r-universe.dev/flowPlots", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.60.0", "date": "2026-05-29T07:01:47.000Z", "distro": "noble", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "cf75e9cb373d416d4e84daa58b97b7e11d428dfbd99fb409fec4b93f252b4762", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.6.0", "os": "linux", "version": "1.60.0", "date": "2026-05-29T07:01:04.000Z", "distro": "noble", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "332b8192dc58bcd4e371f8200382fa6c0d9e2300b92c66c2897d1be9d47dff28", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.5.3", "os": "mac", "version": "1.60.0", "date": "2026-05-29T07:59:23.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "e9f9eccf961efeef21012cce65235e364d697223cffdd55042ffd66bc8dc03f7", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.6.0", "os": "mac", "version": "1.60.0", "date": "2026-05-29T07:59:44.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "746c133edd8f03429f4ace9e400ad96a14b2dfef31c386babd1a18332aae80a4", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.6.0", "os": "wasm", "version": "1.60.0", "date": "2026-05-29T07:00:32.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "1f59d8cdd17b6a4497207804e0c0924d9c97d71ecbea8f7f407d5fee63156de3", "status": "success", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.7.0", "os": "win", "version": "1.60.0", "date": "2026-05-29T07:00:03.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "507a271da82b8c2eaba9671eec28697452a1ebe50efb2b6d8194ec2d17f8850a", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.5.3", "os": "win", "version": "1.60.0", "date": "2026-05-29T06:59:55.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "5c511ea2782bcb699eac4084b4e2f53b08c93c93a1efe082ef2167b5877f573d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" }, { "r": "4.6.0", "os": "win", "version": "1.60.0", "date": "2026-05-29T06:59:53.000Z", "commit": "e8a23ff7db28918f1dcf734f8021be5ba1827d7d", "fileid": "d5ddb51e6892e88d486dae597c4b597528a2e400ee18fd2af09aa0750fa004e7", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26622987569" } ] }