{ "_id": "6ad1e5810edca5be25022606", "Package": "pmm", "Type": "Package", "Title": "Parallel Mixed Model", "Version": "1.45.0", "Date": "2015-02-24", "Author": "Anna Drewek", "Maintainer": "Anna Drewek ", "Description": "The Parallel Mixed Model (PMM) approach is suitable for\nhit selection and cross-comparison of RNAi screens generated in\nexperiments that are performed in parallel under several\nconditions. For example, we could think of the measurements or\nreadouts from cells under RNAi knock-down, which are infected\nwith several pathogens or which are grown from different cell\nlines.", "License": "GPL-3", "biocViews": "SystemsBiology, Regression", "Config/pak/sysreqs": "cmake make", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:40:59 UTC", "RemoteUrl": "https://github.com/bioc/pmm", "RemoteRef": "HEAD", "RemoteSha": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-16 07:55:54 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "pmm_1.45.0.tar.gz", "_fileid": "https://r2.ropensci.org/1fac54d9c1e345137cfa9ccdf2773a7886055c633bef019665597f4326561644", "_filesize": 803988, "_sha256": "1fac54d9c1e345137cfa9ccdf2773a7886055c633bef019665597f4326561644", "_expires": "2027-01-24T08:51:11.000Z", "_created": "2026-10-16T07:55:54.000Z", "_published": "2026-10-16T08:51:13.449Z", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345", "_status": "success", "_host": "GitHub-Actions", "_bioccheck": { "error": 1, "warning": 2, "note": 11 }, "_upstream": "https://github.com/bioc/pmm", "_commit": { "id": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380059 }, "_maintainer": { "name": "Anna Drewek", "email": "adrewek@stat.math.ethz.ch" }, "_distro": "resolute", "_jobs": [ { "job": 116872798964, "time": 135, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "12033555990" }, { "job": 116872798931, "time": 198, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "12033187784" }, { "job": 116872798968, "time": 224, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "12033227662" }, { "job": 116872798984, "time": 128, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "12035516823" }, { "job": 116872798913, "time": 140, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "12035187980" }, { "job": 116871713434, "time": 187, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "12032424924" }, { "job": 116872798932, "time": 97, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "12032912604" }, { "job": 116872798927, "time": 104, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "12032677322" }, { "job": 116872798907, "time": 112, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "12032742343" }, { "job": 116872799077, "time": 132, "config": "windows-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "12033101757" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "lme4", "role": "Imports" }, { "package": "splines", "role": "Imports" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.45.0", "bioc": "3.24", "repository": "bioc" }, { "branch": "release", "version": "1.44.0", "bioc": "3.23", "repository": "bioc" } ], "_topics": [ "systemsbiology", "regression" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 477, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 410, "source": "https://www.bioconductor.org/packages/stats/bioc/pmm" }, "_mentions": 7, "_searchresults": 2, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/pmm.html" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "hitheatmap", "pmm", "sharedness" ], "_datasets": [ { "name": "kinome", "title": "Example Data from InfectX", "object": "kinome", "file": "kinome.rda", "class": [ "data.frame" ], "fields": [ "GeneID", "GeneName", "condition", "siRNA", "company", "CellCount", "InfectionIndex", "weight_library" ], "rows": 79296, "table": true, "tojson": true } ], "_help": [ { "page": "pmm-package", "title": "The PMM-Package", "topics": [ "pmm-package" ] }, { "page": "hitheatmap", "title": "Visualization of the PMM results", "topics": [ "hitheatmap" ] }, { "page": "kinome", "title": "Example Data from InfectX", "topics": [ "kinome" ] }, { "page": "pmm", "title": "Fitting the PMM", "topics": [ "pmm" ] }, { "page": "sharedness", "title": "Sharedness Score", "topics": [ "sharedness" ] } ], "_rundeps": [ "boot", "lattice", "lme4", "MASS", "Matrix", "minqa", "nlme", "nloptr", "rbibutils", "Rcpp", "RcppEigen", "Rdpack", "reformulas" ], "_vignettes": [ { "source": "pmm-package.Rnw", "filename": "pmm-package.pdf", "title": "User manual for R-Package PMM", "engine": "utils::Sweave", "headings": [], "created": "2015-03-31 22:01:27", "modified": "2015-03-31 22:01:27", "commits": 1 } ], "_score": 4.146128035678238, "_indexed": true, "_nocasepkg": "pmm", "_universes": [ "bioc" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.45.0", "date": "2026-10-16T07:58:38.000Z", "distro": "resolute", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/139a04a6bf77b6997c8784259a87a940ec890fa3d3c39986ebea4a19113288cf", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.6.1", "os": "linux", "version": "1.45.0", "date": "2026-10-16T07:59:06.000Z", "distro": "resolute", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/e08a652e61f2d07c821fcbef3474a54712746adc4e9a6089ce30ec34ad161468", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.5.3", "os": "mac", "version": "1.45.0", "date": "2026-10-16T08:48:56.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/d5026ab924715901fc8ef82db96f48aa3744fc30d51b8f43197436a5c2aa449a", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.6.1", "os": "mac", "version": "1.45.0", "date": "2026-10-16T08:49:14.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/fbe038301bddf81aecf3004ff6c06de00d2e6d75594cc7f37992d742c33b04aa", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.6.0", "os": "wasm", "version": "1.45.0", "date": "2026-10-16T07:57:53.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/cadae7560978a3a676d662330ddbb64a86ff683b4a22a7f701cf81caf0b254d4", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.7.0", "os": "win", "version": "1.45.0", "date": "2026-10-16T07:57:00.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/917e6e6a81ba2535ed185eadf94ec57f7a671362bf2639d1f1ccbeabc5ea1182", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.5.3", "os": "win", "version": "1.45.0", "date": "2026-10-16T07:57:18.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/bbc54643843c7793264a6228242b68da526af84594f71e15f2954b2411cc1cbc", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" }, { "r": "4.6.1", "os": "win", "version": "1.45.0", "date": "2026-10-16T07:57:13.000Z", "commit": "c2c84893c6f58f6bab9818cc0236c118a83bb0d8", "fileid": "https://r2.ropensci.org/3d8f20b5b904867661ec0fd89970e734c6716ad4e7ad6c5d98a697549fe3d12c", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38869995345" } ] }