{ "_id": "6a194e1dacfb0bcc41dde77c", "Package": "pmm", "Type": "Package", "Title": "Parallel Mixed Model", "Version": "1.44.0", "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-release.r-universe.dev", "Date/Publication": "2026-04-28 12:40:59 UTC", "RemoteUrl": "https://github.com/bioc/pmm", "RemoteRef": "RELEASE_3_23", "RemoteSha": "901747f3f47193035bd3259f823940c8d1d233e4", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-29 07:22:35 UTC", "User": "root" }, "MD5sum": "daff050355f549a5482da4c8519780f8", "_user": "bioc-release", "_type": "src", "_file": "pmm_1.44.0.tar.gz", "_fileid": "0d73309cf9509587e3517e06725553aaf3f92afd06675d9179b13bd7a42aa73f", "_filesize": 798299, "_sha256": "0d73309cf9509587e3517e06725553aaf3f92afd06675d9179b13bd7a42aa73f", "_created": "2026-05-29T07:22:35.000Z", "_published": "2026-05-29T08:28:13.495Z", "_jobs": [ { "job": 78456437313, "time": 158, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7285340478" }, { "job": 78456437308, "time": 170, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7285344026" }, { "job": 78456437274, "time": 225, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7285360377" }, { "job": 78456437280, "time": 106, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7286412304" }, { "job": 78456437336, "time": 104, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7286414098" }, { "job": 78455996142, "time": 192, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7285292346" }, { "job": 78456437417, "time": 98, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7285323186" }, { "job": 78456437457, "time": 131, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7285332343" }, { "job": 78456437449, "time": 122, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7285329793" }, { "job": 78456437317, "time": 113, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7285327279" } ], "_bioccheck": { "error": 1, "warning": 2, "note": 11 }, "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/pmm", "_commit": { "id": "901747f3f47193035bd3259f823940c8d1d233e4", "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": 1777380059 }, "_maintainer": { "name": "Anna Drewek", "email": "adrewek@stat.math.ethz.ch" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "lme4", "role": "Imports" }, { "package": "splines", "role": "Imports" } ], "_owner": "bioc", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 1 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.45.0", "bioc": "3.24" }, { "branch": "release", "version": "1.44.0", "bioc": "3.23" } ], "_topics": [ "systemsbiology", "regression" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 274, "source": "https://www.bioconductor.org/packages/stats/bioc/pmm" }, "_mentions": 7, "_searchresults": 3, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/pmm.html", "manual.pdf" ], "_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", "rlang" ], "_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": false, "_nocasepkg": "pmm", "_universes": [ "bioc-release" ], "_indexurl": "https://bioc.r-universe.dev/pmm", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.44.0", "date": "2026-05-29T07:24:53.000Z", "distro": "noble", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "2f77a6bad0f7fb8459590e33d06f40e12b6d56e35dffc24ee0e8388605dde6c7", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.6.0", "os": "linux", "version": "1.44.0", "date": "2026-05-29T07:25:44.000Z", "distro": "noble", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "41f41aa0f4a40094047e572b82c7c559288dcc9aa19a64bc05af46c6c355230b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.5.3", "os": "mac", "version": "1.44.0", "date": "2026-05-29T08:27:05.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "2833a68246fd60d4f350cb59ba7b3e0869c9112ba08654b264f02dca5a8502ea", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.6.0", "os": "mac", "version": "1.44.0", "date": "2026-05-29T08:27:13.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "4f2e2b821f603ee35325af16ff96d1f4cc7190a28795d263f82921570c83cd98", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.6.0", "os": "wasm", "version": "1.44.0", "date": "2026-05-29T07:24:32.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "7b091d01a2b853f6e0344ac8b104a475f19b9f3d57a4b5a82faa3264e901ee04", "status": "success", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.7.0", "os": "win", "version": "1.44.0", "date": "2026-05-29T07:24:05.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "3498e53bac65ab232b9a08cd41995fd11dea8b48d4b534aa3ba2b35fe5a2cef0", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.5.3", "os": "win", "version": "1.44.0", "date": "2026-05-29T07:23:51.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "07460a0a050ebde33af8a8b99c87b37483343d90ba32436277a632bd539ddf01", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" }, { "r": "4.6.0", "os": "win", "version": "1.44.0", "date": "2026-05-29T07:23:46.000Z", "commit": "901747f3f47193035bd3259f823940c8d1d233e4", "fileid": "f3476d42b05f8405120eda0f5682e8278df4928ce071a34277c88bda4876d61c", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26623905704" } ] }