{ "_id": "6a1df51d1d7bb097a0a5a464", "Package": "OpenStats", "Type": "Package", "Title": "A Robust and Scalable Software Package for Reproducible Analysis\nof High-Throughput genotype-phenotype association", "Version": "1.25.1", "Author": "Hamed Haseli Mashhadi", "Maintainer": "Marina Kan ", "Description": "Package contains several methods for statistical analysis\nof genotype to phenotype association in high-throughput\nscreening pipelines.", "License": "GPL (>= 2)", "Encoding": "UTF-8", "RoxygenNote": "6.0.1", "BugReports": "https://git.io/Jv5wg", "URL": "https://git.io/Jv5w0", "biocViews": "StatisticalMethod, BatchEffect, Bayesian", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts libicu-dev\nlibuv1-dev libxml2-dev libssl-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-06-01 15:27:14 UTC", "RemoteUrl": "https://github.com/bioc/OpenStats", "RemoteRef": "HEAD", "RemoteSha": "f6ef5179a0087314891f2c2fbe3363b98124dead", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-01 21:04:23 UTC", "User": "root" }, "MD5sum": "586f529e7801df18db1075a3d401fca8", "_user": "bioc", "_type": "src", "_file": "OpenStats_1.25.1.tar.gz", "_fileid": "7ab6db5b09eafdeb1dfc449850dda86d5506da531c036808d826795e13100d88", "_filesize": 570936, "_sha256": "7ab6db5b09eafdeb1dfc449850dda86d5506da531c036808d826795e13100d88", "_created": "2026-06-01T21:04:23.000Z", "_published": "2026-06-01T21:09:49.009Z", "_jobs": [ { "job": 78948386689, "time": 181, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7342990533" }, { "job": 78948386768, "time": 267, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7343021569" }, { "job": 78948386718, "time": 235, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7343010215" }, { "job": 78948386674, "time": 129, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7342983736" }, { "job": 78948386698, "time": 147, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7343026609" }, { "job": 78947617376, "time": 262, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7342924717" }, { "job": 78948386723, "time": 140, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7342975018" }, { "job": 78948386715, "time": 129, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7342971230" }, { "job": 78948386707, "time": 149, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7342978621" }, { "job": 78948386710, "time": 151, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7342979313" } ], "_bioccheck": { "error": 1, "warning": 3, "note": 13 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/OpenStats", "_commit": { "id": "f6ef5179a0087314891f2c2fbe3363b98124dead", "author": "Marina Kan ", "committer": "Marina Kan ", "message": "Update version\n", "time": 1780327634 }, "_maintainer": { "name": "Marina Kan", "email": "marinak@ebi.ac.uk", "login": "marinak-ebi", "description": "", "uuid": 113850522 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "nlme", "role": "Depends" }, { "package": "MASS", "role": "Imports" }, { "package": "jsonlite", "role": "Imports" }, { "package": "Hmisc", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "knitr", "role": "Imports" }, { "package": "AICcmodavg", "role": "Imports" }, { "package": "car", "role": "Imports" }, { "package": "rlist", "role": "Imports" }, { "package": "summarytools", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 }, { "week": "2026-23", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.25.0", "bioc": "3.24" }, { "branch": "release", "version": "1.24.0", "bioc": "3.23" } ], "_topics": [ "statisticalmethod", "batcheffect", "bayesian" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 287, "source": "https://www.bioconductor.org/packages/stats/bioc/OpenStats" }, "_mentions": 1, "_searchresults": 16, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/OpenStats.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "OpenStatsAnalysis", "OpenStatsComplementarySplit", "OpenStatsList", "OpenStatsReport" ], "_help": [ { "page": "OpenStatsAnalysis", "title": "Method \"OpenStatsAnalysis\"", "topics": [ "OpenStatsAnalysis" ] }, { "page": "OpenStatsComplementarySplit", "title": "Method \"OpenStatsComplementarySplit\"", "topics": [ "OpenStatsComplementarySplit" ] }, { "page": "OpenStatsList", "title": "Method \"OpenStatsList\"", "topics": [ "OpenStatsList" ] }, { "page": "OpenStatsBuilder", "title": "Method \"OpenStatsListBuilder\"", "topics": [ "OpenStatsListBuilder" ] }, { "page": "OpenStatsReport", "title": "Method \"OpenStatsReport\"", "topics": [ "OpenStatsReport" ] }, { "page": "plot.OpenStatsComplementarySplit", "title": "plot for an `OpenStatsComplementarySplit` object", "topics": [ "plot.OpenStatsComplementarySplit" ] }, { "page": "plot.OpenStatsFE", "title": "plot for an `OpenStatsFE` object", "topics": [ "plot.OpenStatsFE" ] }, { "page": "plot.OpenStats", "title": "plot for an `OpenStatsList` object", "topics": [ "plot.OpenStatsList" ] }, { "page": "plot.OpenStatsMM", "title": "plot for an `OpenStatsMM` object", "topics": [ "plot.OpenStatsMM" ] }, { "page": "plot.OpenStatsRR", "title": "plot for an `OpenStatsRR` object", "topics": [ "plot.OpenStatsRR" ] }, { "page": "print.OpenStatsComplementarySplit", "title": "Summary for an OpenStatsComplementarySplit object", "topics": [ "print.OpenStatsComplementarySplit" ] }, { "page": "print.OpenStatsFE", "title": "Print summary table for an OpenStatsFE object", "topics": [ "print.OpenStatsFE" ] }, { "page": "print.OpenStats", "title": "Print summary table for an OpenStatsList object", "topics": [ "print.OpenStatsList" ] }, { "page": "print.OpenStatsMM", "title": "Summary for an OpenStatsMM object", "topics": [ "print.OpenStatsMM" ] }, { "page": "print.OpenStatsRR", "title": "Summary for an OpenStatsRR object", "topics": [ "print.OpenStatsRR" ] }, { "page": "summary.OpenStatsComplementarySplit", "title": "Summary for an OpenStatsComplementarySplit object", "topics": [ "summary.OpenStatsComplementarySplit" ] }, { "page": "summary.OpenStatsFE", "title": "Summary for an OpenStatsFE object", "topics": [ "summary.OpenStatsFE" ] }, { "page": "summary.OpenStats", "title": "Summary for an OpenStatsList object", "topics": [ "summary.OpenStatsList" ] }, { "page": "summary.OpenStatsMM", "title": "Summary for an OpenStatsMM object", "topics": [ "summary.OpenStatsMM" ] }, { "page": "summary.OpenStatsRR", "title": "Summary for an OpenStatsRR object", "topics": [ "summary.OpenStatsRR" ] } ], "_rundeps": [ "abind", "AICcmodavg", "backports", "base64enc", "boot", "broom", "bslib", "cachem", "car", "carData", "checkmate", "cli", "cluster", "colorspace", "cowplot", "cpp11", "curl", "data.table", "Deriv", "digest", "doBy", "dplyr", "evaluate", "farver", "fastmap", "fontawesome", "forecast", "foreign", "Formula", "fracdiff", "fs", "generics", "ggplot2", "glue", "gridExtra", "gtable", "highr", "Hmisc", "htmlTable", "htmltools", "htmlwidgets", "isoband", "jquerylib", "jsonlite", "knitr", "labeling", "lattice", "lifecycle", "lme4", "lmtest", "lubridate", "magick", "magrittr", "MASS", "Matrix", "MatrixModels", "matrixStats", "memoise", "mgcv", "microbenchmark", "mime", "minqa", "modelr", "nlme", "nloptr", "nnet", "numDeriv", "pander", "pbkrtest", "pillar", "pkgconfig", "plyr", "purrr", "quantreg", "R6", "rappdirs", "rapportools", "rbibutils", "RColorBrewer", "Rcpp", "RcppArmadillo", "RcppEigen", "Rdpack", "reformulas", "reshape2", "rlang", "rlist", "rmarkdown", "rpart", "rstudioapi", "S7", "sass", "scales", "SparseM", "stringi", "stringr", "summarytools", "survival", "tibble", "tidyr", "tidyselect", "timechange", "timeDate", "tinytex", "TMB", "unmarked", "urca", "utf8", "vctrs", "VGAM", "viridisLite", "withr", "xfun", "XML", "xtable", "yaml", "zoo" ], "_vignettes": [ { "source": "OpenStats.Rmd", "filename": "OpenStats.html", "title": "OpenStats: A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput Phenotypic Data", "author": "Hamed Haseli Mashhadi, Marina Kan", "engine": "knitr::rmarkdown", "headings": [ "Building block of the software", "Data preprocessing", "OpenStatsList Object", "Data Analysis", "OpenStatsAnalysis output object", "Examples", "Linear mixed model framework", "Sub-model estimation", "Reference range plus framework", "Fisher's exact test framework", "Summary and export", "Graphics", "Session information" ], "created": "2020-03-31 14:15:06", "modified": "2024-11-29 13:14:31", "commits": 8 } ], "_score": 3.6812412373755876, "_indexed": true, "_nocasepkg": "openstats", "_universes": [ "bioc", "marinak-ebi" ], "_previous": "1.25.0", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.25.1", "date": "2026-06-01T21:07:56.000Z", "distro": "noble", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "d4ab5475eb29ecbf56e7cdff0ef7ba5cb5ab04c2d2c3f396d8c9f12e6eb5b7d3", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.6.0", "os": "linux", "version": "1.25.1", "date": "2026-06-01T21:07:29.000Z", "distro": "noble", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "9f115412b799f44a6a730e4adaee9eff4ad23be2315fe0218470c33d1c672495", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.5.3", "os": "mac", "version": "1.25.1", "date": "2026-06-01T21:06:39.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "4793059cea0bd9d400c2dfdaec26d6ca4c2fbd1127076edea3748a2bc7668eee", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.6.0", "os": "mac", "version": "1.25.1", "date": "2026-06-01T21:08:36.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "fe52b71c0c10891e96d19ba519d9f7b0755dda90f8b9188025d9877f655bf57b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.6.0", "os": "wasm", "version": "1.25.1", "date": "2026-06-01T21:07:07.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "5b9a34ca7087663964e9d51e921634dfd7da7db37cb4d3ee06cb4357a6732979", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.7.0", "os": "win", "version": "1.25.1", "date": "2026-06-01T21:05:49.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "e4f55c88a9eb0ca1eecc58ca7fb8af60ad729c6c10234a42271340a43b83b3ee", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.5.3", "os": "win", "version": "1.25.1", "date": "2026-06-01T21:05:53.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "c67e2664d432b585e2e363d9026fc283f75016d1e90da9a20cdd4f387eb03356", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" }, { "r": "4.6.0", "os": "win", "version": "1.25.1", "date": "2026-06-01T21:05:50.000Z", "commit": "f6ef5179a0087314891f2c2fbe3363b98124dead", "fileid": "d5bbc29b44a72cf65c95112dfd3890ebfeec271d0fdc29a40b4f7c0662a6ab47", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26781742237" } ] }