{ "_id": "6a103d0cacfb0bcc41c9c1fe", "Package": "bettr", "Title": "A Better Way To Explore What Is Best", "Version": "1.9.0", "Date": "2026-04-04", "Authors@R": "c(person(\"Federico\", \"Marini\",\nrole = \"aut\", email = \"marinif@uni-mainz.de\",\ncomment = c(ORCID = '0000-0003-3252-7758')),\nperson(\"Charlotte\", \"Soneson\",\nrole = c(\"aut\", \"cre\"), email =\"charlottesoneson@gmail.com\",\ncomment = c(ORCID = '0000-0003-3833-2169')),\nperson(\"Daniel\", \"Incicau\",\nrole = \"aut\", email =\"daniel.incicau@gmail.com\",\ncomment = c(ORCID = '0009-0001-1748-6145')))", "Description": "bettr provides a set of interactive visualization methods\nto explore the results of a benchmarking study, where typically\nmore than a single performance measures are computed. The user\ncan weight the performance measures according to their\npreferences. Performance measures can also be grouped and\naggregated according to additional annotations.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.3", "Roxygen": "list(markdown = TRUE)", "Config/testthat/edition": "3", "biocViews": "Visualization, ShinyApps, GUI", "URL": "https://github.com/federicomarini/bettr", "BugReports": "https://github.com/federicomarini/bettr/issues", "Config/pak/sysreqs": "cmake make libicu-dev libpng-dev libuv1-dev perl\nzlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 17:30:56 UTC", "RemoteUrl": "https://github.com/bioc/bettr", "RemoteRef": "HEAD", "RemoteSha": "72774f7cd06b686037a0486484783110e688fb04", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-11 09:59:21 UTC", "User": "root" }, "Author": "Federico Marini [aut] (ORCID: ),\nCharlotte Soneson [aut, cre] (ORCID:\n),\nDaniel Incicau [aut] (ORCID: )", "Maintainer": "Charlotte Soneson ", "MD5sum": "3bfc0fff8cb4f8e4c4e77738ea18bbdf", "_user": "bioc", "_type": "src", "_file": "bettr_1.9.0.tar.gz", "_fileid": "e9776982462bbe22681a1277a1e9b70b5c31bdf17b25a7e58fa1908b190a26bf", "_filesize": 2649021, "_sha256": "e9776982462bbe22681a1277a1e9b70b5c31bdf17b25a7e58fa1908b190a26bf", "_created": "2026-05-11T09:59:21.000Z", "_published": "2026-05-22T11:25:00.066Z", "_jobs": [ { "job": 77369887204, "time": 203, "config": "bioc-checks", "r": "4.6.0", "check": "NOTE", "artifact": "6915596190" }, { "job": 77369887168, "time": 346, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "6915640334" }, { "job": 77369887308, "time": 386, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6915652060" }, { "job": 77369887085, "time": 197, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "6915592394" }, { "job": 77369886570, "time": 229, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "6915602072" }, { "job": 77369886143, "time": 259, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "6915528631" }, { "job": 77369886172, "time": 155, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7159336526" }, { "job": 77369886526, "time": 249, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "6915609091" }, { "job": 77369887215, "time": 257, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "6915611410" }, { "job": 77369887079, "time": 284, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "6915619693" } ], "_bioccheck": { "error": 0, "warning": 0, "note": 6 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/bettr", "_commit": { "id": "72774f7cd06b686037a0486484783110e688fb04", "author": "Charlotte Soneson ", "committer": "Charlotte Soneson ", "message": "Fix merge conflict\n\nMerge remote-tracking branch 'upstream/devel' into devel\n\n# Conflicts:\n#\tDESCRIPTION\n", "time": 1777397456 }, "_maintainer": { "name": "Charlotte Soneson", "email": "charlottesoneson@gmail.com", "login": "csoneson", "orcid": "0000-0003-3833-2169", "uuid": 5628952 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.4.0", "role": "Depends" }, { "package": "dplyr", "version": ">= 1.0", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "ggplot2", "version": ">= 3.4.1", "role": "Imports" }, { "package": "shiny", "version": ">= 1.6", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "ComplexHeatmap", "role": "Imports" }, { "package": "bslib", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "circlize", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "cowplot", "role": "Imports" }, { "package": "Hmisc", "role": "Imports" }, { "package": "sortable", "role": "Imports" }, { "package": "shinyjqui", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "scales", "role": "Imports" }, { "package": "DT", "role": "Imports" }, { "package": "SummarizedExperiment", "role": "Imports" }, { "package": "S4Vectors", "role": "Imports" }, { "package": "jsonlite", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-29", "n": 2 }, { "week": "2025-30", "n": 4 }, { "week": "2025-39", "n": 1 }, { "week": "2025-44", "n": 2 }, { "week": "2025-46", "n": 10 }, { "week": "2025-48", "n": 1 }, { "week": "2026-12", "n": 1 }, { "week": "2026-14", "n": 1 }, { "week": "2026-18", "n": 1 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.9.0", "bioc": "3.24" }, { "branch": "release", "version": "1.8.0", "bioc": "3.23" } ], "_topics": [ "visualization", "shinyapps", "gui" ], "_stars": 5, "_contributors": [ { "user": "csoneson", "count": 271, "uuid": 5628952 }, { "user": "federicomarini", "count": 36, "uuid": 7447478 }, { "user": "jwokaty", "count": 10, "uuid": 1744257 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 238, "source": "https://www.bioconductor.org/packages/stats/bioc/bettr" }, "_devurl": "https://github.com/federicomarini/bettr", "_searchresults": 20, "_rbuild": "4.6.0", "_assets": [ "extra/bettr.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/federicomarini/bettr", "_realowner": "bioc", "_cranurl": false, "_exports": [ "assembleSE", "bettr", "bettrFromJSON", "bettrGetReady", "bettrToJSON", "makeBarPolarPlot", "makeHeatmap", "makeParCoordPlot", "makePolarPlot" ], "_help": [ { "page": "assembleSE", "title": "Assemble all bettr input into a SummarizedExperiment object", "topics": [ "assembleSE" ] }, { "page": "bettr", "title": "Launch bettr app to explore and aggregate performance metrics", "topics": [ "bettr" ] }, { "page": "bettrFromJSON", "title": "Import bettr data from JSON format", "topics": [ "bettrFromJSON" ] }, { "page": "bettrGetReady", "title": "Prepare data for plotting with bettr", "topics": [ "bettrGetReady" ] }, { "page": "bettrToJSON", "title": "Export SummarizedExperiment to bettr JSON format", "topics": [ "bettrToJSON" ] }, { "page": "makeBarPolarPlot", "title": "Create a bar/polar plot", "topics": [ "makeBarPolarPlot" ] }, { "page": "makeHeatmap", "title": "Create a summary heatmap", "topics": [ "makeHeatmap" ] }, { "page": "makeParCoordPlot", "title": "Create a parallel coordinates plot", "topics": [ "makeParCoordPlot" ] }, { "page": "makePolarPlot", "title": "Create a polar plot", "topics": [ "makePolarPlot" ] } ], "_readme": "https://github.com/bioc/bettr/raw/HEAD/README.md", "_rundeps": [ "abind", "assertthat", "backports", "base64enc", "Biobase", "BiocGenerics", "bslib", "cachem", "checkmate", "circlize", "cli", "clue", "cluster", "codetools", "colorspace", "commonmark", "ComplexHeatmap", "cowplot", "cpp11", "crayon", "crosstalk", "data.table", "DelayedArray", "digest", "doParallel", "dplyr", "DT", "evaluate", "farver", "fastmap", "fontawesome", "foreach", "foreign", "Formula", "fs", "generics", "GenomicRanges", "GetoptLong", "ggplot2", "GlobalOptions", "glue", "gridExtra", "gtable", "highr", "Hmisc", "htmlTable", "htmltools", "htmlwidgets", "httpuv", "IRanges", "isoband", "iterators", "jquerylib", "jsonlite", "knitr", "labeling", "later", "lattice", "lazyeval", "learnr", "lifecycle", "litedown", "magrittr", "markdown", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "nnet", "otel", "pillar", "pkgconfig", "png", "promises", "purrr", "R6", "rappdirs", "RColorBrewer", "Rcpp", "renv", "rjson", "rlang", "rmarkdown", "rpart", "rprojroot", "rstudioapi", "S4Arrays", "S4Vectors", "S7", "sass", "scales", "Seqinfo", "shape", "shiny", "shinyjqui", "sortable", "sourcetools", "SparseArray", "stringi", "stringr", "SummarizedExperiment", "tibble", "tidyr", "tidyselect", "tinytex", "utf8", "vctrs", "viridisLite", "withr", "xfun", "xtable", "XVector", "yaml" ], "_vignettes": [ { "source": "bettr.Rmd", "filename": "bettr.html", "title": "bettr", "author": "Charlotte Soneson & Federico Marini", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Installation", "Usage", "Example - single-cell RNA-seq clustering benchmark", "Programmatic interface", "Exporting data from the app", "Additional examples", "Session info" ], "created": "2023-10-15 17:38:08", "modified": "2025-11-16 18:22:40", "commits": 9 }, { "source": "server-mode.Rmd", "filename": "server-mode.html", "title": "Server Mode Guide for bettr", "author": "bettr package authors", "engine": "knitr::rmarkdown", "headings": [ "Overview", "What's New in Version 1.6.0", "Server Mode for JSON Uploads", "JSON Serialization", "Browser localStorage Caching", "Cache Versioning", "URL Parameters for Programmatic Loading", "Server Mode Basics", "Starting a Server", "What Happens When You Start Server Mode", "User Interface", "Creating JSON Files", "From Data Frames", "From Existing SummarizedExperiment", "Reading JSON Files", "Two Loading Methods", "Load from URL (jsonUrl)", "Load from File Path (jsonFile)", "Browser Cache Management", "How Caching Works", "Manual Cache Control", "Clear Cache Button", "Cache Versioning (Administrators)", "Setting Up Versioning", "Version String Format", "User Experience", "Session info" ], "created": "2025-11-16 14:52:35", "modified": "2025-11-16 18:22:40", "commits": 2 } ], "_score": 6.2552725051033065, "_indexed": true, "_nocasepkg": "bettr", "_universes": [ "bioc", "csoneson", "federicomarini" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.9.0", "date": "2026-05-11T10:03:11.000Z", "distro": "noble", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "5bba05b1495f6f481ed5c93fcf4317eb91e6734088388f6fc5c8fa19a23969e2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.6.0", "os": "linux", "version": "1.9.0", "date": "2026-05-11T10:03:38.000Z", "distro": "noble", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "6b84fe91b86b1550c6b05456b15c0bdf60fa0b47a0059bb3a4594dc7319acc02", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.5.3", "os": "mac", "version": "1.9.0", "date": "2026-05-11T10:01:25.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "c700489b17f6a952f7cf95ccb174023d0fc4b4c9e3aab2bdc77edfe0792cb19e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.6.0", "os": "mac", "version": "1.9.0", "date": "2026-05-11T10:01:24.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "b383220a7438e8c64ab2fc70afccebbd3e4a247414190e5e311d6720cc1c5364", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.7.0", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:01:06.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "82c440f4c10e0907ec4a760c1cc248dc2e4eafc46240fcc4ffd8ac2700a58177", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.5.3", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:01:17.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "43daa82765bb770ea0da30e4a5ae62ab81c39d4ff8905c241a43a2f73075f93c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.6.0", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:02:06.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "1c65cd394d870475624b62d0dbd7f44d9683290f1addf51c1ae3fccaa4271c68", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" }, { "r": "4.6.0", "os": "wasm", "version": "1.9.0", "date": "2026-05-22T11:24:36.000Z", "commit": "72774f7cd06b686037a0486484783110e688fb04", "fileid": "293dc82d77c68ffbbe19c6eabcfb987f882def2e9c87b437b9907b610ed1dd32", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663170618" } ] }