{ "_id": "6a60a1fac766cc6deb6a9f88", "Package": "S4Cartographer", "Type": "Package", "Title": "Visualize S4 class inheritance across R/Bioconductor packages", "Version": "0.99.3", "Authors@R": "c(\nperson(\"Malte\", \"Thodberg\",\nemail = \"maltethodberg@gmail.com\",\nrole = c(\"cre\", \"aut\"),\ncomment = c(ORCID = \"0000-0001-6244-3841\"))\n)", "Description": "S4 Object-Oriented Programming is fundamental to the\nBioconductor ecosystem, enabling modularity and code reuse\nacross hundreds of packages. However, the multi-layered\ninheritance structures within and between packages can be\ndifficult to navigate. S4Cartographer facilitates the\nexploration of these relationships by visualizing S4 class\nhierarchies as directed graphs. By representing classes as\nnodes and inheritance as edges, it provides a clear overview of\ncomplex dependency networks.", "URL": "https://github.com/MalteThodberg/S4Cartographer", "BugReports": "https://github.com/MalteThodberg/S4Cartographer/issues", "License": "GPL (>= 3)", "Encoding": "UTF-8", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "biocViews": "Software,Visualization,GraphAndNetwork", "Config/pak/sysreqs": "libfontconfig1-dev libfreetype6-dev libglpk-dev\nlibicu-dev libxml2-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-23 13:04:17 UTC", "RemoteUrl": "https://github.com/bioc/S4Cartographer", "RemoteRef": "HEAD", "RemoteSha": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "NeedsCompilation": "no", "Packaged": { "Date": "2026-07-22 10:50:27 UTC", "User": "root" }, "Author": "Malte Thodberg [cre, aut] (ORCID:\n)", "Maintainer": "Malte Thodberg ", "_user": "bioc", "_type": "src", "_file": "S4Cartographer_0.99.3.tar.gz", "_fileid": "https://r2.ropensci.org/762089b03fadc4a1752bb03f71a4b02afb10b3b9c1e4cea85c68873fcfb28cf5", "_filesize": 1916275, "_sha256": "762089b03fadc4a1752bb03f71a4b02afb10b3b9c1e4cea85c68873fcfb28cf5", "_expires": "2026-10-30T10:56:56.000Z", "_created": "2026-07-22T10:50:27.000Z", "_published": "2026-07-22T10:56:58.429Z", "_bioccheck": { "error": 0, "warning": 1, "note": 6 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149", "_status": "success", "_upstream": "https://github.com/bioc/S4Cartographer", "_commit": { "id": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "author": "Malte Thodberg ", "committer": "Malte Thodberg ", "message": "Merge branch 'main' of github.com:MalteThodberg/S4Cartographer\n", "time": 1776949457 }, "_maintainer": { "name": "Malte Thodberg", "email": "maltethodberg@gmail.com", "login": "maltethodberg", "description": "", "uuid": 10612774, "orcid": "0000-0001-6244-3841" }, "_distro": "resolute", "_jobs": [ { "job": 88901672573, "time": 255, "config": "bioc-checks", "r": "4.6.1", "check": "WARNING", "artifact": "8526958263" }, { "job": 88901672609, "time": 292, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8526975143" }, { "job": 88901672629, "time": 346, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8526999331" }, { "job": 88901672601, "time": 99, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8526896253" }, { "job": 88901672616, "time": 90, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8526941291" }, { "job": 88900438560, "time": 346, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8526846523" }, { "job": 88901672575, "time": 190, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8526930544" }, { "job": 88901672608, "time": 118, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "8526900735" }, { "job": 88901672593, "time": 142, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "8526909932" }, { "job": 88901672657, "time": 137, "config": "windows-release", "r": "4.6.1", "check": "OK", "artifact": "8526908128" } ], "_registered": true, "_dependencies": [ { "package": "methods", "role": "Depends" }, { "package": "ggraph", "role": "Imports" }, { "package": "tidygraph", "role": "Imports" }, { "package": "igraph", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "checkmate", "role": "Imports" }, { "package": "ggthemes", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "BiocBaseUtils", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "BiocSingular", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" }, { "package": "Biostrings", "role": "Suggests" }, { "package": "clusterExperiment", "role": "Suggests" }, { "package": "DelayedArray", "role": "Suggests" }, { "package": "DESeq2", "role": "Suggests" }, { "package": "GenomicAlignments", "role": "Suggests" }, { "package": "GenomicFeatures", "role": "Suggests" }, { "package": "GenomicFiles", "role": "Suggests" }, { "package": "GenomicRanges", "role": "Suggests" }, { "package": "HDF5Array", "role": "Suggests" }, { "package": "InteractionSet", "role": "Suggests" }, { "package": "IRanges", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "MultiAssayExperiment", "role": "Suggests" }, { "package": "ResidualMatrix", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "S4Vectors", "role": "Suggests" }, { "package": "ScaledMatrix", "role": "Suggests" }, { "package": "SingleCellExperiment", "role": "Suggests" }, { "package": "SpatialExperiment", "role": "Suggests" }, { "package": "SummarizedExperiment", "role": "Suggests" }, { "package": "TileDBArray", "role": "Suggests" }, { "package": "VCFArray", "role": "Suggests" }, { "package": "XVector", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-11", "n": 3 }, { "week": "2026-13", "n": 1 }, { "week": "2026-17", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "0.99.3", "bioc": "3.24" } ], "_topics": [ "software", "visualization", "graphandnetwork" ], "_stars": 0, "_contributors": [ { "user": "maltethodberg", "count": 7, "uuid": 10612774 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 450, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_devurl": "https://github.com/maltethodberg/s4cartographer", "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/S4Cartographer.html", "manual.pdf" ], "_cranurl": false, "_exports": [ "getS4Classes", "getS4Inheritance", "plotS4ClassGraph" ], "_help": [ { "page": "getS4Classes", "title": "Helper: Get S4-classes defined in a set of packages", "topics": [ "getS4Classes" ] }, { "page": "getS4Inheritance", "title": "Helper: Get S4 inheritance for a set of S4 classes", "topics": [ "getS4Inheritance" ] }, { "page": "plotS4ClassGraph", "title": "Plot S4 classes and inheritance as a graph", "topics": [ "plotS4ClassGraph" ] } ], "_rundeps": [ "backports", "base64enc", "BiocBaseUtils", "cachem", "checkmate", "cli", "cpp11", "dplyr", "farver", "fastmap", "generics", "ggforce", "ggplot2", "ggraph", "ggrepel", "ggthemes", "glue", "graphlayouts", "gridExtra", "gtable", "igraph", "isoband", "jsonlite", "labeling", "lattice", "lifecycle", "magrittr", "MASS", "Matrix", "memoise", "pillar", "pkgconfig", "polyclip", "purrr", "R6", "RColorBrewer", "Rcpp", "RcppArmadillo", "rlang", "S7", "scales", "stringi", "stringr", "systemfonts", "tibble", "tidygraph", "tidyr", "tidyselect", "tweenr", "utf8", "vctrs", "viridis", "viridisLite", "withr" ], "_vignettes": [ { "source": "S4Cartographer.Rmd", "filename": "S4Cartographer.html", "title": "The S4Cartographer R/Bioconductor package", "author": "Malte Thodberg", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Examples", "Plotting the \"core\" Bioconductor S4 classes", "Plotting the DelayedArray sub-graph", "Plotting the SummarizedExperiment sub-graph", "Note for developers", "Sessioninfo" ], "created": "2026-03-14 20:38:15", "modified": "2026-04-23 13:03:51", "commits": 3 } ], "_score": 3.4771212547196626, "_indexed": true, "_nocasepkg": "s4cartographer", "_universes": [ "bioc", "maltethodberg" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.99.3", "date": "2026-07-22T10:55:19.000Z", "distro": "resolute", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/13e2aba6411f939b21efa9d5ad72f110ddc51cfddb947b928f2abb4c12c4728f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.6.1", "os": "linux", "version": "0.99.3", "date": "2026-07-22T10:56:17.000Z", "distro": "resolute", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/19371febefd4925cd4bb799dc3ddeb0f964f5dbe1fab5a916a9430bc97a0d08f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.5.3", "os": "mac", "version": "0.99.3", "date": "2026-07-22T10:52:22.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/d4b93d580c77daca53a36695363ce2eb2cc7b0ef92e02b8a9dc5a83aa13318fa", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.6.1", "os": "mac", "version": "0.99.3", "date": "2026-07-22T10:54:09.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/d112bba7436d340c1a8fcc6a748e13c05d3a1c220d41f5feaf054fecfabff8b6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.6.0", "os": "wasm", "version": "0.99.3", "date": "2026-07-22T10:53:55.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/a95dfa7597e4de87044b084b0c700ccb43435e688c51e5bebd3ce4699387b662", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.7.0", "os": "win", "version": "0.99.3", "date": "2026-07-22T10:52:24.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/f4b1a166df3f86beee33b5664447a60df83de70d3eb7f8b9a54b213a5d9f6c33", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.5.3", "os": "win", "version": "0.99.3", "date": "2026-07-22T10:52:30.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/5455065855d0bffa249228fe687e7b8fd33bdeaff81e091ef6ec6f0368c3bdba", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" }, { "r": "4.6.1", "os": "win", "version": "0.99.3", "date": "2026-07-22T10:52:38.000Z", "commit": "1dcef92561b22573b7f82ba5cb5bbda6541ea140", "fileid": "https://r2.ropensci.org/0f1216faf334e36dfbe3c163062457e2b3931382de766fafffb93917d35ad18c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/bioc/actions/runs/29913077149" } ] }