{
  "_id": "6ace93a6f6f39cd7e29a1810",
  "Package": "SummarizedHeatmap",
  "Title": "Heatmaps for SummarizedExperiment Objects",
  "Version": "0.99.0",
  "Authors@R": "person(\"Bradley\", \"Blaser\", email = \"bradley.blaser@osumc.edu\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-3168-5423\"))",
  "Description": "Represents a heatmap as a SummarizedExperiment-derived\nobject, holding a single assay together with its row and column\nannotations and any hierarchical clustering. Assay values,\nannotations, display order, and dendrograms stay synchronized\nas the object is subsetted or reclustered, so a heatmap's\ncomponents cannot drift out of step with each other. Each\nvisual component (the main heatmap, annotation strips,\ndendrograms) is returned as an ordinary ggplot2 plot, and these\ncan be composed, laid out, and customized using patchwork.",
  "License": "MIT + file LICENSE",
  "biocViews": "Software, Clustering, Visualization",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "Config/roxygen2/version": "8.1.0",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "URL": "https://github.com/blaserlab/SummarizedHeatmap",
  "BugReports": "https://github.com/blaserlab/SummarizedHeatmap/issues",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-10-05 17:13:30 UTC",
  "RemoteUrl": "https://github.com/bioc/SummarizedHeatmap",
  "RemoteRef": "HEAD",
  "RemoteSha": "fc974b60c86561e3c30fc856f2c674e59fca097b",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-13 19:42:18 UTC",
    "User": "root"
  },
  "Author": "Bradley Blaser [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-3168-5423>)",
  "Maintainer": "Bradley Blaser <bradley.blaser@osumc.edu>",
  "_user": "bioc",
  "_type": "src",
  "_file": "SummarizedHeatmap_0.99.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/773642881ecf3920d9cfd7040fd0c48ead3a95a6fc90d59d23a8fd3f9f0d15fd",
  "_filesize": 561377,
  "_sha256": "773642881ecf3920d9cfd7040fd0c48ead3a95a6fc90d59d23a8fd3f9f0d15fd",
  "_expires": "2027-01-21T20:25:05.000Z",
  "_created": "2026-10-13T19:42:18.000Z",
  "_published": "2026-10-13T20:25:10.025Z",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 3
  },
  "_upstream": "https://github.com/bioc/SummarizedHeatmap",
  "_commit": {
    "id": "fc974b60c86561e3c30fc856f2c674e59fca097b",
    "author": "blaserlab <bradley.blaser@osumc.edu>",
    "committer": "blaserlab <bradley.blaser@osumc.edu>",
    "message": "updated readme\n",
    "time": 1791220410
  },
  "_maintainer": {
    "name": "Bradley Blaser",
    "email": "bradley.blaser@osumc.edu",
    "login": "blaserlab",
    "orcid": "0000-0002-3168-5423",
    "description": "Experimental Hematologist and Fish Fancier",
    "uuid": 62366303
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 115502317219,
      "time": 159,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11844535193"
    },
    {
      "job": 115502317238,
      "time": 276,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11845005351"
    },
    {
      "job": 115502317454,
      "time": 316,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11844930586"
    },
    {
      "job": 115502317583,
      "time": 131,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11846381209"
    },
    {
      "job": 115502317282,
      "time": 201,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11846516262"
    },
    {
      "job": 115500585162,
      "time": 225,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11842962046"
    },
    {
      "job": 115502317380,
      "time": 99,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11844211530"
    },
    {
      "job": 115502317312,
      "time": 165,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11844311640"
    },
    {
      "job": 115502317672,
      "time": 198,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11845290043"
    },
    {
      "job": 115502317703,
      "time": 174,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11842652697"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "ggdendro",
      "role": "Imports"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "patchwork",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-39",
      "n": 7
    },
    {
      "week": "2026-40",
      "n": 39
    },
    {
      "week": "2026-41",
      "n": 2
    }
  ],
  "_tags": [],
  "_topics": [
    "software",
    "clustering",
    "visualization"
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "blaserlab",
      "count": 48,
      "uuid": 62366303
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 477,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_devurl": "https://github.com/blaserlab/summarizedheatmap",
  "_searchresults": 3,
  "_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/readme.html",
    "extra/readme.md",
    "extra/SummarizedHeatmap.html",
    "LICENSE"
  ],
  "_cranurl": false,
  "_exports": [
    "assay<-",
    "assays<-",
    "clusterCols",
    "clusterHeatmap",
    "clusterRows",
    "colDendro",
    "colOrder",
    "plotColData",
    "plotColDendro",
    "plotHeatmap",
    "plotHeatmapMain",
    "plotRowData",
    "plotRowDendro",
    "rowDendro",
    "rowOrder",
    "SummarizedHeatmap"
  ],
  "_help": [
    {
      "page": "SummarizedHeatmap-package",
      "title": "SummarizedHeatmap",
      "topics": [
        "SummarizedHeatmap-package"
      ]
    },
    {
      "page": "sub-SummarizedHeatmap-ANY-ANY-ANY-method",
      "title": "Subset a SummarizedHeatmap",
      "topics": [
        "[,SummarizedHeatmap,ANY,ANY,ANY-method"
      ]
    },
    {
      "page": "assay-set-SummarizedHeatmap",
      "title": "Replace the assay of a SummarizedHeatmap",
      "topics": [
        "assay-set-SummarizedHeatmap",
        "assay<-,SummarizedHeatmap,character-method",
        "assay<-,SummarizedHeatmap,missing-method",
        "assay<-,SummarizedHeatmap,numeric-method"
      ]
    },
    {
      "page": "assays-set-SummarizedHeatmap",
      "title": "Replace the assays of a SummarizedHeatmap",
      "topics": [
        "assays-set-SummarizedHeatmap",
        "assays<-,SummarizedHeatmap,list-method",
        "assays<-,SummarizedHeatmap,SimpleList-method"
      ]
    },
    {
      "page": "clusterCols",
      "title": "Cluster columns",
      "topics": [
        "clusterCols"
      ]
    },
    {
      "page": "clusterHeatmap",
      "title": "Cluster rows and columns",
      "topics": [
        "clusterHeatmap"
      ]
    },
    {
      "page": "clusterRows",
      "title": "Cluster rows",
      "topics": [
        "clusterRows"
      ]
    },
    {
      "page": "colDendro",
      "title": "Access stored column dendrogram",
      "topics": [
        "colDendro",
        "colDendro,SummarizedHeatmap-method"
      ]
    },
    {
      "page": "colOrder",
      "title": "Access column display order",
      "topics": [
        "colOrder",
        "colOrder,SummarizedHeatmap-method"
      ]
    },
    {
      "page": "plotColData",
      "title": "Plot column annotations",
      "topics": [
        "plotColData"
      ]
    },
    {
      "page": "plotColDendro",
      "title": "Plot the stored column dendrogram",
      "topics": [
        "plotColDendro"
      ]
    },
    {
      "page": "plotHeatmap",
      "title": "Compose a complete heatmap with patchwork",
      "topics": [
        "plotHeatmap"
      ]
    },
    {
      "page": "plotHeatmapMain",
      "title": "Plot the assay as a ggplot heatmap",
      "topics": [
        "plotHeatmapMain"
      ]
    },
    {
      "page": "plotRowData",
      "title": "Plot row annotations",
      "topics": [
        "plotRowData"
      ]
    },
    {
      "page": "plotRowDendro",
      "title": "Plot the stored row dendrogram",
      "topics": [
        "plotRowDendro"
      ]
    },
    {
      "page": "rowDendro",
      "title": "Access stored row dendrogram",
      "topics": [
        "rowDendro",
        "rowDendro,SummarizedHeatmap-method"
      ]
    },
    {
      "page": "rowOrder",
      "title": "Access row display order",
      "topics": [
        "rowOrder",
        "rowOrder,SummarizedHeatmap-method"
      ]
    },
    {
      "page": "show-SummarizedHeatmap-method",
      "title": "Display a concise summary of a SummarizedHeatmap",
      "topics": [
        "show,SummarizedHeatmap-method"
      ]
    },
    {
      "page": "SummarizedHeatmap",
      "title": "Create a SummarizedHeatmap",
      "topics": [
        "SummarizedHeatmap"
      ]
    },
    {
      "page": "SummarizedHeatmap-class",
      "title": "SummarizedHeatmap class",
      "topics": [
        "SummarizedHeatmap-class"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/SummarizedHeatmap/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "Biobase",
    "BiocGenerics",
    "cli",
    "cpp11",
    "DelayedArray",
    "farver",
    "generics",
    "GenomicRanges",
    "ggdendro",
    "ggplot2",
    "glue",
    "gtable",
    "IRanges",
    "isoband",
    "labeling",
    "lattice",
    "lifecycle",
    "MASS",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "patchwork",
    "R6",
    "RColorBrewer",
    "rlang",
    "S4Arrays",
    "S4Vectors",
    "S7",
    "scales",
    "Seqinfo",
    "SparseArray",
    "SummarizedExperiment",
    "vctrs",
    "viridisLite",
    "withr",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "SummarizedHeatmap.Rmd",
      "filename": "SummarizedHeatmap.html",
      "title": "A Bioconductor-Native, Composable Heatmap",
      "author": "SummarizedHeatmap developers",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Create a heatmap object",
        "Manual column ordering",
        "Constructing from a SummarizedExperiment",
        "Plot components",
        "Compose and customize with patchwork",
        "Subsetting and reclustering",
        "Replacing assay values",
        "Session information"
      ],
      "created": "2026-09-27 11:11:01",
      "modified": "2026-10-05 17:01:54",
      "commits": 19
    }
  ],
  "_score": 3.1760912590556813,
  "_indexed": true,
  "_nocasepkg": "summarizedheatmap",
  "_universes": [
    "bioc",
    "blaserlab"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.99.0",
      "date": "2026-10-13T19:45:22.000Z",
      "distro": "resolute",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/3a2f0f6d2d6c9a0534953df96266ca985af4b50a38b3080d03d094caa84fb4dc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.99.0",
      "date": "2026-10-13T19:46:03.000Z",
      "distro": "resolute",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/244a280e807644904c1c5869f250b2937ca901be116525be388366c56a1fa77c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.99.0",
      "date": "2026-10-13T20:22:37.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/a229cc675ef19ad6f1d6e05ef30c48b9691b2adb3590ed7ad5008e133b0f7d84",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.99.0",
      "date": "2026-10-13T20:22:53.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/811eaa9c7f6ab95f27ede3e3aee21837ebc737db721dfd21becea26fe7c88d4f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.99.0",
      "date": "2026-10-13T19:44:31.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/267bad34c881ebcde2a554e8052d7734b7e014cb1220a8b5f85aa106228ea46f",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.99.0",
      "date": "2026-10-13T19:44:05.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/4774248631568b99f36a74e294ff1c6b8af2381cc3712ba09668f22ef40a1cd0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.99.0",
      "date": "2026-10-13T19:43:51.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/3ccea2ed9d6de4a8b8fc42dfcb12bec71df39a0dc534c1e6c9fd8dc5df16cd03",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.99.0",
      "date": "2026-10-13T19:43:50.000Z",
      "commit": "fc974b60c86561e3c30fc856f2c674e59fca097b",
      "fileid": "https://r2.ropensci.org/05b2fdfb53ba6352d0492d51e1763ae13c6243f1aefd734ba9ef2cb9e171fe12",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/38456486229"
    }
  ]
}