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  "Version": "1.23.1",
  "Date": "2026-08-25",
  "Title": "Clustering Algorithms for Bioconductor",
  "Description": "Wraps common clustering algorithms in an easily extended\nS4 framework. Backends are implemented for hierarchical,\nk-means and graph-based clustering. Several utilities are also\nprovided to compare and evaluate clustering results.",
  "Authors@R": "c(\nperson(\"Aaron\", \"Lun\", role = c(\"aut\", \"cre\"), email = \"infinite.monkeys.with.keyboards@gmail.com\"),\nperson(\"Stephanie\", \"Hicks\", role=\"ctb\"),\nperson(\"Basil\", \"Courbayre\", role=\"ctb\"),\nperson(\"Tuomas\", \"Borman\", role=\"ctb\"),\nperson(\"Leo\", \"Lahti\", role=\"ctb\")\n)",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-08-25 08:29:59 UTC",
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  "Author": "Aaron Lun [aut, cre],\nStephanie Hicks [ctb],\nBasil Courbayre [ctb],\nTuomas Borman [ctb],\nLeo Lahti [ctb]",
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    "centers",
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    "neighborsToSNNGraph",
    "nestedClusters",
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    "pairwiseModularity",
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    "PamParam",
    "show",
    "SNNGraphParam",
    "SomParam",
    "TwoStepParam",
    "updateObject"
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      "title": "Define the default arguments",
      "topics": [
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        ".defaultScalarArguments,BlusterParam-method",
        ".extractScalarArguments",
        ".showScalarArguments"
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    {
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        "AffinityParam-class",
        "clusterRows,ANY,AffinityParam-method",
        "show,AffinityParam-method"
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    {
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        "AgnesParam",
        "AgnesParam-class",
        "clusterRows,ANY,AgnesParam-method",
        "show,AgnesParam-method"
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    {
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      "title": "Approximate silhouette width",
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    {
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      "title": "The BlusterParam class",
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        "show,BlusterParam-method",
        "[[,BlusterParam-method",
        "[[<-,BlusterParam-method"
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      ]
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      "title": "Clustering Large Applications",
      "topics": [
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        "ClaraParam",
        "ClaraParam-class",
        "clusterRows,ANY,ClaraParam-method",
        "show,ClaraParam-method"
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      "topics": [
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      "topics": [
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    {
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    },
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        "DbscanParam",
        "DbscanParam-class",
        "show,DbscanParam-method"
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    {
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        "clusterRows,ANY,DianaParam-method",
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        "DianaParam-class",
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      "title": "Dirichlet multinomial mixture clustering",
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        "DmmParam",
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        "show,DmmParam-method"
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        "centers,FixedNumberParam-method",
        "centers<-",
        "centers<-,FixedNumberParam-method",
        "FixedNumberParam-class",
        "show,FixedNumberParam-method"
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        "clusterRows,ANY,HclustParam-method",
        "HclustParam",
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        "updateObject,KmeansParam-method"
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        "linkClustersMatrix"
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        "makeSNNGraph",
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        "MbkmeansParam",
        "MbkmeansParam-class",
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      "title": "Merge communities from graph-based clustering",
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      "page": "neighborPurity",
      "title": "Compute neighborhood purity",
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      "title": "Map nested clusterings",
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        "clusterRows,ANY,SNNGraphParam-method",
        "KNNGraphParam",
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        "NNGraphParam",
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        "SNNGraphParam",
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    {
      "page": "pairwiseModularity",
      "title": "Compute pairwise modularity",
      "topics": [
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      ]
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    {
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      "title": "Compute pairwise Rand indices",
      "topics": [
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        "TwoStepParam",
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      "title": "Flexible clustering for Bioconductor",
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        "Introduction",
        "Based on distance matrices",
        "Hierarchical clustering",
        "Affinity propagation",
        "With a fixed number of clusters",
        "$k$-means clustering",
        "Self-organizing maps",
        "Graph-based clustering",
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