{
  "_id": "6abb791599f7aa8c6aa4485b",
  "Package": "BiocNeighbors",
  "Version": "2.6.0",
  "Date": "2026-02-13",
  "Title": "Nearest Neighbor Detection for Bioconductor Packages",
  "Authors@R": "c(person(\"Aaron\", \"Lun\", role=c(\"aut\", \"cre\", \"cph\"), email=\"infinite.monkeys.with.keyboards@gmail.com\"))",
  "biocViews": "Clustering, Classification",
  "Description": "Implements exact and approximate methods for nearest\nneighbor detection, in a framework that allows them to be\neasily switched within Bioconductor packages or workflows.\nExact searches can be performed using the k-means for k-nearest\nneighbors algorithm, vantage point trees, or an exhaustive\nsearch. Approximate searches can be performed using the Annoy\nor HNSW libraries. Each search can be performed with a variety\nof different distance metrics, parallelization, and variable\nnumbers of neighbors. Range-based searches (to find all\nneighbors within a certain distance) are also supported.",
  "License": "GPL-3",
  "VignetteBuilder": "knitr",
  "SystemRequirements": "C++17",
  "RoxygenNote": "7.3.3",
  "Encoding": "UTF-8",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "Bioconductor 3.23",
  "Date/Publication": "2026-04-28 12:48:15 UTC",
  "RemoteUrl": "https://github.com/bioc/BiocNeighbors",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-09-29 08:27:35 UTC",
    "User": "root"
  },
  "Author": "Aaron Lun [aut, cre, cph]",
  "Maintainer": "Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "BiocNeighbors_2.6.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/7e769d55916b69c5f3615d30aaad9650430fe509d751e78da71a838350070d33",
  "_filesize": 250208,
  "_sha256": "7e769d55916b69c5f3615d30aaad9650430fe509d751e78da71a838350070d33",
  "_expires": "2027-01-07T08:38:42.000Z",
  "_created": "2026-09-29T08:27:35.000Z",
  "_published": "2026-09-29T08:38:45.185Z",
  "_bioccheck": {
    "error": 0,
    "warning": 2,
    "note": 7
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177",
  "_status": "success",
  "_upstream": "https://github.com/bioc/BiocNeighbors",
  "_commit": {
    "id": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777380495
  },
  "_maintainer": {
    "name": "Aaron Lun",
    "email": "infinite.monkeys.with.keyboards@gmail.com",
    "login": "ltla",
    "twitter": "@realAaronLun",
    "description": "(ノಠ益ಠ)ノ彡┻━┻\n",
    "uuid": 8166669
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 109322419304,
      "time": 194,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "11021970450"
    },
    {
      "job": 109322420390,
      "time": 186,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11020369943"
    },
    {
      "job": 109322419865,
      "time": 249,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11021198432"
    },
    {
      "job": 109322419905,
      "time": 183,
      "config": "linux-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021990024"
    },
    {
      "job": 109322419843,
      "time": 306,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11022045721"
    },
    {
      "job": 109322419417,
      "time": 146,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11021212878"
    },
    {
      "job": 109322419411,
      "time": 353,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11022155994"
    },
    {
      "job": 109322419410,
      "time": 167,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021670433"
    },
    {
      "job": 109322419676,
      "time": 423,
      "config": "macos-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021436355"
    },
    {
      "job": 109320793069,
      "time": 286,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021133224"
    },
    {
      "job": 109322419196,
      "time": 172,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11021610245"
    },
    {
      "job": 109322419497,
      "time": 294,
      "config": "windows-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11021291787"
    },
    {
      "job": 109322419552,
      "time": 169,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11021540296"
    },
    {
      "job": 109322419579,
      "time": 169,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11021585665"
    },
    {
      "job": 109322419537,
      "time": 328,
      "config": "windows-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11022180363"
    },
    {
      "job": 109322419741,
      "time": 174,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11021660662"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "assorthead",
      "role": "LinkingTo"
    },
    {
      "package": "beachmat",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Suggests"
    },
    {
      "package": "DelayedArray",
      "role": "Suggests"
    },
    {
      "package": "beachmat",
      "role": "Suggests"
    },
    {
      "package": "BiocParallel",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 115,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2025-50",
      "n": 3
    },
    {
      "week": "2026-04",
      "n": 5
    },
    {
      "week": "2026-05",
      "n": 3
    },
    {
      "week": "2026-07",
      "n": 1
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "2.7.3",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "2.6.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "clustering",
    "classification",
    "cpp"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 470,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 29938,
    "source": "https://www.bioconductor.org/packages/stats/bioc/BiocNeighbors"
  },
  "_searchresults": 1,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/BiocNeighbors.html",
    "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"
  ],
  "_homeurl": "https://github.com/knncolle/biocneighbors",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "AnnoyIndex",
    "AnnoyParam",
    "bndistance",
    "buildIndex",
    "defineBuilder",
    "ExhaustiveIndex",
    "ExhaustiveParam",
    "findDistance",
    "findDistanceFromIndex",
    "findKNN",
    "findKnnFromIndex",
    "findMutualNN",
    "findNeighbors",
    "findNeighborsFromIndex",
    "getLoadGenericIndexRegistry",
    "HnswIndex",
    "HnswParam",
    "KmknnIndex",
    "KmknnParam",
    "loadIndex",
    "queryDistance",
    "queryDistanceFromIndex",
    "queryKNN",
    "queryKnnFromIndex",
    "queryNeighbors",
    "queryNeighborsFromIndex",
    "registerLoadGenericIndexClass",
    "registerLoadIndexFunction",
    "saveIndex",
    "show",
    "VptreeIndex",
    "VptreeParam"
  ],
  "_help": [
    {
      "page": "BiocNeighbors-package",
      "title": "BiocNeighbors: Nearest Neighbor Detection for Bioconductor Packages",
      "topics": [
        "BiocNeighbors-package",
        "BiocNeighbors"
      ]
    },
    {
      "page": "AnnoyParam",
      "title": "The AnnoyParam class",
      "topics": [
        "AnnoyIndex",
        "AnnoyIndex-class",
        "AnnoyParam",
        "AnnoyParam-class",
        "defineBuilder,AnnoyParam-method",
        "show,AnnoyParam-method"
      ]
    },
    {
      "page": "BiocNeighborIndex",
      "title": "The BiocNeighborIndex class",
      "topics": [
        "BiocNeighborGenericIndex-class",
        "BiocNeighborIndex",
        "BiocNeighborIndex-class",
        "show,BiocNeighborIndex-method"
      ]
    },
    {
      "page": "BiocNeighborParam",
      "title": "The BiocNeighborParam class",
      "topics": [
        "BiocNeighborParam",
        "BiocNeighborParam-class",
        "bndistance",
        "show,BiocNeighborParam-method",
        "[[,BiocNeighborParam-method",
        "[[<-,BiocNeighborParam-method"
      ]
    },
    {
      "page": "buildIndex",
      "title": "Build a nearest-neighbor index",
      "topics": [
        "buildIndex",
        "buildIndex,BiocNeighborParam-method",
        "buildIndex,list-method",
        "buildIndex,missing-method",
        "buildIndex,NULL-method"
      ]
    },
    {
      "page": "defineBuilder",
      "title": "Define an index builder",
      "topics": [
        "defineBuilder",
        "defineBuilder,missing-method",
        "defineBuilder,NULL-method"
      ]
    },
    {
      "page": "ExhaustiveParam",
      "title": "The ExhaustiveParam class",
      "topics": [
        "defineBuilder,ExhaustiveParam-method",
        "ExhaustiveIndex",
        "ExhaustiveIndex-class",
        "ExhaustiveParam",
        "ExhaustiveParam-class"
      ]
    },
    {
      "page": "findDistance",
      "title": "Distance to the k-th nearest neighbor",
      "topics": [
        "findDistance",
        "findDistanceFromIndex",
        "findDistanceFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "findKNN",
      "title": "Find k-nearest neighbors",
      "topics": [
        "findKNN",
        "findKnnFromIndex",
        "findKnnFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "findMutualNN",
      "title": "Find mutual nearest neighbors",
      "topics": [
        "findMutualNN"
      ]
    },
    {
      "page": "findNeighbors",
      "title": "Find neighbors within a threshold distance",
      "topics": [
        "findNeighbors",
        "findNeighborsFromIndex",
        "findNeighborsFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "getLoadGenericIndexRegistry",
      "title": "Load indices from extension packages",
      "topics": [
        "getLoadGenericIndexRegistry",
        "registerLoadGenericIndexClass",
        "registerLoadIndexFunction"
      ]
    },
    {
      "page": "HnswParam",
      "title": "The HnswParam class",
      "topics": [
        "defineBuilder,HnswParam-method",
        "HnswIndex",
        "HnswIndex-class",
        "HnswParam",
        "HnswParam-class",
        "show,HnswParam-method"
      ]
    },
    {
      "page": "KmknnParam",
      "title": "The KmknnParam class",
      "topics": [
        "defineBuilder,KmknnParam-method",
        "KmknnIndex",
        "KmknnIndex-class",
        "KmknnParam",
        "KmknnParam-class"
      ]
    },
    {
      "page": "loadIndex",
      "title": "Load a prebuilt search index from disk",
      "topics": [
        "loadIndex"
      ]
    },
    {
      "page": "queryDistance",
      "title": "Distance to the k-th nearest neighbor to query points",
      "topics": [
        "queryDistance",
        "queryDistanceFromIndex",
        "queryDistanceFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "queryKNN",
      "title": "Query k-nearest neighbors",
      "topics": [
        "queryKNN",
        "queryKnnFromIndex",
        "queryKnnFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "queryNeighbors",
      "title": "Query neighbors within a threshold distance",
      "topics": [
        "queryNeighbors",
        "queryNeighborsFromIndex",
        "queryNeighborsFromIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "saveIndex",
      "title": "Save a nearest-neighbor index",
      "topics": [
        "saveIndex",
        "saveIndex,BiocNeighborGenericIndex-method"
      ]
    },
    {
      "page": "VptreeParam",
      "title": "The VptreeParam class",
      "topics": [
        "defineBuilder,VptreeParam-method",
        "VptreeIndex",
        "VptreeIndex-class",
        "VptreeParam",
        "VptreeParam-class"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/BiocNeighbors/raw/RELEASE_3_23/README.md",
  "_rundeps": [
    "abind",
    "assorthead",
    "beachmat",
    "BiocGenerics",
    "DelayedArray",
    "generics",
    "IRanges",
    "lattice",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "Rcpp",
    "S4Arrays",
    "S4Vectors",
    "SparseArray",
    "XVector"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "16-20260322-1ubuntu1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "userguide.Rmd",
      "filename": "userguide.html",
      "title": "Finding neighbors in high-dimensional space",
      "author": "Aaron Lun",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Finding nearest neighbors",
        "Finding all neighbors within range",
        "Saving indices to disk",
        "Usage in downstream C++ libraries",
        "Extending to new methods",
        "Introduction",
        "In R",
        "In C++",
        "Session information"
      ],
      "created": "2024-09-05 18:04:58",
      "modified": "2026-01-31 02:11:08",
      "commits": 5
    }
  ],
  "_score": 8.491163133843521,
  "_indexed": false,
  "_nocasepkg": "biocneighbors",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/BiocNeighbors",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.6.0",
      "date": "2026-09-29T08:30:41.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/02e35c4b94bc7e9092190793a61724f7bcd1241388a919bb3e3a25b80031ea18",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "2.6.0",
      "date": "2026-09-29T08:31:30.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/7d3b6d4015c4e0a7e58f496a4ac407b683179c308be6ea46bb2bfcee17630722",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2.6.0",
      "date": "2026-09-29T08:30:39.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/011c369a8f2c773d500901140d1948290506820aaff1eb80f58f84a9393127aa",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "2.6.0",
      "date": "2026-09-29T08:32:29.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/c6e8f4e60f46d43345f2e1d82e1860e2981af1eb3433799ab9573a981fe7d1ff",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.6.0",
      "date": "2026-09-29T08:31:34.000Z",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/f4f0eb247863d163116caa2355c6317a01ebeb26e744dbd0490a3213022180d7",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "2.6.0",
      "date": "2026-09-29T08:34:26.000Z",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/d652263ca4c78d84b0ae7c9c03dad3cab3265b5d1cc7698580d8ae3f91045081",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2.6.0",
      "date": "2026-09-29T08:31:45.000Z",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/0f83b90b1abfd35e9af2dd19f192cb7c02dfbe52505bed84c669cedccff71fcb",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "2.6.0",
      "date": "2026-09-29T08:35:27.000Z",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/ba8aab3345870a076144446202cf5c575fdf07245501722d2303e9bd7f3ca48d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "2.6.0",
      "date": "2026-09-29T08:30:47.000Z",
      "arch": "emscripten",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/f5bc4ce280564b04e99c28b86bf7cb1e9d840e82722747d5d4357a87ad3180b8",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.6.0",
      "date": "2026-09-29T08:32:00.000Z",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/3d3d45ef97e7ed7912ef8a105d052e8c4712ed595ebffbb462c696e422537704",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "2.6.0",
      "date": "2026-09-29T08:29:38.000Z",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/a2e7513b78d9efa952c96e191773c9dc40a287aed35f624daaab5032ea9878ef",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "2.6.0",
      "date": "2026-09-29T08:29:27.000Z",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/98f8f30e507d0a85eaf8e12c86bf0fe34b7509b0d30974609ce14ad0cc4e027d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "2.6.0",
      "date": "2026-09-29T08:32:39.000Z",
      "arch": "aarch64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/ff2dc16fefb07e1559fb6745feec08794db94b1d4bdef7b9e7fcd0183ac82f1d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "2.6.0",
      "date": "2026-09-29T08:29:36.000Z",
      "arch": "x86_64",
      "commit": "221e565acfb3d54d1cf86c69b4cb72a78c9e9cc5",
      "fileid": "https://r2.ropensci.org/674b989743a3afe0161d4ef5dc35a60a78bff227a3b7fec19a2a0252c21bf74b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/36542405177"
    }
  ]
}