{
  "_id": "6ac4d8ecf511ae58c09a236d",
  "Package": "plyranges",
  "Type": "Package",
  "Title": "A fluent interface for manipulating GenomicRanges",
  "Version": "1.33.2",
  "Authors@R": "c(\nperson(\"Stuart\", \"Lee\", role = c(\"aut\"),\ncomment = c(ORCID = \"0000-0003-1179-8436\")),\nperson(\"Michael\", \"Lawrence\", role = c(\"aut\", \"ctb\")),\nperson(\"Dianne\", \"Cook\", role = c(\"aut\", \"ctb\")),\nperson(\"Spencer\", \"Nystrom\", role = c(\"ctb\"),\ncomment = c(ORCID = \"0000-0003-1000-1579\")),\nperson(\"Pierre-Paul\", \"Axisa\", role=c(\"ctb\")),\nperson(\"Stevie\", \"Pederson\", role=c(\"ctb\")),\nperson(\"Michael\", \"Love\", role = c(\"ctb\",\"cre\"),\nemail = \"michaelisaiahlove@gmail.com\")\n)",
  "Maintainer": "Michael Love <michaelisaiahlove@gmail.com>",
  "Description": "A dplyr-like interface for interacting with the common\nBioconductor classes Ranges and GenomicRanges. By providing a\ngrammatical and consistent way of manipulating these classes\ntheir accessiblity for new Bioconductor users is hopefully\nincreased.",
  "URL": "https://tidyomics.github.io/plyranges",
  "biocViews": "Infrastructure, DataRepresentation, WorkflowStep, Coverage",
  "BugReports": "https://github.com/tidyomics/plyranges",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "ByteCompile": "true",
  "VignetteBuilder": "knitr",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "Collate": "'class-AnchoredRanges.R' 'class-Operator.R'\n'class-DeferredGenomicRanges.R' 'class-GroupedRanges.R'\n'dplyr-arrange.R' 'dplyr-filter.R' 'dplyr-groups.R'\n'dplyr-mutate.R' 'dplyr-pull.R' 'dplyr-select.R'\n'dplyr-slice.R' 'dplyr-summarize.R' 'endo-coverage.R'\n'endo-tile.R' 'io-bam.R' 'io-bed.R' 'io-bigwig.R' 'io-gff.R'\n'io-wig.R' 'methods-DeferredGenomicRanges.R'\n'methods-Operator.R' 'plyranges.R' 'ranges-add-distance.R'\n'ranges-anchors.R' 'ranges-arithmetic-flank.R'\n'ranges-arithmetic-setters.R' 'ranges-arithmetic-shift.R'\n'ranges-arithmetic-stretch.R' 'ranges-bind.R' 'ranges-chop.R'\n'ranges-colwise.R' 'ranges-construct.R' 'ranges-disjoin.R'\n'ranges-eval-quo.R' 'ranges-eval.R' 'ranges-expand.R'\n'ranges-genomeinfo.R' 'ranges-join-follow.R'\n'ranges-join-mcols.R' 'ranges-join-nearest.R'\n'ranges-join-precede.R' 'ranges-overlap-count.R'\n'ranges-overlap-filter.R' 'ranges-overlap-find.R'\n'ranges-overlap-groups.R' 'ranges-overlap-joins-intersect.R'\n'ranges-overlap-joins-outer.R' 'ranges-overlap-self-joins.R'\n'ranges-pairs.R' 'ranges-rangewise-setops.R' 'ranges-reduce.R'\n'ranges-setops.R' 'utils-pipe.R'",
  "Config/pak/sysreqs": "make libbz2-dev liblzma-dev libxml2-dev libssl-dev\nxz-utils zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-07-30 15:23:34 UTC",
  "RemoteUrl": "https://github.com/bioc/plyranges",
  "RemoteRef": "HEAD",
  "RemoteSha": "5e88325af35a70f4377af8da797f2eaaa0e34488",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-06 11:10:27 UTC",
    "User": "root"
  },
  "Author": "Stuart Lee [aut] (ORCID: <https://orcid.org/0000-0003-1179-8436>),\nMichael Lawrence [aut, ctb],\nDianne Cook [aut, ctb],\nSpencer Nystrom [ctb] (ORCID: <https://orcid.org/0000-0003-1000-1579>),\nPierre-Paul Axisa [ctb],\nStevie Pederson [ctb],\nMichael Love [ctb, cre]",
  "_user": "bioc",
  "_type": "src",
  "_file": "plyranges_1.33.2.tar.gz",
  "_fileid": "https://r2.ropensci.org/db5330b83a5506c617d925c0c88dcf881ff903b0be5b675d47adada5467c08ed",
  "_filesize": 1335096,
  "_sha256": "db5330b83a5506c617d925c0c88dcf881ff903b0be5b675d47adada5467c08ed",
  "_expires": "2027-01-14T11:18:02.000Z",
  "_created": "2026-10-06T11:10:27.000Z",
  "_published": "2026-10-06T11:18:04.351Z",
  "_bioccheck": {
    "error": 0,
    "warning": 3,
    "note": 15
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341",
  "_status": "success",
  "_upstream": "https://github.com/bioc/plyranges",
  "_commit": {
    "id": "5e88325af35a70f4377af8da797f2eaaa0e34488",
    "author": "Mike Love <mikelove@users.noreply.github.com>",
    "committer": "Mike Love <mikelove@users.noreply.github.com>",
    "message": "version bump\n",
    "time": 1785425014
  },
  "_maintainer": {
    "name": "Michael Love",
    "email": "michaelisaiahlove@gmail.com",
    "login": "mikelove",
    "mastodon": "@mikelove@genomic.social",
    "description": "Genetics & Biostatistics at UNC-Chapel Hill. R/Bioconductor developer",
    "uuid": 69203
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 112239385422,
      "time": 205,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "11409336335"
    },
    {
      "job": 112239385553,
      "time": 393,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11409067109"
    },
    {
      "job": 112239385411,
      "time": 362,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11409256911"
    },
    {
      "job": 112239385320,
      "time": 247,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11409611405"
    },
    {
      "job": 112239385355,
      "time": 285,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11408996791"
    },
    {
      "job": 112237225274,
      "time": 354,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11408901644"
    },
    {
      "job": 112239385382,
      "time": 173,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11409446223"
    },
    {
      "job": 112239385489,
      "time": 280,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11409101737"
    },
    {
      "job": 112239385397,
      "time": 268,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11408957398"
    },
    {
      "job": 112239385512,
      "time": 271,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11408777571"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5",
      "role": "Depends"
    },
    {
      "package": "BiocGenerics",
      "role": "Depends"
    },
    {
      "package": "IRanges",
      "version": ">= 2.12.0",
      "role": "Depends"
    },
    {
      "package": "GenomicRanges",
      "version": ">= 1.28.4",
      "role": "Depends"
    },
    {
      "package": "dplyr",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "version": ">= 0.2.0",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "tidyselect",
      "version": ">= 1.0.0",
      "role": "Imports"
    },
    {
      "package": "rtracklayer",
      "role": "Imports"
    },
    {
      "package": "GenomicAlignments",
      "role": "Imports"
    },
    {
      "package": "Seqinfo",
      "role": "Imports"
    },
    {
      "package": "Rsamtools",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "version": ">= 0.23.10",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 2.1.0",
      "role": "Suggests"
    },
    {
      "package": "HelloRanges",
      "role": "Suggests"
    },
    {
      "package": "HelloRangesData",
      "role": "Suggests"
    },
    {
      "package": "BSgenome.Hsapiens.UCSC.hg19",
      "role": "Suggests"
    },
    {
      "package": "pasillaBamSubset",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 23,
  "_updates": [
    {
      "week": "2025-47",
      "n": 2
    },
    {
      "week": "2026-11",
      "n": 7
    },
    {
      "week": "2026-12",
      "n": 1
    },
    {
      "week": "2026-14",
      "n": 5
    },
    {
      "week": "2026-20",
      "n": 1
    },
    {
      "week": "2026-23",
      "n": 1
    },
    {
      "week": "2026-28",
      "n": 3
    },
    {
      "week": "2026-31",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.33.2",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.32.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "infrastructure",
    "datarepresentation",
    "workflowstep",
    "coverage",
    "bioconductor",
    "data-analysis",
    "dplyr",
    "genomic-ranges",
    "genomics",
    "tidy-data"
  ],
  "_stars": 156,
  "_contributors": [
    {
      "user": "mikelove",
      "count": 55,
      "uuid": 69203
    },
    {
      "user": "snystrom",
      "count": 38,
      "uuid": 17264973
    },
    {
      "user": "jwokaty",
      "count": 16,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 14,
      "uuid": 2746443
    },
    {
      "user": "sa-lee",
      "count": 14,
      "uuid": 8033857
    },
    {
      "user": "ppaxisa",
      "count": 3,
      "uuid": 36903724
    },
    {
      "user": "smped",
      "count": 2,
      "uuid": 8252496
    },
    {
      "user": "vobencha",
      "count": 2,
      "uuid": 2466173
    },
    {
      "user": "hpages",
      "count": 2,
      "uuid": 8810451
    },
    {
      "user": "iimog",
      "count": 1,
      "uuid": 7403236
    },
    {
      "user": "petehaitch",
      "count": 1,
      "uuid": 1049741
    },
    {
      "user": "shians",
      "count": 1,
      "uuid": 6036662
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 473,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 2053,
    "source": "https://www.bioconductor.org/packages/stats/bioc/plyranges"
  },
  "_mentions": 8,
  "_devurl": "https://github.com/tidyomics/plyranges",
  "_pkgdown": "https://tidyomics.github.io/plyranges",
  "_searchresults": 2340,
  "_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/plyranges.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/tidyomics/plyranges",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "%>%",
    "%intersect%",
    "%setdiff%",
    "%union%",
    "add_nearest_distance",
    "add_nearest_distance_downstream",
    "add_nearest_distance_left",
    "add_nearest_distance_right",
    "add_nearest_distance_upstream",
    "anchor",
    "anchor_3p",
    "anchor_5p",
    "anchor_center",
    "anchor_centre",
    "anchor_end",
    "anchor_start",
    "as_granges",
    "as_iranges",
    "as_ranges",
    "between",
    "bind_ranges",
    "chop_by_gaps",
    "chop_by_introns",
    "complement_ranges",
    "complement_ranges_directed",
    "compute_coverage",
    "count_overlaps",
    "count_overlaps_directed",
    "count_overlaps_within",
    "count_overlaps_within_directed",
    "disjoin_ranges",
    "disjoin_ranges_directed",
    "expand_ranges",
    "filter_by_non_overlaps",
    "filter_by_non_overlaps_directed",
    "filter_by_overlaps",
    "filter_by_overlaps_directed",
    "find_overlaps",
    "find_overlaps_directed",
    "find_overlaps_within",
    "find_overlaps_within_directed",
    "flank_downstream",
    "flank_left",
    "flank_right",
    "flank_upstream",
    "genome_info",
    "get_genome_info",
    "group_by_overlaps",
    "id_to_column",
    "intersect_ranges",
    "intersect_ranges_directed",
    "interweave",
    "join_follow",
    "join_follow_left",
    "join_follow_upstream",
    "join_mcols_inner",
    "join_mcols_left",
    "join_nearest",
    "join_nearest_downstream",
    "join_nearest_left",
    "join_nearest_right",
    "join_nearest_upstream",
    "join_overlap_inner",
    "join_overlap_inner_directed",
    "join_overlap_inner_within",
    "join_overlap_inner_within_directed",
    "join_overlap_intersect",
    "join_overlap_intersect_directed",
    "join_overlap_intersect_within",
    "join_overlap_intersect_within_directed",
    "join_overlap_left",
    "join_overlap_left_directed",
    "join_overlap_left_within",
    "join_overlap_left_within_directed",
    "join_overlap_self",
    "join_overlap_self_directed",
    "join_overlap_self_within",
    "join_overlap_self_within_directed",
    "join_precede",
    "join_precede_downstream",
    "join_precede_right",
    "n",
    "n_distinct",
    "names_to_column",
    "overscope_ranges",
    "pair_follow",
    "pair_nearest",
    "pair_overlaps",
    "pair_precede",
    "read_bam",
    "read_bed",
    "read_bed_graph",
    "read_bigwig",
    "read_gff",
    "read_gff1",
    "read_gff2",
    "read_gff3",
    "read_narrowpeaks",
    "read_wig",
    "reduce_ranges",
    "reduce_ranges_directed",
    "remove_names",
    "set_end",
    "set_genome_info",
    "set_seqnames",
    "set_start",
    "set_strand",
    "set_width",
    "setdiff_ranges",
    "setdiff_ranges_directed",
    "shift_downstream",
    "shift_left",
    "shift_right",
    "shift_upstream",
    "slide_ranges",
    "slide_ranges_directed",
    "span",
    "stretch",
    "tile_ranges",
    "tile_ranges_directed",
    "unanchor",
    "union_ranges",
    "union_ranges_directed",
    "write_bed",
    "write_bed_graph",
    "write_bigwig",
    "write_gff",
    "write_gff1",
    "write_gff2",
    "write_gff3",
    "write_narrowpeaks",
    "write_wig"
  ],
  "_help": [
    {
      "page": "plyranges-package",
      "title": "plyranges: a grammar of genomic data manipulation",
      "topics": [
        "plyranges-package",
        "plyranges"
      ]
    },
    {
      "page": "element-setops",
      "title": "Row-wise set operations on Ranges objects",
      "topics": [
        "%intersect%",
        "%setdiff%",
        "%union%",
        "between",
        "span"
      ]
    },
    {
      "page": "add-nearest-distance",
      "title": "Add distance to nearest neighbours between two Ranges objects",
      "topics": [
        "add_nearest_distance",
        "add_nearest_distance_downstream",
        "add_nearest_distance_left",
        "add_nearest_distance_right",
        "add_nearest_distance_upstream"
      ]
    },
    {
      "page": "ranges-anchor",
      "title": "Anchored Ranges objects",
      "topics": [
        "anchor",
        "anchor_3p",
        "anchor_5p",
        "anchor_center",
        "anchor_centre",
        "anchor_end",
        "anchor_start",
        "unanchor"
      ]
    },
    {
      "page": "ranges-arrange",
      "title": "Sort a Ranges object",
      "topics": [
        "arrange.Ranges"
      ]
    },
    {
      "page": "ranges-construct",
      "title": "Construct a I/GRanges object from a tibble or data.frame",
      "topics": [
        "as_granges",
        "as_iranges"
      ]
    },
    {
      "page": "as_ranges",
      "title": "Coerce an Rle or RleList object to Ranges",
      "topics": [
        "as_ranges"
      ]
    },
    {
      "page": "ranges-bind",
      "title": "Combine Ranges by concatentating them together",
      "topics": [
        "bind_ranges"
      ]
    },
    {
      "page": "ranges-chop",
      "title": "Group a GRanges object by introns or gaps",
      "topics": [
        "chop_by_gaps",
        "chop_by_introns"
      ]
    },
    {
      "page": "compute_coverage",
      "title": "Compute coverage over a Ranges object",
      "topics": [
        "compute_coverage"
      ]
    },
    {
      "page": "ranges-count-overlaps",
      "title": "Count the number of overlaps between two Ranges objects",
      "topics": [
        "count_overlaps",
        "count_overlaps.GenomicRanges",
        "count_overlaps.IntegerRanges",
        "count_overlaps_directed",
        "count_overlaps_directed.GenomicRanges",
        "count_overlaps_within",
        "count_overlaps_within.GenomicRanges",
        "count_overlaps_within.IntegerRanges",
        "count_overlaps_within_directed",
        "count_overlaps_within_directed.GenomicRanges"
      ]
    },
    {
      "page": "ranges-deferred",
      "title": "DeferredGenomiRanges objects",
      "topics": [
        "DeferredGenomicRanges-class"
      ]
    },
    {
      "page": "ranges-disjoin",
      "title": "Disjoin then aggregate a Ranges object",
      "topics": [
        "disjoin_ranges",
        "disjoin_ranges_directed"
      ]
    },
    {
      "page": "ranges-expand",
      "title": "Expand list-columns in a Ranges object",
      "topics": [
        "expand_ranges"
      ]
    },
    {
      "page": "ranges-class",
      "title": "An abstract class to represent operations performed over a file",
      "topics": [
        "BamFileOperator-class",
        "FileOperator-class"
      ]
    },
    {
      "page": "ranges-filter-overlaps",
      "title": "Filter by overlapping/non-overlapping ranges",
      "topics": [
        "filter_by_non_overlaps",
        "filter_by_non_overlaps_directed",
        "filter_by_overlaps",
        "filter_by_overlaps_directed"
      ]
    },
    {
      "page": "filter-ranges",
      "title": "Subset a 'Ranges' object",
      "topics": [
        "filter-ranges",
        "filter.Ranges"
      ]
    },
    {
      "page": "ranges-overlaps",
      "title": "Find overlap between two Ranges",
      "topics": [
        "find_overlaps",
        "find_overlaps.GenomicRanges",
        "find_overlaps.IntegerRanges",
        "find_overlaps_directed",
        "find_overlaps_directed.GenomicRanges",
        "find_overlaps_within",
        "find_overlaps_within.GenomicRanges",
        "find_overlaps_within.IntegerRanges",
        "find_overlaps_within_directed",
        "find_overlaps_within_directed.GenomicRanges",
        "group_by_overlaps",
        "group_by_overlaps.GenomicRanges",
        "group_by_overlaps.IntegerRanges"
      ]
    },
    {
      "page": "ranges-flank",
      "title": "Generate flanking regions",
      "topics": [
        "flank_downstream",
        "flank_left",
        "flank_right",
        "flank_upstream"
      ]
    },
    {
      "page": "group_by-ranges",
      "title": "Group a Ranges by one or more variables",
      "topics": [
        "GroupedGenomicRanges-class",
        "GroupedIntegerRanges-class",
        "groups.GroupedGenomicRanges",
        "groups.GroupedIntegerRanges",
        "group_by-ranges",
        "group_by.GenomicRanges",
        "ungroup.GroupedGenomicRanges"
      ]
    },
    {
      "page": "ranges-setops",
      "title": "Vector-wise Range set-operations",
      "topics": [
        "complement_ranges",
        "complement_ranges_directed",
        "intersect_ranges",
        "intersect_ranges_directed",
        "setdiff_ranges",
        "setdiff_ranges_directed",
        "union_ranges",
        "union_ranges_directed"
      ]
    },
    {
      "page": "ranges-interweave",
      "title": "Interweave a pair of Ranges objects together",
      "topics": [
        "interweave"
      ]
    },
    {
      "page": "ranges-follow",
      "title": "Find following Ranges",
      "topics": [
        "join_follow",
        "join_follow_left",
        "join_follow_upstream"
      ]
    },
    {
      "page": "mcols-joins",
      "title": "Join data by metadata columns",
      "topics": [
        "join_mcols_inner",
        "join_mcols_left"
      ]
    },
    {
      "page": "ranges-nearest",
      "title": "Find nearest neighbours between two Ranges objects",
      "topics": [
        "join_nearest",
        "join_nearest_downstream",
        "join_nearest_left",
        "join_nearest_right",
        "join_nearest_upstream"
      ]
    },
    {
      "page": "overlap-joins",
      "title": "Join by overlapping Ranges",
      "topics": [
        "join_overlap_inner",
        "join_overlap_inner_directed",
        "join_overlap_inner_within",
        "join_overlap_inner_within_directed",
        "join_overlap_intersect",
        "join_overlap_intersect_directed",
        "join_overlap_intersect_within",
        "join_overlap_intersect_within_directed",
        "join_overlap_left",
        "join_overlap_left_directed",
        "join_overlap_left_within",
        "join_overlap_left_within_directed"
      ]
    },
    {
      "page": "ranges-overlaps-self",
      "title": "Find overlaps within a Ranges object",
      "topics": [
        "join_overlap_self",
        "join_overlap_self_directed",
        "join_overlap_self_within",
        "join_overlap_self_within_directed"
      ]
    },
    {
      "page": "ranges-precede",
      "title": "Find preceding Ranges",
      "topics": [
        "join_precede",
        "join_precede_downstream",
        "join_precede_right"
      ]
    },
    {
      "page": "mutate-ranges",
      "title": "Modify a Ranges object",
      "topics": [
        "mutate.Ranges"
      ]
    },
    {
      "page": "n",
      "title": "Compute the number of ranges in each group.",
      "topics": [
        "n"
      ]
    },
    {
      "page": "n_distinct",
      "title": "Compute the number of distinct unique values in a vector or List",
      "topics": [
        "n_distinct"
      ]
    },
    {
      "page": "overscope_ranges",
      "title": "Create an overscoped environment from a Ranges object",
      "topics": [
        "overscope_ranges"
      ]
    },
    {
      "page": "ranges-pairs",
      "title": "Pair together two ranges objects",
      "topics": [
        "pair_follow",
        "pair_nearest",
        "pair_overlaps",
        "pair_precede"
      ]
    },
    {
      "page": "pull-ranges",
      "title": "Extract a single column from a Ranges object as a vector",
      "topics": [
        "pull-ranges",
        "pull.Ranges"
      ]
    },
    {
      "page": "ranges-info",
      "title": "Construct annotation information",
      "topics": [
        "genome_info",
        "get_genome_info",
        "ranges-info",
        "set_genome_info"
      ]
    },
    {
      "page": "io-bam-read",
      "title": "Read a BAM file",
      "topics": [
        "read_bam"
      ]
    },
    {
      "page": "io-bed-read",
      "title": "Read a BED or BEDGraph file",
      "topics": [
        "read_bed",
        "read_bed_graph",
        "read_narrowpeaks"
      ]
    },
    {
      "page": "io-bigwig-read",
      "title": "Read a BigWig file",
      "topics": [
        "read_bigwig"
      ]
    },
    {
      "page": "io-gff-read",
      "title": "Read a GFF/GTF/GVT file",
      "topics": [
        "read_gff",
        "read_gff1",
        "read_gff2",
        "read_gff3"
      ]
    },
    {
      "page": "io-wig-read",
      "title": "Read a WIG file",
      "topics": [
        "read_wig"
      ]
    },
    {
      "page": "ranges-reduce",
      "title": "Reduce then aggregate a Ranges object",
      "topics": [
        "reduce_ranges",
        "reduce_ranges_directed"
      ]
    },
    {
      "page": "ranges-names",
      "title": "Tools for working with named Ranges",
      "topics": [
        "id_to_column",
        "names_to_column",
        "remove_names"
      ]
    },
    {
      "page": "ranges-select",
      "title": "Select metadata columns of the Ranges object by name or position",
      "topics": [
        "select.Ranges"
      ]
    },
    {
      "page": "ranges-setters",
      "title": "Functional setters for Ranges objects",
      "topics": [
        "set_end",
        "set_seqnames",
        "set_start",
        "set_strand",
        "set_width"
      ]
    },
    {
      "page": "ranges-shift",
      "title": "Shift all coordinates in a genomic interval left or right, upstream or downstream",
      "topics": [
        "shift_downstream",
        "shift_left",
        "shift_right",
        "shift_upstream"
      ]
    },
    {
      "page": "slice-ranges",
      "title": "Choose ranges by their position",
      "topics": [
        "slice.GroupedGenomicRanges",
        "slice.GroupedIntegerRanges",
        "slice.Ranges",
        "slice_head.GroupedGenomicRanges",
        "slice_head.GroupedIntegerRanges",
        "slice_head.Ranges",
        "slice_max.GroupedGenomicRanges",
        "slice_max.GroupedIntegerRanges",
        "slice_max.Ranges",
        "slice_min.GroupedGenomicRanges",
        "slice_min.GroupedIntegerRanges",
        "slice_min.Ranges",
        "slice_sample.GroupedGenomicRanges",
        "slice_sample.GroupedIntegerRanges",
        "slice_sample.Ranges",
        "slice_tail.GroupedGenomicRanges",
        "slice_tail.GroupedIntegerRanges",
        "slice_tail.Ranges"
      ]
    },
    {
      "page": "stretch",
      "title": "Stretch a genomic interval",
      "topics": [
        "stretch"
      ]
    },
    {
      "page": "ranges-summarise",
      "title": "Reduce multiple values in a Ranges down to a single value",
      "topics": [
        "summarise.Ranges"
      ]
    },
    {
      "page": "ranges-tile",
      "title": "Slide or tile over a Ranges object",
      "topics": [
        "slide_ranges",
        "slide_ranges_directed",
        "tile_ranges",
        "tile_ranges_directed"
      ]
    },
    {
      "page": "io-bed-write",
      "title": "Write a BED or BEDGraph file",
      "topics": [
        "write_bed",
        "write_bed_graph",
        "write_narrowpeaks"
      ]
    },
    {
      "page": "io-bigwig-write",
      "title": "Write a BigWig file",
      "topics": [
        "write_bigwig"
      ]
    },
    {
      "page": "io-gff-write",
      "title": "Write a GFF(123) file",
      "topics": [
        "write_gff",
        "write_gff1",
        "write_gff2",
        "write_gff3"
      ]
    },
    {
      "page": "io-wig-write",
      "title": "Write a WIG file",
      "topics": [
        "write_wig"
      ]
    }
  ],
  "_pkglogo": "https://github.com/bioc/plyranges/raw/HEAD/man/figures/logo.png",
  "_readme": "https://github.com/bioc/plyranges/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "BH",
    "BiocBaseUtils",
    "BiocGenerics",
    "BiocIO",
    "BiocParallel",
    "Biostrings",
    "bitops",
    "cigarillo",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "curl",
    "dplyr",
    "formatR",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomicAlignments",
    "GenomicRanges",
    "glue",
    "httr",
    "IRanges",
    "jsonlite",
    "lambda.r",
    "lifecycle",
    "magrittr",
    "mime",
    "openssl",
    "pillar",
    "pkgconfig",
    "R6",
    "RCurl",
    "restfulr",
    "Rhtslib",
    "rjson",
    "rlang",
    "Rsamtools",
    "rtracklayer",
    "S4Vectors",
    "Seqinfo",
    "snow",
    "sys",
    "tibble",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr",
    "XML",
    "XVector",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "more-examples.Rmd",
      "filename": "more-examples.html",
      "title": "Additional examples of plyranges",
      "author": "Stuart Lee",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Quick overview",
        "About Ranges",
        "Example: finding GWAS hits that overlap known exons",
        "Session information"
      ],
      "created": "2026-03-15 18:52:39",
      "modified": "2026-03-15 18:52:39",
      "commits": 1
    },
    {
      "source": "an-introduction.Rmd",
      "filename": "an-introduction.html",
      "title": "Getting started with the plyranges package",
      "author": "Stuart Lee",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Ranges revisited",
        "Constructing Ranges",
        "Arithmetic on Ranges",
        "Grouping Ranges",
        "Restricting Ranges",
        "Summarising Ranges",
        "Joins, or another way at looking at overlaps between Ranges",
        "Finding your neighbours",
        "Example: dealing with multi-mapping",
        "Grouping by overlaps",
        "Data Import/Output",
        "Learning more",
        "Namespace considerations",
        "Session information"
      ],
      "created": "2018-01-10 10:38:38",
      "modified": "2026-07-30 15:23:23",
      "commits": 22
    }
  ],
  "_score": 13.561151155014564,
  "_indexed": true,
  "_nocasepkg": "plyranges",
  "_universes": [
    "bioc",
    "mikelove",
    "tidyomics"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.33.2",
      "date": "2026-10-06T11:15:40.000Z",
      "distro": "resolute",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/36bde633f1c139f6ca3fb8ee49b7eb649a2ce49a7c02959dd5c6f882824fe333",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.33.2",
      "date": "2026-10-06T11:14:58.000Z",
      "distro": "resolute",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/062854d42f1ec402ce47e8919e81d121a4cd60e2e05493c6e1a2f9d99c486c16",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:20.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/958c5ba0b0d365f2ff624f67d3e269183b20006cda0fa7829ef40fa07fec588f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:46.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/84880c4950b1aefe0824c5d2d63acab7223bc029de7fdedf6954892c7bf4d81d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:58.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/ec4de9538b85b9932d55a9b720c5a4424bef4a13ba48966d3c80ee2de7239354",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:14.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/0098085f4930056d64269473668f3cc3223f2aec57cee0ce2da57ec00dd98cc6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:08.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/ac54e19172ae5724313ba1af7ee018838570f9b5479b3737f3d3f29474731aa0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.33.2",
      "date": "2026-10-06T11:13:13.000Z",
      "commit": "5e88325af35a70f4377af8da797f2eaaa0e34488",
      "fileid": "https://r2.ropensci.org/adb250e39f7800ca62b77f756445eea7f7b610731c3bd78b7bb9cae8632fbdeb",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37454012341"
    }
  ]
}