{
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  "Date": "2025-07-22",
  "Type": "Package",
  "Title": "Operations on genomic intervals",
  "Author": "Julien Gagneur <gagneur@in.tum.de>, Joern Toedling, Richard\nBourgon, Nicolas Delhomme",
  "Maintainer": "Julien Gagneur <gagneur@in.tum.de>",
  "Description": "This package defines classes for representing genomic\nintervals and provides functions and methods for working with\nthese. Note: The package provides the basic infrastructure for\nand is enhanced by the package 'girafe'.",
  "License": "Artistic-2.0",
  "Collate": "AllGenerics.R Genome_intervals-class.R\nGenome_intervals-coercion-methods.R Genome_intervals-package.R\nGenome_intervals-ordering.R show-methods.R size-methods.R c.R\ncore_annotated.R distance_to_nearest-methods.R\ninterval_complement-methods.R interval_overlap-methods.R\ninterval_intersection-methods.R interval_union-methods.R\nwhich_nearest-methods.R parseGffAttributes.R readGff3.R\nwriteGff3.R",
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    "strand",
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    "width",
    "writeGff3"
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      "page": "genomeIntervals-package",
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        "genomeIntervals"
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        "c,Genome_intervals_stranded-method"
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      "page": "core_annotated",
      "title": "Genome intervals with minimal annotation",
      "topics": [
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        "core_annotated,Genome_intervals-method",
        "core_annotated,Genome_intervals_stranded-method"
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    },
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      "page": "distance_to_nearest-methods",
      "title": "Distance in bases to the closest interval(s)",
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        "distance_to_nearest,Genome_intervals,Genome_intervals-method",
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      "title": "Genome Intervals examples",
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        "j",
        "k"
      ]
    },
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      "page": "Genome_intervals-deprecated",
      "title": "The following function have been deprecated:         • 'seq_name'         • 'seq_name<-'",
      "topics": [
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        "seq_name",
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        "Genome_intervals_stranded-class",
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        "$<-,Genome_intervals-method",
        "annotation",
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        "[[<-,Genome_intervals,ANY-method",
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    {
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      "title": "Ordering methods for Genome intervals",
      "topics": [
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        "order",
        "order,Genome_intervals-method",
        "order,Genome_intervals_stranded-method",
        "rank",
        "rank,Genome_intervals-method",
        "rank,Genome_intervals_stranded-method",
        "sort",
        "sort,Genome_intervals-method",
        "sort,Genome_intervals_stranded-method",
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      "topics": [
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      "page": "Genome_intervals-coercion-methods",
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      "topics": [
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        "as,Genome_intervals-method",
        "coerce,Genome_intervals,GRanges-method",
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    {
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