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  "Package": "HiTC",
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  "Title": "High Throughput Chromosome Conformation Capture analysis",
  "Description": "The HiTC package was developed to explore high-throughput\n'C' data such as 5C or Hi-C. Dedicated R classes as well as\nstandard methods for quality controls, normalization,\nvisualization, and further analysis are also provided.",
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  "Date": "2025-07-22",
  "Author": "Nicolas Servant",
  "Maintainer": "Nicolas Servant <nicolas.servant@curie.fr>",
  "License": "Artistic-2.0",
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    "normPerExpected",
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    "normPerTrans",
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    "ranges",
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    "seqlevels",
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    "setIntervalScale",
    "show",
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      ],
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      "tojson": false
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      "object": "Nora_5C",
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      ],
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      "tojson": false
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      "title": "Windowing of high-throughput 'C' contact matrix",
      "topics": [
        "binningC"
      ]
    },
    {
      "page": "CQC",
      "title": "Quality Control for high-throughput 'C' experiment",
      "topics": [
        "CQC"
      ]
    },
    {
      "page": "directionalityIndex",
      "title": "Directionality index calculation",
      "topics": [
        "directionalityIndex"
      ]
    },
    {
      "page": "discretize",
      "title": "Transform matrix of counts data into discrete matrix",
      "topics": [
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      ]
    },
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      "page": "export.my5C",
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      "topics": [
        "export.my5C"
      ]
    },
    {
      "page": "exportC",
      "title": "Export 'HTCexp' object",
      "topics": [
        "exportC"
      ]
    },
    {
      "page": "extractRegion",
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      "topics": [
        "extractRegion"
      ]
    },
    {
      "page": "getAnnotatedRestrictionSites",
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      "topics": [
        "getAnnotatedRestrictionSites"
      ]
    },
    {
      "page": "getExpectedCounts",
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      "topics": [
        "getExpectedCounts"
      ]
    },
    {
      "page": "getPearsonMap",
      "title": "Pearson correlation map",
      "topics": [
        "getPearsonMap"
      ]
    },
    {
      "page": "getRestrictionFragmentsPerChromosome",
      "title": "Get a list of DNA restriction fragments",
      "topics": [
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    },
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      "title": "Class 'HTCexp'",
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        "detail",
        "detail,HTCexp-method",
        "detail-methods",
        "divide",
        "divide,HTCexp,HTCexp-method",
        "divide-methods",
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        "forceSymmetric,HTCexp,character-method",
        "forceSymmetric,HTCexp,missing-method",
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        "forceTriangular,HTCexp-method",
        "forceTriangular-method",
        "HTCexp",
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        "isTriangular,HTCexp-method",
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        "normPerExpected,HTCexp-method",
        "normPerExpected-methods",
        "normPerReads",
        "normPerReads,HTCexp-method",
        "normPerReads-methods",
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        "normPerTrans,HTCexp,HTCexp,HTCexp-method",
        "normPerTrans-methods",
        "normPerZscore-defunct",
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        "plot,HTCexp,HTCexp-method",
        "range",
        "range,HTCexp-method",
        "range-method",
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        "seqlevels-method",
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        "substract",
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        "substract-methods",
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        "summary,HTClist-method",
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        "[,HTClist,ANY,ANY-method"
      ]
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      "title": "Import data from my5C webtool",
      "topics": [
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      ]
    },
    {
      "page": "importC",
      "title": "Import high-htroughput 'C' data",
      "topics": [
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    },
    {
      "page": "intervalsDist",
      "title": "intervalsDist",
      "topics": [
        "intervalsDist"
      ]
    },
    {
      "page": "mapC",
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      "topics": [
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        "mapC,HTCexp,ANY-method",
        "mapC,HTCexp,HTCexp-method",
        "mapC,HTClist,ANY-method",
        "mapC-methods"
      ]
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      "page": "Nora_5C",
      "title": "HiTC - 5C data",
      "topics": [
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        "MEF",
        "Nora_5C"
      ]
    },
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        "normICE"
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    },
    {
      "page": "normLGF",
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    {
      "page": "pca.hic",
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      "page": "removeIntervals",
      "title": "Remove intervals from HTCexp object",
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    },
    {
      "page": "setGenomicFeatures",
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