{
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  "Package": "Site2Target",
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  "Title": "An R package to associate peaks and target genes",
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  "Description": "Statistics implemented for both peak-wise and gene-wise\nassociations. In peak-wise associations, the p-value of the\ntarget genes of a given set of peaks are calculated. Negative\nbinomial or Poisson distributions can be used for modeling the\nunweighted peaks targets and log-nromal can be used to model\nthe weighted peaks. In gene-wise associations a table\nconsisting of a set of genes, mapped to specific peaks, is\ngenerated using the given rules.",
  "BugReports": "https://github.com/fls-bioinformatics-core/Site2Target/issues",
  "License": "GPL-2",
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  "Date/Publication": "2026-04-28 13:04:44 UTC",
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    "addRelation2geneWiseAssociation",
    "extendSitesInGivenRegions",
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    "getTargetGenesNumber",
    "getTargetGenesPvals",
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    "getTargetGenesPvalsWithIntensities",
    "getTargetGenesPvalsWithIntensitiesAndDNAInteractions",
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    "removeReserveCharacter",
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      ]
    },
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      "page": "addRelation2geneWiseAssociation",
      "title": "Add a relation column to gene-peak interaction table",
      "topics": [
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      ]
    },
    {
      "page": "data",
      "title": "MEIS cardiomyocytes datasets used in the package",
      "topics": [
        "data"
      ]
    },
    {
      "page": "extendSitesInGivenRegions",
      "title": "Extend sites given regions boundaries",
      "topics": [
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    },
    {
      "page": "genewiseAssociation",
      "title": "Generate genewise association between genes and peaks",
      "topics": [
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      ]
    },
    {
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      "title": "Return center of the given granges files",
      "topics": [
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      ]
    },
    {
      "page": "getNameFromCoordinates",
      "title": "Get names of genes or peaks related to a query coordinates",
      "topics": [
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      ]
    },
    {
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      "title": "generate number of sites per gene given distances",
      "topics": [
        "getTargetGenesNumber"
      ]
    },
    {
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      "title": "Fit Negative binomial distribution to target genes",
      "topics": [
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      ]
    },
    {
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      "title": "Fit Negative binomial distribution to target genes",
      "topics": [
        "getTargetGenesPvalsWithDNAInteractions"
      ]
    },
    {
      "page": "getTargetGenesPvalsWithIntensities",
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      "topics": [
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      ]
    },
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      "topics": [
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    },
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      "title": "Convert granges to strings of coordinates",
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      "title": "Remove reserved characters from a string",
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      ]
    },
    {
      "page": "site2GeneDistance",
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      ]
    },
    {
      "page": "Site2Target",
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