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  "Package": "PGRdup",
  "Title": "Discover Probable Duplicates in Plant Genetic Resources\nCollections",
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  "Description": "Provides functions to aid the identification of\nprobable/possible duplicates in Plant Genetic Resources (PGR)\ncollections using 'passport databases' comprising of\ninformation records of each constituent sample. These include\nmethods for cleaning the data, creation of a searchable Key\nWord in Context (KWIC) index of keywords associated with sample\nrecords and the identification of nearly identical records with\nsimilar information by fuzzy, phonetic and semantic matching of\nkeywords.",
  "Copyright": "2014-2026, ICAR-NBPGR",
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  "Repository": "https://aravind-j.r-universe.dev",
  "Date/Publication": "2026-08-03 08:26:46 UTC",
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  "Packaged": {
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  "Author": "J. Aravind [aut, cre] (ORCID: <https://orcid.org/0000-0002-4791-442X>),\nJ. Radhamani [aut],\nKalyani Srinivasan [aut],\nB. Ananda Subhash [aut],\nRishi Kumar Tyagi [aut],\nICAR-NBGPR [cph] (ROR: <https://ror.org/00scbd467>, url:\nhttps://nbpgr.org.in/),\nMaurice Aubrey [ctb] (Double Metaphone),\nKevin Atkinson [ctb] (Double Metaphone),\nLawrence Philips [ctb] (Double Metaphone)",
  "Maintainer": "J. Aravind <j.aravind@icar.org.in>",
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    "DisProbDup",
    "DoubleMetaphone",
    "KWCounts",
    "KWIC",
    "MergeKW",
    "MergePrefix",
    "MergeProbDup",
    "MergeSuffix",
    "ParseProbDup",
    "print.KWIC",
    "print.ProbDup",
    "ProbDup",
    "read.genesys",
    "ReconstructProbDup",
    "ReviewProbDup",
    "SplitProbDup",
    "ValidatePrimKey",
    "ViewProbDup"
  ],
  "_datasets": [
    {
      "name": "GN1000",
      "title": "Sample groundnut PGR passport data",
      "object": "GN1000",
      "class": [
        "data.frame"
      ],
      "fields": [
        "CommonName",
        "BotanicalName",
        "NationalID",
        "CollNo",
        "DonorID",
        "OtherID1",
        "OtherID2",
        "BioStatus",
        "SourceCountry",
        "TransferYear"
      ],
      "rows": 1000,
      "table": true,
      "tojson": true
    }
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    {
      "page": "AddProbDup",
      "title": "Add probable duplicate sets fields to the PGR passport database",
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        "AddProbDup"
      ]
    },
    {
      "page": "DataClean",
      "title": "Clean PGR passport data",
      "topics": [
        "DataClean"
      ]
    },
    {
      "page": "DisProbDup",
      "title": "Get disjoint probable duplicate sets",
      "topics": [
        "DisProbDup"
      ]
    },
    {
      "page": "DoubleMetaphone",
      "title": "'Double Metaphone' phonetic algorithm",
      "topics": [
        "DoubleMetaphone"
      ]
    },
    {
      "page": "GN1000",
      "title": "Sample groundnut PGR passport data",
      "topics": [
        "GN1000"
      ]
    },
    {
      "page": "KWCounts",
      "title": "Generate keyword counts",
      "topics": [
        "KWCounts"
      ]
    },
    {
      "page": "KWIC",
      "title": "Create a KWIC index",
      "topics": [
        "KWIC"
      ]
    },
    {
      "page": "MergeKW",
      "title": "Merge keyword strings",
      "topics": [
        "MergeKW",
        "MergePrefix",
        "MergeSuffix"
      ]
    },
    {
      "page": "MergeProbDup",
      "title": "Merge two objects of class 'ProbDup'",
      "topics": [
        "MergeProbDup"
      ]
    },
    {
      "page": "ParseProbDup",
      "title": "Parse an object of class 'ProbDup' to a data frame.",
      "topics": [
        "ParseProbDup"
      ]
    },
    {
      "page": "print.KWIC",
      "title": "Prints summary of 'KWIC' object.",
      "topics": [
        "print.KWIC"
      ]
    },
    {
      "page": "print.ProbDup",
      "title": "Prints summary of 'ProbDup' object.",
      "topics": [
        "print.ProbDup"
      ]
    },
    {
      "page": "ProbDup",
      "title": "Identify probable duplicates of accessions",
      "topics": [
        "ProbDup"
      ]
    },
    {
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      "title": "Convert 'Darwin Core - Germplasm' zip archive to a flat file",
      "topics": [
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      ]
    },
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      "title": "Reconstruct an object of class ProbDup",
      "topics": [
        "ReconstructProbDup"
      ]
    },
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      "title": "Retrieve probable duplicate set information from PGR passport database for review",
      "topics": [
        "ReviewProbDup"
      ]
    },
    {
      "page": "SplitProbDup",
      "title": "Split an object of class 'ProbDup'",
      "topics": [
        "SplitProbDup"
      ]
    },
    {
      "page": "ValidatePrimKey",
      "title": "Validate if a data frame column confirms to primary key/ID constraints",
      "topics": [
        "ValidatePrimKey"
      ]
    },
    {
      "page": "ViewProbDup",
      "title": "Visualize the probable duplicate sets retrieved in a 'ProbDup' object",
      "topics": [
        "ViewProbDup"
      ]
    }
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      "source": "Introduction.Rmd",
      "filename": "Introduction.pdf",
      "title": "An Introduction to PGRdup Package",
      "author": "Aravind, J.^1^, Radhamani, J.^1^, Kalyani Srinivasan^1^, Ananda Subhash, B.^2^, and Tyagi, R. K.^1^",
      "engine": "knitr::rmarkdown_notangle",
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        "Introduction",
        "Version History",
        "Installation",
        "Data Format",
        "Data Pre-processing",
        "Generation of KWIC Index",
        "Retrieval of Probable Duplicate Sets",
        "Methods",
        "Matching Strategies",
        "Memory and Speed Constraints",
        "Set Review, Modification and Validation",
        "Other Functions",
        "Citing PGRdup",
        "Session Info",
        "References"
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      "created": "2017-08-03 13:01:47",
      "modified": "2025-12-13 11:30:52",
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