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  "Package": "BiocFHIR",
  "Title": "Illustration of FHIR ingestion and transformation using R",
  "Version": "1.15.0",
  "Date": "2022-11-29",
  "Authors@R": "c(person(\n\"Vincent\", \"Carey\", role = c(\"aut\", \"cre\"),\nemail = \"stvjc@channing.harvard.edu\",\ncomment = c(ORCID = \"0000-0003-4046-0063\")\n))",
  "Description": "FHIR R4 bundles in JSON format are derived from\nhttps://synthea.mitre.org/downloads. Transformation inspired by\na kaggle notebook published by Dr Alexander Scarlat,\nhttps://www.kaggle.com/code/drscarlat/fhir-starter-parse-healthcare-bundles-into-tables.\nThis is a very limited illustration of some basic parsing and\nreorganization processes.  Additional tooling will be required\nto move beyond the Synthea data illustrations.",
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  "Encoding": "UTF-8",
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  "biocViews": "Infrastructure, DataImport, DataRepresentation",
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  "URL": "https://github.com/vjcitn/BiocFHIR",
  "BugReports": "https://github.com/vjcitn/BiocFHIR/issues",
  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:59:19 UTC",
  "RemoteUrl": "https://github.com/bioc/BiocFHIR",
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    "Date": "2026-05-18 10:18:05 UTC",
    "User": "root"
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  "Author": "Vincent Carey [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-4046-0063>)",
  "Maintainer": "Vincent Carey <stvjc@channing.harvard.edu>",
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    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
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    "description": "Professor of Medicine, Channing Division of Network Medicine, Mass General Brigham, Harvard Medical School.",
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    "datarepresentation",
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    "extra/citation.cff",
    "extra/citation.html",
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    "extra/contents.json",
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    "build_proccond_igraph",
    "display_proccond_igraph",
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    "FHIR_retention_schemas",
    "FHIRtabs",
    "freq_app",
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    "make_test_json_set",
    "process_AllergyIntolerance",
    "process_CarePlan",
    "process_Claim",
    "process_Condition",
    "process_Encounter",
    "process_fhir_bundle",
    "process_Immunization",
    "process_MedicationRequest",
    "process_Observation",
    "process_Patient",
    "process_Procedure",
    "stack_fhir",
    "summarise_bundles",
    "summary_selections"
  ],
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      "name": "allin",
      "title": "collection of synthea FHIR documents ingested",
      "object": "allin",
      "file": "allin.rda",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
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    {
      "page": "add_procedures",
      "title": "update a fhir graph on patients and conditions with procedures",
      "topics": [
        "add_procedures"
      ]
    },
    {
      "page": "allin",
      "title": "collection of synthea FHIR documents ingested",
      "topics": [
        "allin"
      ]
    },
    {
      "page": "available_retention_schemas",
      "title": "list available 'retention schemas'",
      "topics": [
        "available_retention_schemas"
      ]
    },
    {
      "page": "build_proccond_igraph",
      "title": "build graph with patients, conditions and procedures",
      "topics": [
        "build_proccond_igraph"
      ]
    },
    {
      "page": "display_proccond_igraph",
      "title": "make network visualization",
      "topics": [
        "display_proccond_igraph"
      ]
    },
    {
      "page": "FHIR_ResourceTypes",
      "title": "FHIR Resource types recognized in package",
      "topics": [
        "FHIR_ResourceTypes"
      ]
    },
    {
      "page": "FHIR_retention_schemas",
      "title": "collection of FHIR Resource components to be retained",
      "topics": [
        "FHIR_retention_schemas"
      ]
    },
    {
      "page": "FHIRtabs",
      "title": "table app",
      "topics": [
        "FHIRtabs"
      ]
    },
    {
      "page": "freq_app",
      "title": "produce interactive tables with FHIR resources from a list of ingested bundles",
      "topics": [
        "freq_app"
      ]
    },
    {
      "page": "getHumanName",
      "title": "get human name from a BiocFHIR.Patient instance",
      "topics": [
        "getHumanName"
      ]
    },
    {
      "page": "make_condition_graph",
      "title": "create graph with links from patients to conditions",
      "topics": [
        "make_condition_graph"
      ]
    },
    {
      "page": "make_test_json_set",
      "title": "produce 50 json FHIR files in a folder",
      "topics": [
        "make_test_json_set"
      ]
    },
    {
      "page": "print.BiocFHIR.FHIRgraph",
      "title": "show a combination of graph and patient attributes",
      "topics": [
        "print.BiocFHIR.FHIRgraph"
      ]
    },
    {
      "page": "print.FHIR.bundle",
      "title": "print method",
      "topics": [
        "print.FHIR.bundle"
      ]
    },
    {
      "page": "process_AllergyIntolerance",
      "title": "extract information from retained fields in AllergyIntolerance component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_AllergyIntolerance"
      ]
    },
    {
      "page": "process_CarePlan",
      "title": "extract information from retained fields in CarePlan component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_CarePlan"
      ]
    },
    {
      "page": "process_Claim",
      "title": "extract information from retained fields in Claim component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Claim"
      ]
    },
    {
      "page": "process_Condition",
      "title": "extract information from retained fields in Condition component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Condition"
      ]
    },
    {
      "page": "process_Encounter",
      "title": "extract information from retained fields in Encounter component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Encounter"
      ]
    },
    {
      "page": "process_fhir_bundle",
      "title": "process a bundle of FHIR R4 JSON",
      "topics": [
        "process_fhir_bundle"
      ]
    },
    {
      "page": "process_Immunization",
      "title": "extract information from retained fields in Immunization component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Immunization"
      ]
    },
    {
      "page": "process_MedicationRequest",
      "title": "extract information from retained fields in MedicationRequest component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_MedicationRequest"
      ]
    },
    {
      "page": "process_Observation",
      "title": "extract information from retained fields in Observation component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Observation"
      ]
    },
    {
      "page": "process_Patient",
      "title": "flatten information in Patient component of a bundle to a one-line data.frame",
      "topics": [
        "process_Patient"
      ]
    },
    {
      "page": "process_Procedure",
      "title": "extract information from retained fields in Procedure component of FHIR Bundle, produce simple data.frame",
      "topics": [
        "process_Procedure"
      ]
    },
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      ]
    },
    {
      "page": "summarise_bundles",
      "title": "produce tables summarizing FHIR data",
      "topics": [
        "summarise_bundles"
      ]
    },
    {
      "page": "summary_selections",
      "title": "vector of fields to be selected for summarization",
      "topics": [
        "summary_selections"
      ]
    }
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      "title": "BiocFHIR -- infrastructure for parsing and analyzing FHIR data",
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      "engine": "knitr::rmarkdown",
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      "created": "2022-10-02 20:14:28",
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      "author": "Vincent J. Carey, stvjc at channing.harvard.edu",
      "engine": "knitr::rmarkdown",
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