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Bioconductor - BiocFHIR (development version)

BiocFHIR

This is the development version of BiocFHIR; for the stable release version, see BiocFHIR.

Illustration of FHIR ingestion and transformation using R

Bioconductor version: Development (3.22)

FHIR R4 bundles in JSON format are derived from https://synthea.mitre.org/downloads. Transformation inspired by a kaggle notebook published by Dr Alexander Scarlat, https://www.kaggle.com/code/drscarlat/fhir-starter-parse-healthcare-bundles-into-tables. This is a very limited illustration of some basic parsing and reorganization processes. Additional tooling will be required to move beyond the Synthea data illustrations.

Author: Vincent Carey [aut, cre] ORCID: 0000-0003-4046-0063

Maintainer: Vincent Carey <stvjc at channing.harvard.edu>

Citation (from within R, enter citation("BiocFHIR")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BiocFHIR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("BiocFHIR")
Details biocViews DataImport, DataRepresentation, Infrastructure, Software Version 1.11.0 In Bioconductor since BioC 3.16 (R-4.2) (2.5 years) License Artistic-2.0 Depends R (>= 4.2) Imports DT, shiny, jsonlite, graph, tidyr, visNetwork, dplyr, utils, methods, BiocBaseUtils System Requirements URL https://github.com/vjcitn/BiocFHIR Bug Reports https://github.com/vjcitn/BiocFHIR/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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