StanfordBDHG/LLMonFHIR

Patient FHIR Bundles

Closed this issue · 2 comments

baptvit commented

Problem

Hello everyone, I’m working on an academic project that utilizes GraphRAG to enhance health records chat functionality using the FHIR standard. I’m in the process of reviewing literature to gather relevant references for my project. It would be immensely helpful if you could share the FHIR bundles that were used in your research papers. This would allow me to leverage the same data and apply evaluation frameworks more effectively.

Solution

A potential solution would be to provide access to the FHIR bundles within the LLMonFHIR/Resources/Mock Patients/ directory. Currently, the available mock patient data file references Synthea-generated data:

This source file is part of the Stanford LLM on FHIR project
SPDX-FileCopyrightText: 2023 Stanford University
SPDX-License-Identifier: MIT

The mock data is generated using Synthea:
Jason Walonoski, Mark Kramer, Joseph Nichols, Andre Quina, et al., "Synthea: An approach, method, and software mechanism for generating synthetic patients and the synthetic electronic health care record," Journal of the American Medical Informatics Association, March 2018. DOI: https://doi.org/10.1093/jamia/ocx079

It would be beneficial if you could directly provide the FHIR Bundles for these mock patients.

Additional context

No response

Code of Conduct

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PSchmiedmayer commented

@baptvit Thank you for checking out LLMonFHIR.

The license files are leftovers that should be removed. They are misleading and seemed to have given you the impression that the patient files are bundled with the app. We moved the patient selection and mock patients FHIR bundles to SpeziFHIR. They are part of the SpeziFHIRMockPatients target. All the mock patients are a subset of the Synthea dataset.

You can see that we reuse the models form the package + use the UI from SpeziFHIRMockPatients (FHIRBundleSelector) in the settings view of the application to enable the resource selection: https://github.com/StanfordBDHG/LLMonFHIR/blob/main/LLMonFHIR/Settings/ResourceSelection.swift#L86

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baptvit commented

@PSchmiedmayer thanks. Closing the issue.

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