Stream: python
Topic: FHIR 101 Jupyter notebook
Ward Weistra (Feb 04 2020 at 04:21):
Just cross-posting that @Natasha Singh made a Jupyter Notebook for FHIR 101: https://chat.fhir.org/#narrow/stream/215610-shorthand/topic/FHIR.20101.20Jupyter.20Notebook
@Natasha Singh You seem to be using a client from within your project: from kf_model_fhir.client import FhirApiClient. Is that a copy of the client-py with your own models?
Natasha Singh (Feb 04 2020 at 04:23):
Just cross-posting that Natasha Singh made a Jupyter Notebook for FHIR 101: https://chat.fhir.org/#narrow/stream/215610-shorthand/topic/FHIR.20101.20Jupyter.20Notebook
Natasha Singh You seem to be using a client from within your project:
from kf_model_fhir.client import FhirApiClient. Is that a copy of the client-py with your own models?
No - that client is a very simple Requests based Python class that I wrote. I want to eventually replace it with something that is more standard and/or better supported.
Ward Weistra (Feb 04 2020 at 04:30):
:thumbs_up: Your best options would be:
- client-py/fhirclient: can be used with generated Python data classes with fhir-parser for structural validation when creating FHIR. Maintained mainly by @Harold Solbrig.
- fhir-py/fhirpy: works with dictionaries instead, so no structural validation, but does nice querying with asyncio. Maintained by @Ilya Beda.
Ilya Beda (Feb 04 2020 at 19:47):
Hi @Natasha Singh
It is a nice job!
You may be interested in jupyter based courses for developers we made https://github.com/Aidbox/jupyter-course/
We are using synthea data to populate the server with the initial dataset it allows us to demonstrate sophisticated FHIR search queries.
Natasha Singh (Feb 04 2020 at 20:29):
Thanks @Ilya Beda ! I took a quick look at your client already. It looks good and I think we will want to switch to it. Thanks for the notebook I will also check that out. Maybe I can point to your notebook from mine for people who want to take a deeper dive into the search API
Ilya Beda (Feb 05 2020 at 03:02):
:+1:
Natasha Singh (Feb 06 2020 at 06:03):
Hey guys,
I've moved the FHIR 101 Guide to its own repository: https://github.com/fhir-sci/fhir-101 and I've deployed it with Binder, so it's available online here: https://mybinder.org/v2/gh/fhir-sci/fhir-101/master?filepath=FHIR%20101%20-%20Practical%20Guide.ipynb
Feedback is very welcome!
Cheers!
Natasha
Eric Haas (Feb 06 2020 at 06:30):
I am assuming that your tutorial exercises are pedagogical only since they reproduce an extension and search that are already present in US Core?
Adam Culbertson (Feb 18 2020 at 20:26):
Natasha Singh said:
Hey guys,
I've moved the FHIR 101 Guide to its own repository: https://github.com/fhir-sci/fhir-101 and I've deployed it with Binder, so it's available online here: https://mybinder.org/v2/gh/fhir-sci/fhir-101/master?filepath=FHIR%20101%20-%20Practical%20Guide.ipynb
Feedback is very welcome!
Cheers!
Natasha
Thanks this is a great resource. I may teach a course on health informatics and this would be great to include.
Last updated: Apr 12 2022 at 19:14 UTC
