https://github.com/rohit43/gptmedcode
https://github.com/rohit43/gptmedcode
Last synced: 2 months ago
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- Host: GitHub
- URL: https://github.com/rohit43/gptmedcode
- Owner: rohit43
- Created: 2022-12-27T02:46:51.000Z (over 2 years ago)
- Default Branch: main
- Last Pushed: 2022-12-28T00:17:47.000Z (over 2 years ago)
- Last Synced: 2024-11-09T19:39:50.687Z (8 months ago)
- Language: R
- Size: 31.3 KB
- Stars: 6
- Watchers: 1
- Forks: 1
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
Awesome Lists containing this project
- awesome-ChatGPT-repositories - GptMedCode - @zakkohane @arjunmanrai from #ehr analytic perspective, was wondering if obtaining codes could be automated using #chatgpt backend. but the quality of codes returned was not that reliable. quality ~ icd > loinc > snomed (Others)
README
## Get Codes
This package may be utilized to obtain ICD-9-CM, ICD-10-CM, SNOMEDs, RxNorms, LOINC codes for given disease, drugs or laboratory terms. The codes are obtained using pre-trained model ‘text-davinci-003’. Please make sure to manually review the codes before using them further. I personally always manually review the codes before using them irrespective of the source. Enjoy, and have fun!
## Set up and use
Setting and using this package is very simple. You will need an OpenAI API key (please see this https://beta.openai.com/). Please follow the following steps once you have the API key.
### Install the package
Use following to install the package.
```{r}
devtools:: install_github("rohit43/GptMedCode")
```
### Set up environment
Set up your R environment with the OpenAI key as follows
```{r}
usethis::edit_r_environ()
# This will open your .Renviron file. Add following in that file and save.
OPENAI_API_KEY="Your OpenAI API Key "
```
### All Set
Now you are ready to rock and roll. Try the following script to get started. This will bring up a dialogue box. Enter the disease of your choice (Diabetes, a default option) and hit return. In few seconds, the mDat will be populated with ICD-10-CM codes for Diabetes.
```{r}
mDat <- GptMedCode::icd10Prompt()
head(mDat)
```
#### Get ICD-9-CM Codes
For diabetes (or the disease of your choice).
```{r}
mDat <- GptMedCode::icd9Prompt()
head(mDat)
```
#### Get SNOMED Codes
For diabetes (or the disease of your choice).
```{r}
mDat <- GptMedCode::snomedPrompt()
head(mDat)
```
#### Get RxNorms Codes
For Metformin (or the medication of your choice).
```{r}
mDat <- GptMedCode::rxNormPrompt()
head(mDat)
```
#### Get LOINC Codes
For Hemoglobin A1c (or the laboratory measurement of your choice).
```{r}
mDat <- GptMedCode::loincPrompt()
head(mDat)
```
## Please be careful
The code list returned by this package are from the pre-trained language model (ChatGPT). Please make sure to manually review the codes in case you want to utilize the codes further.
## New additions
Thanks to Daniel Donoho, MD (Twitter @ddonoho) for suggesting (https://twitter.com/ddonoho/status/1607878698870382594?s=20&t=WVQFX1s6T-QUVH5-lUks6g) to add codes from NLM CTSS (https://clinicaltables.nlm.nih.gov/). One can use the function ICD10NlmCTSS.R to obtain the ICD-10-CM codes for a given disease prompt (default Diabetes) from the NLM CTTS to help compare the codes returned by the ChatGPT prompt.
## Comments
Please reach out for discussions, comments, and suggestions. Enjoy and be safe.