Using

Getting started

Download and install

Download this repository:

git clone [email protected]:timofeiryko/pretty-pubmed-parser.git

Then locate to the project directory:

cd pretty-pubmed-parser

You can install dependencies using poetry:

poetry install

Alternatively, you can use pip:

pip install -r requirements.txt

Run

You can run this API using UVicorn:

uvicorn main:app --reload

To try it out, you can use the built-in FastAPI docs at http://localhost:8000/docs.

You can search by some keyword or by journal, you can also liimit the number of retrived results or use pagination. Filtering by publication date is also possible. Example query:

curl -X 'GET' \
  'http://localhost:8000/journal/Nature?results_num=100&p=2&min_date=2020%2F01%2F01&max_date=2022%2F01%2F01' \
  -H 'accept: application/json'

Customization

You can change the parameters of the API like ENTREZ_EMAIL in the configs.py file.