pubmed_retrieval

This implementation of the Entrez module takes a desired time frame and retreives PMID, title, abstract, and publication date (month and year) of all records archived by PubMed over that period.

Description

The implementation contains 3 functions:

1. The 'search' function retrieves PMIDs of records published during user's specified time frame (e.g.: the last 10 days)
2. The 'fetch_details' function retireves information (PMID, title, abstract, and publication date- month and year) for each PMID. It is possible to include search terms for more specific retrieval. In this implementation, the function only writes to file jounral articles in English with abstract text.

Run the Docker

Parameters:

reldate = limit your search to items with a publication date in the last n days retmax = maximum number of records allowed datatype = determines the date field you wish to limit

Built With

• Bio.Entrez
• Docker - Docker Containers

Authors

• **Austin Mckitrick - Javier Corvi **

License

This project is licensed under the GNU GENERAL PUBLIC LICENSE Version 3 - see the LICENSE file for details

Funding

This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 751277