This repository hosts a dynamic review of the use of graph databases in bioinformatics and systems biology. The list of graph databases was formed based on the DB-Engines initiative with the list of popular graph database management systems ranked.
The output folder contains CSV files with query results.
The code folder contains the Python code used for exporting publication data and integrating search results into a single table. The corresponding search queries are provided in the TXT files.
The annotated folder contains the CSV file with annotated publications.
Requirements: the Python code needs the 'requests' and 'pandas' modules to run. They can be installed using pip:
pip install requests
pip install pandas