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GFF to Wikidata importing Tool

License DOI

Description

This tool can be used to import genomic annotations in GFF files to Wikidata. It automates the importing process. It is a part of InteractOA project.

Prerequisites

  1. Install dependencies:
    • pip install wikidataintegrator pywikibot bcbio-gff pandas
  2. Clone this repo
  3. Modify user-config.py
    • Go to line 43
    • Add your Wikidata's username

Usage

  • The usage is simple, only run 'run.py', then it will ask for the GFF path and the qualifier ID of the strain you want to link the annotations to.
  • Afterwards, it will ask for your Wikidata username and password