A tool for mapping various text input to EDAM ontology concepts. It is designed to assist not replace a curator.

Currently, it is mainly geared towards annotating bio.tools content, hence the structure of input parts: tool name, keywords, description, publication IDs, link and documentation URLs. The content of publications and web pages will be downloaded through the use of the PubFetcher library. However, EDAMmap could also be used on arbitrary text inputs of very different lengths, with results influenceable by a multitude of changeable parameters.

EDAMmap can be run on the command line, but also as a web server. For the latter case, a public web application and API are available.

Documentation for EDAMmap can be found at https://edammap.readthedocs.io/.

Should you need help installing or using EDAMmap, please get in touch with Erik Jaaniso (the lead developer) directly via the tracker.