Notebooks

This folder contains the following notebooks:

Tutorials

1. How to use BioKEEN

Application Scenarios

There are several tasks that can be completed with biological knowledge graph embeddings. This section links notebooks that show several of those scenarios.

Link Prediction

1. Case Scenario applied to the ComPath dataset.
2. Case Scenario applied to the ADEPTUS dataset.
3. Case Scenario applied to the HSDN dataset.
4. Case Scenario applied to union of the HSDN and ADEPTUS datasets.

Entity Disambiguation

This is the task of identifying when several nodes from different KGs that have been merged refer to the same entity. We haven't got a use case for this yet.

Link-Based Clustering

This is the task of clustering nodes based on their embeddings. We haven't got a use case for this yet.