casbert-experiment

This repository contains the experiment for CASBERT project. Experiments were carried out on the PMR and BioModels repositories. For BioModels we used annotations by the TR&D2 Group. The experiment is divided into three parts, data preparation, classification, and performance measurement.

To repeat this experiment (The data preparation and classification parts can be skipped if you are only interested in the experiment):

1. Clone this repository
2. It is recommended to create a virtual environment to run experiments
3. Run jupyter notebook/lab for the cloned repo
4. Make sure that the required packages are installed and files are downloaded (run Requirements)
5. Data preparation part (Can be skipped):
   • Data Preparation: PMR
   • Data Preparation: BioModels
6. Classification part (Can be skipped):
   • Classification: PMR
   • Classification: BioModels
7. Experiment part (performance measurement):
   • Experiment: PMR
   • Experiment: BioModels