arbasher / strasplit

Stratification of multi-label datasets

Stratification of multi-label datasets

Basic Description

This repo contains an implementation of straSplit comprising 8 algorithms to split multi-label data into two sets: training and test.

Dependencies

The codebase is tested to work under Python 3.8. To install the necessary requirements, run the following commands:

pip install -r requirements.txt

Basically, straSplit requires following packages:

• Anaconda
• NumPy (>= 1.18)
• scikit-learn (>= 0.24)
• pandas (>= 1.2)
• NetworkX (== 2.5)
• scipy (>=1.6)
• altair (==4.1)

Installation and Basic Usage

Run the following commands to clone the repository to an appropriate location:

git clone https://github.com/arbasher/straSplit

Please follow this notebook for tutorials.

Citing

If you find straSplit useful in your research, please consider citing the following papers:

• M. A. Basher, Abdur Rahman, McLaughlin, Ryan J., and Hallam, Steven J.. "Metabolic pathway inference using multi-label classification with rich pathway features." , PLoS Comput Biol (2020).
• M. A. Basher, Abdur Rahman and Hallam, Steven J.. "Multi-label pathway prediction based on active dataset subsampling." , bioRxiv (2020).
• M. A. Basher, Abdur Rahman. "Machine learning methods for metabolic pathway inference from genomic sequence information." , Doctoral dissertation, University of British Columbia, (2020).
• Moyano, J.M., Gibaja, E.L. and Ventura, S.. "MLDA: A tool for analyzing multi-label datasets." , Knowledge-Based Systems (2017).
• Merrillees, M. and Du, L.. "Stratified sampling for extreme multi-label data." , arXiv preprint (2021).
• Sechidis, K., Tsoumakas, G. and Vlahavas, I.. "On the stratification of multi-label data." , In Joint European Conference on Machine Learning and Knowledge Discovery in Databases (pp. 145-158). Springer, Berlin, Heidelberg (2011).

Contact

For any inquiries, please contact: [email protected]