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krishnanlab
A Python toolkit for setting up benchmarking dataset using biomedical networks
Use dataset constructor Network - STRING - HumanBase - BioGRID Labeled data - GOBP - DisGeNet Total of 6 datasets
Some common methods - ``idmap`` - ``size`` - ``isempty`` - ``__getitem__`` - ... Applies to - graph - feature - labelset collection - model trainer
- [ ] Rename `test/` to `tests/` - [ ] Migrate to `pytest` from `unittest` - [ ] Move `common.py` to `conftest.py` - [ ] One test script per module,...
Network stats - Number of nodes - Number of edges Label stats - Number of label sets - Min, max, avg, std of sizes - Avg, std of Jaccard/Overlap
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A Python toolkit for setting up benchmarking dataset using biomedical networks