https://github.com/busraoguzoglu/prot-sequence-gnn
Graph Neural Networks for Protein Interaction Prediction
https://github.com/busraoguzoglu/prot-sequence-gnn
gnn protein-protein-interaction protein-sequences
Last synced: 8 months ago
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Graph Neural Networks for Protein Interaction Prediction
- Host: GitHub
- URL: https://github.com/busraoguzoglu/prot-sequence-gnn
- Owner: busraoguzoglu
- Created: 2022-11-05T09:51:06.000Z (almost 3 years ago)
- Default Branch: main
- Last Pushed: 2023-01-05T17:54:46.000Z (almost 3 years ago)
- Last Synced: 2025-01-05T19:42:57.760Z (9 months ago)
- Topics: gnn, protein-protein-interaction, protein-sequences
- Language: Python
- Homepage:
- Size: 16.8 MB
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
Awesome Lists containing this project
README
# GCN
link_pred_cora.py -> Example code in CORA dataset
link_pred.py -> Word-protein link as features. 1-0 encoding. Protein-protein link (Files in setup 1)
metapath2vec_clean -> metapath embeddings + 3 layer sequential classifier (Files in setup 4)
metapath2vec_clean td-idf version -> Files in setup 4_2
*metapath2vec_clean tf-idf + PMI version -> Files in setup 5 (stellar_gcn environment)
*pytorch_metapath -> prot-prot pytorch metapath + classifier 3 layer tensorflow (metapath environment, tf environment for classifier)