/Prot-Sequence-GNN

Graph Neural Networks for Protein Interaction Prediction

Primary LanguagePython

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)