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bio-ontology-research-group / deepgo

Function prediction using a deep ontology-aware classifier
http://deepgo.bio2vec.net
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Something about training the model #6

Closed wocnb closed 5 years ago

wocnb commented 6 years ago

Good day, I was trying to training deepgo by myself, but there are some files that's can't download in http://deepgo.bio2vec.net/data/ , like mouse-sequence.pkl and some others. I wondered where should I find these files. Thank you.

coolmaksat commented 6 years ago

Hi, We only published trained models and data required to run them. Most of the .pkl files were generated during training from swissprot sequences and annotations downloaded from uniprot.org. Have a look at get_data.py get_functions.py and cafa.py

wocnb commented 6 years ago

That's helps a lot, thank you very much

lucamasera commented 6 years ago

Could you maybe share an example folder and a script for retraining your model? It would be extremely useful. Thank you

coolmaksat commented 5 years ago

The script for retraining the model is nn_hierarchical_network.py. The training/testing data can be found in data file (see README)