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README.md

README.md

 
 

data_loader.py

data_loader.py

 
 

get_embeddings.py

get_embeddings.py

 
 

link_db.py

link_db.py

 
 

main.py

main.py

 
 

neural_model.py

neural_model.py

 
 

options_parser.py

options_parser.py

 
 

plot_per_cell.py

plot_per_cell.py

 
 

test.py

test.py

 
 

trained_model_best.pth

trained_model_best.pth

 
 

trainer.py

trainer.py

 
 

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covid19_autoencoding

Code to train autoencoders on gene expression vectors from l1000. Helper functions to visualize embeddings via umap.

Dependencies

python 3.5.5

pytorch 0.4.1 (CUDA enabled)

cmapPy 4.0.1

umap-learn 0.3.2

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Code to train autoencoders on gene expression vectors from l1000. Helper functions to visualize embeddings via umap.

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