Gene Embedding | Euler Submission & HPO

[FrederikeLuebeck]

Gene Embedding in Latent Embedding Model

• Use scGPT gene (token) embeddings for perturbation representations
• Optional with parameter embed_gene

Euler Submission Files & HPO

• Added some submission files for euler using hydra and slurm
• Added HPO with optuna, hydra and slurm

Misc

• Converted jupyter notebooks to .py files for better integration in github

ToDo's

• Find a clean way to store the user specific paths

Results

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