Hey! This is currently a work in progress but instructions for setting up the repository are in the instructions.md(instructions.md) file.
Some other details for how I am running this:
- OS: Ubuntu 20.04.6 LTS
- NVCC: release 12.1, V12.1.105
- UTexas Aptamer Data
- AptaTrans Data
Approximate project layout
.
├── data/
│ └── Human, Flybrain, Melanoma, and Aptamer Data
├── lightning_modules/
│ └── PyTorch Lightning classes setup to use models
├── model/
│ └── Models and Architectures
├── selene/
│ └── Cloned Selene Repository
├── utils/
│ └── Utility functions for logging, dataset classes, visualizing, etc
├── workdir/
│ └── Previous Runs and Checkpoints...
├── train_classifier.py
├── train_dna.py
├── train_promo.py
├── trial.ipynb
└── run.py
More details for this will be out soon. Please feel free to reach out to me for any questions!
~ Maharshii Patel