Research Assistant
Statistical Physics Of Evolving Systems Lab At The University Of Washington
Seattle, Washington, United States
- Project 1: Collaborated with physicists and computer scientists to create HERMES. I curated protein structure datasets and wrote sections of the pre-processing pipeline. HERMES: Holographic Equivariant neuRal network.
- Project 2: Co-built (with one colleague), trained, and tested a transformer-based deep learning model in Python (using PyTorch) to map protein structure to a representative low dimensional embedding.
- Project 3: Helped develop convolutional neural network machine learning model in Python (using PyTorch) to learn protein side chain conformations from the protein backbone. Created an objective function to properly.
- During these projects, I realized our Conda environments were consuming our allotted inodes on the UW computational cluster. I took initiative to improve our development process and created an Apptainer (similar to.
- I used Git, Bash Scripting, Shell Utilities, and the Slurm Workload Manager on the Linux computational cluster.