Reading the effects of change
A data analysis platform for deep mutational scanning, connecting sequencing reads, visualization, and model evaluation.
The question
What can many individual mutations tell us about a biological sequence?
Deep mutational scanning measures the effects of many sequence changes in an experiment. My work focuses on making those measurements easier to analyze and use in computational models.
My contribution
- Designed an upstream pipeline using Python and Shell to analyze NGS data for Deep Mutational Scanning.
- Benchmarked existing AI models; replicated and fine-tuned models on PyTorch using self-generated datasets.
- Developed a data analysis platform for deep mutational scanning; integrated visualization tools.
Methods & tools
Python · Shell · PyTorch · NGS