Research themes
Examples of recent projects:
- 2022
- Neural networks for solving the chemical master equation: Approximate steady-state joint distribution solutions for a chemical master equation two-species model of the life cycle of RNA using neural networks. (preprint).
- Software tools for genomics: gget for efficient querying of genomic reference databases (preprint) and ffq for metadata retrieval from sequence databases (preprint).
- Foundations and performance of count normalization methods: A comprehensive benchmark of widely used methods on 526 datasets (preprint); analysis of biological and technical variance and an argument for model based normalization (preprint).
- Understanding RNA velocity: An in depth examination of the foundations of single-cell RNA velocity and an exposition of a Markovian framework that may ameliorate current problems (preprint).