Projects & Software
Computational tools I've built for large-scale screening and single-cell microscopy. Public code is on GitHub.
Single-cell image-analysis pipeline for the split-mNG OFF→ON reporter that measures viral protease activity by live fluorescence microscopy. Three stages: nuclear segmentation (Cellpose) and single-cell tracking (Ultrack), mNG/BFP trajectory extraction and normalization, then sigmoid fitting, activation detection, and response-group classification. Built for HPC (SLURM) on multi-dimensional ZARR microscopy data.
Interactive Python web dashboard for exploring genome-scale CRISPRi screen results — hit ranking, gene-level statistics, and comparison across DNA viruses.
Optimized OME-ZARR conversion pipeline for high-content microscopy data, delivering a ~10× throughput improvement for downstream single-cell analysis.
sgRNA sublibrary design compatible with FACS-based, optical pooled screening and Perturb-seq workflows, plus inducible CRISPRi/a systems to model essential-gene perturbations.