Engreitz Lab

ChromBPNet pipeline for iPSC-to-EC differentiation: bias model training, contribution scores, motif discovery, and unified hit calling across 5 timepoints

Select QC thresholds based on per-cell quality reports and QC filter + merge ATAC fragment files & RNA count matrices

Computaional pipeline for single-cell perturbation data

Pipeline to run scE2G

Workflow for analyzing DC TAP datasets

Utilities and reusable scripts for CRISPR screen analysis, preprocessing, and downstream workflows.

Reproducible analysis code for endothelial differentiation 10x Multiome CMO experiments across timepoints

Analysis for Swap-seq experiments