GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations

A python module to repair invalid JSON from LLMs

Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".

STORM movie analysis code

Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.

MERFISH decoding software

High-throughput Workflow for Processing and Analyzing RNA-Seq Data

R toolkit for single cell genomics

Scripts for next generation sequencing analyses