Fast, memory-efficient tools for studying gene regulation in single-cell data, built with Rust and Python.
Installation and automation toolkit for pySCENIC (grn/ctx) and pycistarget pipelines
Modular single-cell transcriptomics pipelines for Alzheimer’s disease, integrating R and Python workflows.
scRNA-seq analysis of tissue-resident memory T cells (TRM): Scanpy pipeline, pySCENIC GRN inference, basin stability modeling, and Cell Systems manuscript
Single-Cell Atlas Builder is a modular platform for processing, integrating, and visualizing single-cell RNA-seq datasets. It combines FastAPI, Scanpy, and CellTypist for efficient analysis, with optional LLM-powered summaries for cluster and pathway interpretation.
Data-driven multi-gene control for precision cell-fate engineering.
Pipelines for single-cell data in Nextflow DSL2. Updated to run SCENIC single- and multi-run workflows with feather v2 cisTarget v10 resources
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