arboreto

SUMMARY

What it does

Arboreto is a Python library for inferring gene regulatory networks (GRNs) from gene expression data. It provides scalable algorithms GRNBoost2 and GENIE3, and supports distributed computation via Dask for large-scale datasets. The skill includes guidance for basic GRN inference, algorithm selection, distributed computing, integration with pySCENIC, and reproducibility practices. It is designed for analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions.