GeneCircuitry: TRN analysis from single-cell data (Scanpy, CellOracle, Hotspot)
A modular, checkpoint-enabled pipeline for TRN analysis from
single-cell RNA-seq data. Integrates Scanpy for preprocessing and
clustering, CellOracle for GRN inference, and Hotspot for embedding-aware
gene modules identification. Provides an HTML/PDF reporting layer
and a standalone genecircuitry CLI entry point.
