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scenic-regulons

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Infer transcription factor regulons from single-cell RNA-seq with pySCENIC by combining GRNBoost2 co-expression, cisTarget motif-enrichment pruning, and AUCell per-cell activity scoring. Covers the motif-pruning-as-directionality principle, regulon specificity scoring, run-to-run stability, and database/species matching. Use when identifying TF regulons, scoring TF activity per cell, finding master regulators of cell identity, or comparing regulon activity across conditions. For enhancer-driven multiomic GRNs see multiomics-grn; for bulk inference and VIPER protein-activity see grn-inference.

When to use

• identifying TF regulons
• scoring TF activity per cell
• finding master regulators of cell identity
• comparing regulon activity across conditions
• inferring TF-target co-expression
• pruning to direct targets by cis-regulatory motif enrichment
• scoring per-cell regulon activity

When not to use

• enhancer-driven multiomic GRNs
• bulk inference
• VIPER protein-activity

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