grn-tools

What problem does it solve?

This Skill automates the inference of gene regulatory networks (GRNs) from gene expression data, helping researchers understand complex biological interactions.

Core Features & Use Cases

• GRN Inference: Build GRNs using algorithms like GRNBoost2 and GENIE3.
• TF-Target Link Identification: Identify potential transcription factor (TF) to target gene relationships.
• Network Filtering: Restrict inference to a curated TF list and filter edges by importance.
• Use Case: Analyze RNA-seq data to discover which transcription factors regulate a specific set of genes involved in a disease pathway.

Quick Start

Run the GRN inference script using the provided expression matrix and save the network to a TSV file.