Learn how to analyze Hi-C chromosome conformation capture data from raw sequencing reads to 3D genome organization! This beginner-friendly tutorial walks you through the complete Juicer pipeline for mapping three-dimensional chromatin structure. What you'll learn: ✅ Hi-C technology fundamentals and biological insights ✅ Setting up Juicer and required dependencies ✅ Processing paired-end Hi-C sequencing data ✅ Detecting TADs, chromatin loops, and A/B compartments ✅ Visualizing results with Juicebox ✅ Best practices and troubleshooting tips 📖 Full written tutorial with code: