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bio-hi-c-analysis-compartment-analysis

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Detect A/B compartments from Hi-C data using cooltools and eigenvector decomposition. Identify active (A) and inactive (B) chromatin compartments from contact matrices. Use when identifying A/B compartments from Hi-C data.

When to use

• Identify A/B compartments from Hi-C data
• Decompose contact matrix via eigenvector analysis
• Classify chromatin into active (A) and inactive (B) compartments
• Compute compartment eigenvectors
• Use GC content for phasing
• Extract compartment calls
• Compute saddle plot
• Quantify compartmentalization strength

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