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bio-hi-c-analysis-matrix-operations

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Balance, normalize, and transform Hi-C contact matrices using cooler and cooltools. Apply iterative correction (ICE), compute expected values, and generate observed/expected matrices. Use when normalizing or transforming Hi-C matrices.

When to use

• Normalize Hi-C contact matrix
• Apply iterative correction (ICE)
• Compute expected values
• Generate observed/expected matrices
• Balance cooler files
• Log transform O/E matrix
• Distance decay normalization
• Aggregate multiple replicates

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