CALDER contains three modules: (1) compute chromatin domains; (2) derive their hierarchical organization and obtain sub-compartments; (3) compute nested sub-domains within each compartment domain.
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+### Input data format
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CALDER works on contact matrices in a three-column `dump` format as generated by the juicer dump (or straw) command (https://github.com/aidenlab/juicer/wiki/Data-Extraction):
Yuanlong LIU