Detailed experimental protocols for Droplet Hi-C and Paired Hi-C, including fixation, in situ Hi-C, and single-cell sequencing library construction, are described. Data processing and analysis methods for Droplet Hi-C data, such as demultiplexing, mapping, and extracting single-cell contacts, are outlined. The article also covers the analysis of chromatin interactions, compartments, domains, loops, and multi-way interactions, as well as the identification of structural variations (SVs) and extrachromosomal DNA (ecDNA) candidates. Ethical approval for specimen collection is noted.