Fig. 3.

Linking haplotype blocks with Hi-C reads. a Average number of Hi-C links between two segments of 0.5Mb, 1Mb, and 2Mb at different genomic distance calculated using the RPE-1 Hi-C data. b A schematic illustration of haplotype block concatenation using Hi-C reads. The shown example assumes that at least two links are required to join two blocks. (i) Local haplotype blocks (open rectangles) and Hi-C links (curves); (ii) and (iii) merging of adjacent haplotype blocks based on Hi-C linkage; and (iv) joint inference of the haplotype phase of all blocks using all Hi-C links