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Analytical tools for Hi-C analysis
| Software | Version | Reference |
|---|---|---|
| bwa | 0.7.17-r1188 | (35) |
| pairtools | v0.3.0 | (36) |
| cooltools | v0.4.0 | (36) |
| TopDom | v0.10.1 | (37) |
| HiCExplorer | v3.7 | (40) |
| neoloopfinder | 0.2.4.post2 | (39) |
| R | v4.0.0 | https://www.r-project.org/ |
| juicebox | 2.2.2 | (41) |
| diffHic | v1.22.0 | (38) |
| hicbreakfinder | NA | https://github.com/dixonlab/hic_breakfinder |
| ENCODE ChIP-seq | v2.1.2 | (42) |
| deeptools | v3.3.1 | (43) |
| HOMER | v4.11.1 | (34) |
| HiGlass | v1.11.7 | (44) |
