Table 1.
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) |