3D genomic bioinformatics tools
Integration software for Hi-C data processing
| Tools | Language | Mapping | Filtering | Binning | Normalization |
|---|---|---|---|---|---|
| HOMER (2010) | Java, R and Perl | × | √ | √ | √ |
| Hiclib (2012) | Python | √ | √ | √ | √ |
| HiCUP (2015) | R and Perl | √ | √ | × | × |
| HiCdat (2015) | R and C++ | √ | √ | √ | √ |
| HiC-Pro (2015) | Python | √ | √ | √ | √ |
| Juicer (2016) | Java | √ | √ | √ | √ |
| TADbit (2017) | Python | √ | √ | √ | √ |
The visualization applications
| Tools | Year | GUI |
|---|---|---|
| HiTC | 2012 | NO |
| Juicebox | 2016 | YES |
| HiCPlotter | 2015 | NO |
