Table 2 Summary of genomic visualization tools
From: CoolBox: a flexible toolkit for visual analysis of genomics data
Tools | Programming language | API plot | CLI plot | Online access |
|---|---|---|---|---|
CoolBox | Python | \(\checkmark\) | \(\checkmark\) | \(\checkmark\) |
pyGenomeTracks | Python | Â | \(\checkmark\) | Â |
gcMapExplorer | Python | \(\checkmark\) | Â | Â |
HiCPlotter | Python | Â | \(\checkmark\) | Â |
HiGlass | Python, HTML, CSS, JS | \(\checkmark\) | Â | \(\checkmark\) |
YueLab Browser | HTML, CSS, JS | Â | Â | \(\checkmark\) |
WashU Browser | HTML, CSS, JS | Â | Â | \(\checkmark\) |
TADkit | HTML, CSS, JS | Â | Â | \(\checkmark\) |
JuiceBox.js | HTML, CSS, JS | Â | Â | \(\checkmark\) |
JuiceBox | Java | Â | Â | Â |
GUI | Input | Installation | Customization | |
|---|---|---|---|---|
Web and Jupyter | Raw data | Bioconda or PyPI | Python knowledge, very easy | |
| Â | Raw data | PyPI | Python knowledge, easy | |
Local | Preprocessed data | PyPI | Python knowledge, easy | |
| Â | Preprocessed data | Manually install | ||
Web and Jupyter | Preprocessed data, via network | Docker | Web knowledge | |
Web | Via network | Â | Â | |
Web | Via network | Â | Â | |
Web | Preprocessed data, via network | Manually install | Â | |
Web | Via network | Â | Â | |
Local | Raw data | Download | Â | |