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Top bioinformatics tools ranked by usage across 2063 tools.
| Rank | Tool | Usage | Trend | ||
|---|---|---|---|---|---|
| 1441 | scde | Single-Cell | Single-Cell | 26.7 | +3% |
| 1742 | scDesign3 | QC & Preprocessing | QC & Preprocessing | 24.3 | +3% |
Data as of: Apr 12, 2026
| 700 | SCENIC | Single-Cell | Single-Cell | 35.74 | +8% |
| 1947 | Scfates | Single-Cell | Single-Cell | 21.84 | +3% |
| 578 | scFoundation | Machine Learning | Machine Learning | 35.8 | +8% |
| 897 | scGen | Single-Cell | Single-Cell | 29.4 | +3% |
| 1830 | scGNN | Machine Learning | Machine Learning | 22.68 | +3% |
| 579 | scGPT | Machine Learning | Machine Learning | 35.8 | +8% |
| 1743 | schmutzi | Genomics | Genomics | 24.3 | +3% |
| 1442 | scHPF | Single-Cell | Single-Cell | 26.7 | +3% |