Table 2.
Number of differentially expressed genes detected by ScatLay with different cutoff criteria and their percentage coverage of DESeq2 and NOISeq DE genes.
| Number of genes | DESeq2 Coverage | NOISeq Coverage | |
|---|---|---|---|
| E. coli | |||
| ScatLay | 1194 | 100% | 100% |
| ScatLay with p value cutoff | 815 | 100% | 94.50% |
| ScatLay with p value and expression fold cutoff | 563 | 100% | 94.00% |
| NOISeq with p value and expression fold cutoff | 597 | 100% | – |
| DESeq2 with p value and expression fold cutoff | 261 | – | 43.70% |
| Yeast | |||
| ScatLay | 2061 | 100% | 90.60% |
| ScatLay with p value cutoff | 1744 | 99.80% | 88.90% |
| ScatLay with p value and expression fold cutoff | 1353 | 99.80% | 88.50% |
| NOISeq with p value and expression fold cutoff | 1526 | 100% | – |
| DESeq2 with p value and expression fold cutoff | 494 | – | 32.30% |
| Mouse | |||
| ScatLay | 2392 | 95.50% | 82.30% |
| ScatLay with p value cutoff | 2091 | 95% | 74.40% |
| ScatLay with p value and expression fold cutoff | 1382 | 95% | 73.70% |
| NOISeq with p value and expression fold cutoff | 1865 | 99.10% | – |
| DESeq2 with p value and expression fold cutoff | 553 | – | 29.40% |