Table 1 The performance of MEGAN, SOrt-ITEMS and SeMeta on the simulated datasets at different taxonomic levels - The scenario of known species
From: A novel semi-supervised algorithm for the taxonomic assignment of metagenomic reads
Method | Â | Species | Genus | Family | Order | Class |
|---|---|---|---|---|---|---|
| Â | Â | level | level | level | level | level |
Dataset ds1 | Â | Â | Â | Â | Â | Â |
MEGAN | S e n. A | 56.9 % | 69.13 % | 69.47 % | 71.34 % | 71.79 % |
| Â | P r e. A | 67.83 % | 82.42 % | 82.82 % | 85.06 % | 85.59 % |
SOrt-ITEMS | S e n. A | N/A | 37.83 % | 38.91 % | 39.87 % | 48.84 % |
| Â | P r e. A | N/A | 45.83 % | 47.14 % | 48.31 % | 59.17 % |
SeMeta | S e n. A | 67.02 % | 72.96 % | 72.99 % | 73.27 % | 75.19 % |
| Â | P r e. A | 67.87 % | 73.89 % | 73.92 % | 74.21 % | 76.15 % |
Dataset ds2 | Â | Â | Â | Â | Â | Â |
MEGAN | S e n. A | 46.78 % | 74.94 % | 75.71 % | 75.85 % | 77.42 % |
| Â | P r e. A | 58.29 % | 93.36 % | 94.33 % | 94.49 % | 96.46 % |
SOrt-ITEMS | S e n. A | N/A | 58.51 % | 60.7 % | 60.8 % | 71.91 % |
| Â | P r e. A | N/A | 74.76 % | 77.56 % | 77.69 % | 91.89 % |
SeMeta | S e n. A | 76.24 % | 86.01 % | 86.09 % | 86.11 % | 90.5 % |
| Â | P r e. A | 77.1 % | 86.98 % | 87.07 % | 87.09 % | 91.52 % |
Dataset ds3 | Â | Â | Â | Â | Â | Â |
MEGAN | S e n. A | 36.82 % | 49.55 % | 57.54 % | 58.1 % | 61.68 % |
| Â | P r e. A | 42.91 % | 57.76 % | 67.07 % | 67.73 % | 71.89 % |
SOrt-ITEMS | S e n. A | N/A | 34.88 % | 50.12 % | 55.96 % | 63.2 % |
| Â | P r e. A | N/A | 42.48 % | 61.04 % | 68.15 % | 76.97 % |
SeMeta | S e n. A | 61.03 % | 68.33 % | 76.57 % | 77.07 % | 81.14 % |
| Â | P r e. A | 70.45 % | 78.88 % | 88.39 % | 88.97 % | 93.67 % |