TABLE 4.
Benchmarking results for the taxonomy assignment stepa
| Data set | Database | Elapsed time | Memory usage peak (GB) | Memory usage mean (GB) |
|---|---|---|---|---|
| Gut | Greengenes | 0:00:17 | 7.09 | 3.11 |
| RDP | 0:00:46 | 18.21 | 6.97 | |
| GSR | 0:01:08 | 18.55 | 5.11 | |
| ITGDB | 0:01:28 | 33.62 | 11.74 | |
| Greengenes2 | 0:01:31 | 49.46 | 16.72 | |
| GTDB | 0:01:44 | 37.47 | 13.46 | |
| SILVA | 0:02:17 | 48.93 | 16.36 | |
| Vagina | Greengenes | 0:00:09 | 5.64 | 2.55 |
| GSR | 0:00:29 | 14.85 | 4.33 | |
| RDP | 0:00:29 | 12.56 | 4.28 | |
| Greengenes2 | 0:00:53 | 42.86 | 9.2 | |
| ITGDB | 0:01:00 | 26.59 | 6.83 | |
| GTDB | 0:01:07 | 30.12 | 7.83 | |
| SILVA | 0:01:30 | 37.86 | 9.28 |
a
Gut and vaginal datasets were taxonomically profiled using previously trained classifiers of each reference database. MetaSquare classifier was also tested but no results were obtained due to a lack of computational resources (>187 GB RAM).