Table 3 Performance of the LAST+MEGAN-LR pipeline
Step | Input | Output | Runtime | Memory |
|---|---|---|---|---|
PacBio reads on HMP mock community | ||||
Align | Reads file (1.5 GB) | MAF file | 119 min | 23 GB |
Convert | MAF file (49 GB) | DAA file | 29 min | 5 GB |
Classify | DAA file (4.2 GB) | Meganized DAA file (4.5 GB) | 6 min | 5 GB |
PacBio reads on Singer et al. mock community | ||||
Align | Reads file (56 MB) | MAF file | 10 min | 22 GB |
Convert | MAF file (8.9 GB) | DAA file | 5 min | 5 GB |
Classify | DAA file (197 MB) | Meganized DAA file (415 MB) | 1 min | 5 GB |
Nanopore reads on HMP mock community | ||||
Align | Reads file (191 MB) | MAF file | 10 min | 22 GB |
Convert | MAF file (6.1 GB) | DAA file | 3 min | 5 GB |
Classify | DAA file (553 MB) | Meganized DAA file (644 MB) | 1 min | 5 GB |
Anammox data | ||||
Align | Reads file (336 MB) | MAF file | 31 min | 24 GB |
Convert | MAF file (8.5 GB) | DAA file | 4 min | 5 GB |
Classify | DAA file (371 MB) | Meganized DAA file (500 MB) | 2 min | 5 GB |
Cheese data | ||||
Align | Reads file (5.1 GB) | MAF file | 251 min | 24 GB |
Convert | MAF file (93 GB) | DAA file | 90 min | 10 GB |
Classify | DAA file (3.1 GB) | Meganized DAA file (3.5 GB) | 5 min | 10 GB |