Table 8 Runtimes (in seconds) and corresponding speedups of SeQual-Stream over SeQual for the SRR589 paired-end dataset (“Downloading” scenario, testbed 2)
From: SeQual-Stream: approaching stream processing to quality control of NGS datasets
Operation | Dataset | Mode | Nodes | SeQual | SeQual-Stream | Speedup |
|---|---|---|---|---|---|---|
QUALITY | SRR589 | Paired | 1 | 9369 | 4924 | 1.90 |
2 | 7666 | 4023 | 1.91 | |||
4 | 5152 | 3601 | 1.43 | |||
8 | 3418 | 2797 | 1.22 | |||
NONIUPAC | SRR589 | Paired | 1 | 13253 | 5894 | 2.25 |
2 | 7703 | 5281 | 1.46 | |||
4 | 4887 | 3478 | 1.41 | |||
8 | 3172 | 2870 | 1.11 | |||
TRIMRIGHTP | SRR589 | Paired | 1 | 13343 | 5022 | 2.66 |
2 | 7532 | 4285 | 1.76 | |||
4 | 4813 | 3483 | 1.38 | |||
8 | 3085 | 2891 | 1.07 | |||
DNATORNA | SRR589 | Paired | 1 | 10256 | 5632 | 1.82 |
2 | 7346 | 5133 | 1.43 | |||
4 | 5179 | 3070 | 1.69 | |||
8 | 3196 | 2864 | 1.12 |