Table 5 Total running times for running MC-GenomeKey on the whole genome dataset using different clusters of increasing node number
From: MC-GenomeKey: a multicloud system for the detection and annotation of genomic variants
| Â | Nodes | |||
|---|---|---|---|---|
| Â | 4 | 8 | 16 | 32 |
Alignment (BWA) | 8:03:53 | 4:45:51 | 2:55:34 | 1:30:22 |
IndelRealigner | 3:04:03 | 1:25:44 | 0:50:51 | 0:28:44 |
MarkDuplicates | 3:15:04 | 1:35:01 | 0:48:15 | 0:33:10 |
BQSR | 4:11:14 | 2:55:16 | 1:35:02 | 0:18:41 |
HaplotypeCaller | 9:05:43 | 6:04:45 | 4:18:30 | 2:15:01 |
GenotypeGVCFs | 1:45:01 | 1:01:10 | 0:37:14 | 0:15:09 |
VQSR | 1:33:29 | 0:55:45 | 0:30:56 | 0:11:30 |
Merge VCF | 0:05:55 | 0:08:39 | 0:11:20 | 0:13:15 |
Convert VCF to Annovar | 0:06:14 | 0:07:11 | 0:06:59 | 0:07:01 |
Annotate | 0:15:01 | 0:14:55 | 0:15:10 | 0:14:32 |
Merge Annotation | 0:04:06 | 0:03:49 | 0:04:01 | 0:04:05 |
Total time | 31:29:43 | 19:18:06 | 12:13:52 | 6:11:30 |