Table 1 Time and memory comparison of Bifrost and BCALM2 for different k-mer sizes and number of threads during graph construction
From: Bifrost: highly parallel construction and indexing of colored and compacted de Bruijn graphs
Tool | k-mer size | Number of threads | ||||
|---|---|---|---|---|---|---|
1 | 4 | 8 | 16 | |||
Time (h) | Bifrost | 31 | 20.81 | 8.53 | 6.10 | 5.55 |
63 | 14.38 | 4.20 | 2.40 | 2.00 | ||
95 | 12.51 | 3.88 | 2.25 | 1.58 | ||
127 | 9.56 | 2.96 | 1.81 | 1.41 | ||
BCALM2 | 31 | 44.25 | 14.11 | 8.48 | 6.33 | |
63 | N/A | 25.6 | 13.96 | 8.71 | ||
95 | N/A | 39.91 | 21.45 | 12.56 | ||
127 | N/A | N/A | 27.73 | 16.15 | ||
Memory (GB) | Bifrost | 31 | 39.59 | 39.58 | 39.59 | 39.60 |
63 | 37.77 | 37.77 | 37.77 | 37.78 | ||
95 | 44.33 | 44.30 | 44.30 | 44.32 | ||
127 | 55.88 | 55.86 | 55.86 | 55.86 | ||
BCALM2 | 31 | 36.00 | 35.66 | 35.61 | 35.58 | |
63 | N/A | 29.83 | 29.73 | 29.64 | ||
95 | N/A | 33.47 | 33.51 | 33.66 | ||
127 | N/A | N/A | 43.42 | 53.77 | ||