Table 2 Time in seconds for distance matrix calculation, L2 distance, multithread execution
R package | Sample | Number of threads | |||
|---|---|---|---|---|---|
size | 8 | 32 | 64 | 128 | |
scellpam (sparse, float) | 8879 | 283.1 | 76.0 | 44.4 | 32.5 |
scellpam (full, double) | 551.8 | 154.7 | 115.5 | 107.4 | |
amap | 2775.7 | 1570.4 | 1815.7 | 4978.2 | |
parallelDist | 1963.0 | 826.7 | 1665.9 | 4148.3 | |
scellpam (sparse, float) | 17,758 | 1122.1 | 300.9 | 174.8 | 129.1 |
scellpam (full, double) | 2170.3 | 601.3 | 431.6 | 408.6 | |
amap | 14673.0 | 18077.3 | 25365.7 | 31961.7 | |
parallelDist | 8794.5 | 10021.2 | 22694.2 | 31734.1 | |
scellpam (sparse, float) | 35,516 | 4494.1 | 1192.6 | 692.4 | 508.6 |
scellpam (full, double) | 8774.1 | 2408.1 | 1694.4 | 1625.6 | |
amap | 69393.0 | 92699.9 | 87231.0 | 63080.0 | |
parallelDist | 36236.8 | 5751.6 | 104415.0 | 119098.0 | |
scellpam (sparse, float) | 71,032 | 17933.0 | 4730.3 | 2736.5 | 1994.7 |
scellpam (full, double) | 35240.1 | 9534.3 | 6694.4 | 6534.9 | |
amap | \((*1)\) | \((*1)\) | \((*1)\) | \((*1)\) | |
parallelDist | 159231.0 | 545900.0 | 413000.0 | 489916.0 | |