Table 5.
Dataset sizes (number of fragments; M: millions) and CPU times in minutes spent on different datasets, measured with the “time” command (user time) when running with 8 threads [xenome, xengsort, bwa-mem, BAM sorting, except for XenofilteR (XfR), which is single-threaded]
| Dataset/tool | Size | XfR+ | bwa+ | Sort | Xenome | Xengsort |
|---|---|---|---|---|---|---|
| Mouse exomes | 307 M | 310+ | 8291+ | 179 | 1823 | 368 |
| Human genome | 1258 M | N/A+ | 222939+ | 940 | 9845 | 2463 |
| Chicken genome | 251 M | 76+ | 6976+ | 118 | 1273 | 592 |
| Leukemia RNA | 1760 M | 778+ | 22,111+ | 521 | 5188 | 1680 |
| PDX RNA | 9742 M | 16,043+ | 2,78,329+ | 5862 | 59,692 | 13,555 |
N/A: not applicable; tool could not be run on this dataset