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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]

From: Fast lightweight accurate xenograft sorting

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

  1. N/A: not applicable; tool could not be run on this dataset