Skip to main content

Table 2 Average (50 replicates) execution time (standard deviation) of simulating 1-Mb sequence data with a pre-specified number of recombination hotspots (mm:ss)*

From: Critical assessment of coalescent simulators in modeling recombination hotspots in genomic sequences

Number of hotspots N ms msHOT MaCS Simcoal2* Fastsimcoal
0 100 0:01 (2×10-3) 0:02 (0:01) 0:01 (0:00) 1:51 (0:03) <0:01 (4×10-4)
500 0:01 (2×10-3) 0:04 (0:01) 0:06 (0:01) 2:19 (0:04) 0:03 (3×10-3)
1,000 0:02 (5×10-3) 0:06 (0:01) 0:23 (0:02) 2:34 (0:08) 0:08 (0:01)
10,000 --- --- 5:42 (0:13) 3:51 (0:07) 2:18 (0:03)
2 100 --- 1:28 (0:02) 0:03 (0:01) 1:51 (0:06) <0:01 (3×10-4)
500 --- 1:43 (0:05) 0:10 (0:01) 2:45 (0:08) 0:03 (0:01)
1,000 --- 1:51 (0:05) 0:25 (0:03) 2:50 (0:09) 0:08 (0:01)
10,000 --- 2:39 (0:07) 5:43 (0:10) 4:27 (0:11) 2:22 (0:03)
5 100 --- 2:48 (0:05) 0:02 (0:01) 2:30 (0:06) <0:01 (9×10-4)
500 --- 3:14 (0:07) 0:10 (0:02) 2:41 (0:05) 0:03 (5×10-3)
1,000 --- 3:33 (0:06) 0:23 (0:02) 3:24 (0:07) 0:09 (0:02)
  10,000 --- 4:27 (0:11) 5:36 (0:15) 4:10 (0:09) 2:32 (0:05)
  1. * “N” denotes sample size (i.e., the number of DNA sequences) for each replicate. “---” denotes a segmentation fault (e.g., ms could not simulate sequence data with recombination hotspots).