Markup | Genome Research

Table 1.

Performance of the two methods on human centromeric assemblies using 36 threads

Chromosome	Elapsed time (s)		Speedup	Peak RAM (MB)		Usage ratio	Decomposition identity
Chromosome	SD	WSD	Speedup	SD	WSD	Usage ratio	SD	WSD
1	500.26	237.03	2.11	138,271.14	2379.06	58.12	0.9878	0.9879
2	370.17	281.42	1.32	138,263.84	1774.79	77.90	0.9801	0.9801
3	307.10	98.37	3.12	138,259.23	412.61	335.09	0.9924	0.9924
4	283.96	102.70	2.76	138,258.62	269.03	513.92	0.9905	0.9905
5	395.54	203.87	1.94	138,264.43	1353.27	102.17	0.9869	0.9869
6	412.96	89.49	4.61	138,265.18	1651.03	83.74	0.9963	0.9963
7	391.33	150.76	2.60	138,266.92	1703.16	81.18	0.9936	0.9936
8	349.36	400.03	0.87	138,263.24	1586.27	87.16	0.9912	0.9912
9	355.95	162.37	2.19	138,264.88	1261.57	109.60	0.9854	0.9854
10	355.01	152.76	2.32	138,263.00	907.48	152.36	0.9875	0.9875
11	434.39	137.02	3.17	138,267.09	1700.92	81.29	0.9866	0.9866
12	391.67	191.91	2.04	138,265.51	1228.88	112.51	0.9877	0.9877
13	362.69	77.61	4.67	138,262.50	1022.98	135.16	0.9949	0.9949
14	377.61	111.55	3.39	138,265.47	1469.97	94.06	0.9903	0.9902
15	293.88	115.67	2.54	138,259.65	500.17	276.42	0.9908	0.9908
16	363.92	373.82	0.97	138,262.79	964.52	143.35	0.9889	0.9889
17	448.27	505.54	0.89	138,268.64	1806.00	76.56	0.9921	0.9920
18	476.73	220.09	2.17	138,271.41	2470.22	55.98	0.9885	0.9885
19	450.41	215.36	2.09	138,268.91	2147.89	64.37	0.9833	0.9833
20	367.74	116.95	3.14	138,263.62	980.42	141.02	0.9909	0.9909
21	251.38	154.96	1.62	134,888.57	161.95	832.93	0.9859	0.9860
22	421.47	173.22	2.43	138,266.49	1211.66	114.11	0.9902	0.9902
X	440.30	531.44	0.83	138,266.33	1712.48	80.74	0.9894	0.9893

[i] SD uses the default parameters, whereas WSD uses the parameter “-A1” with all other parameters set to their default values.