EAGER: efficient ancient genome reconstruction

Table 2 Execution times (in seconds) of the EAGER and PALEOMIX pipeline applied to five ancient Mycobacterium leprosy data sets and eight Homo sapiens data sets (LBK1–LBK8) (see Table 1)

Data set	EAGER	PALEOMIX	Factor
LBK1	57,853	90,181	1.55
LBK2	61,066	88,526	1.44
LBK3	58,252	90,032	1.54
LBK4	54,215	82,318	1.51
LBK5	53,676	82,500	1.53
LBK6	54,790	82,090	1.49
LBK7	61,859	83,544	1.35
LBK8	57,782	91,015	1.57
3077	1,066	1,310	1.22
Jorgen625	4,224	13,160	3.11
Refshale16	4,913	9,329	1.89
SK2	5,342	13,196	2.47
SK8	1,508	2,089	1.38
Average	36,657	56,099	1.53

The respective run times have been calculated using the Unix time command, stated are the real times. Execution was performed on the same host system. The parameters of both pipelines have been chosen to be as close to each other as possible, e.g., the mapping parameters have been set to the same values, where this was possible. The factor in the last column refers to the ratio of the PALEOMIX run time versus that of EAGER

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