Table 5 Run-time evaluation and performance evaluation of DeDup compared to SAMtools rmdup on five leprosy and eight human data sets
Run time in seconds | Total # of mapped reads | Removed reads | |||
|---|---|---|---|---|---|
Sample | DeDup | Rmdup | DeDup | Rmdup | |
3077 | 53 | 42 | 5,737,174 | 410,045 | 492,798 |
SK2 | 146 | 66 | 51,741,310 | 47,353,377 | 47,567,518 |
SK8 | 124 | 109 | 10,597,941 | 189,328 | 323,524 |
Jorgen625 | 347 | 335 | 16,093,580 | 96,393 | 699,310 |
Refshale16 | 479 | 371 | 43,528,407 | 3,802,345 | 8,055,585 |
LBK1 | 2845 | 2446 | 227,603,728 | 3,138,204 | 6,708,814 |
LBK2 | 2779 | 2544 | 230,911,458 | 2,828,977 | 6,060,762 |
LBK3 | 2809 | 2440 | 228,167,295 | 3,264,858 | 6,719,244 |
LBK4 | 2451 | 2235 | 207,956,568 | 2,762,565 | 5,929,959 |
LBK5 | 2531 | 2248 | 208,277,143 | 2,802,601 | 5,983,802 |
LBK6 | 2572 | 2255 | 209,806,794 | 2,789,629 | 6,005,481 |
LBK7 | 2859 | 2532 | 229,979,501 | 2,466,574 | 5,293,065 |
LBK8 | 2804 | 2441 | 228,466,493 | 3,177,587 | 6,786,388 |