Table 4 Call rate of STR calling results with allelotype using the original BAM file of 40 × and those realigned with STR-realigner, ReviSTER, GATK IndelRealigner, and allelotype with --realign option. The best result is underlined
From: STR-realigner: a realignment method for short tandem repeat regions
Period | No. of regions | STR-realigner | ReviSTER | IndelRealigner | --realign option | Original BAM |
|---|---|---|---|---|---|---|
1 | 5345 | 1.000 | 1.000 | 0.998 | 0.998 | 0.998 |
2 | 1160 | 0.994 | 0.994 | 0.984 | 0.984 | 0.984 |
3 | 517 | 0.992 | 0.992 | 0.988 | 0.988 | 0.988 |
4 | 1433 | 0.991 | 0.992 | 0.988 | 0.987 | 0.987 |
5 | 668 | 0.997 | 0.997 | 0.990 | 0.990 | 0.990 |
6 | 472 | 0.994 | 0.994 | 0.992 | 0.989 | 0.989 |
Total | 9595 | 0.997 | 0.997 | 0.993 | 0.993 | 0.993 |