Table 1 Call rate of STR calling results with RepeatSeq using the original BAM file of 40 × and those realigned with STR-realigner, ReviSTER, and GATK IndelRealigner. The best result is underlined
From: STR-realigner: a realignment method for short tandem repeat regions
Period | No. of regions | STR-realigner | ReviSTER | IndelRealigner | Original BAM |
|---|---|---|---|---|---|
1 | 5345 | 0.878 | 0.878 | 0.873 | 0.872 |
2 | 1160 | 0.799 | 0.794 | 0.785 | 0.784 |
3 | 517 | 0.834 | 0.807 | 0.799 | 0.803 |
4 | 1433 | 0.840 | 0.766 | 0.771 | 0.783 |
5 | 668 | 0.856 | 0.811 | 0.819 | 0.819 |
6 | 472 | 0.881 | 0.850 | 0.852 | 0.856 |
Total | 9595 | 0.859 | 0.841 | 0.838 | 0.840 |