Fig. 7.

Impact of depth of coverage on the F1 score of SV genotyping methods. a, b HG002 Tier 1 dataset. c, d HG002 Tier 2 dataset. e–i HG005 dataset. The x-axis represents depth of coverage, and the y-axis indicates the F1 score of each SV genotyping method in different sequencing depths. The gray line in each sub-figure represents the smooth curve generated by locally weighted regression using the loess function in R. For each dataset, we downsampled the sequencing data of HG002 and HG005 to different depths using SAMtools [43]. SVJedi and VaPoR cannot genotype DUP and TRA, respectively. INS: insertion, DEL: deletion, DUP: duplication, INV: inversion, TRA: translocation