Fig. 3: Performance of LinkedSV on the simulated WGS data with low variant allele frequencies. | Nature Communications

Fig. 3: Performance of LinkedSV on the simulated WGS data with low variant allele frequencies.

From: LinkedSV for detection of mosaic structural variants from linked-read exome and genome sequencing data

Fig. 3

a, b Recalls, precisions and F1 scores of six SV callers on the simulated WGS data set with VAF of 10% and 20%. c Heap map of overlapping barcodes in chr1:193412560–194518464 (hg19 coordinates) showing an inversion that was missed by Longranger, and NAIBR (VAF = 10%). The overlapping barcodes between the two inversion breakpoints can be clearly visualized (in the black circles). The heat map was plotted by the Loupe software (10x Genomics). Dots represent overlapping barcodes. d Supporting fragments of the inversion detected by LinkedSV. Horizontal lines represent linked reads with the same barcode; dots represent reads; colors indicate barcodes. Predicted breakpoint positions are marked by red arrows. Source data is provided as a Source Data file.

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