Fig. 2.

Accuracy and completeness of LongShot SNV calls on whole-genome SMS data. Longshot was used to call single nucleotide variants (SNVs) using SMS data from the GIAB project for four human genomes: NA12878 ($30\times$ and $45\times$ coverage), NA24385 ($28\times$, $37\times$, $46\times$, and $64\times$ coverage), NA24149 ($29\times$ coverage), and NA24143 ($27\times$ coverage). For each individual, variants were also called using FreeBayes applied to $~30\times$ coverage Illumina short reads. a Precision of the SNV calls calculated using the GIAB high-confidence variant call set. b Recall of the SNV calls. c The combined switch error rate (total rate of switch errors and mismatch errors) of the Longshot and Illumina short-read-based haplotypes. d N50 length of the haplotypes. e The fraction of heterozygous variants phased in each dataset