SV2: Accurate Structural Variation Genotyping andDe NovoMutation Detection from Whole Genomes

Motivation Structural Variation (SV) detection from short-read whole genome sequencing is error prone, presenting significant challenges for population or family-based studies of disease. Results Here we describe SV 2 , a machine-learning algorithm for genotyping deletions and duplications from paired-end sequencing data. SV 2 can rapidly integrate variant calls from multiple structural variant discovery algorithms into a unified call set with high genotyping accuracy and capability to detect de novo mutations. Availability and Implementation SV 2 is freely available on GitHub ( https://github.com/dantaki/SV2 )