An SVM-based approach for genotyping deletions and insertions with population sequence reads

Because of the low quality and large size of population sequence data, calling population structural variations (SVs) genotypes is still a challenging problem. In this paper, we propose an SVM-based approach for genotyping deletion and insertion polymorphisms with population sequence reads. The key idea of our approach is combining multiple sources of information contained in sequence data in calling genotypes. Results on both simulated and real data suggest that our approach works well.