Here, we introduce a haplotype-aware variant calling pipeline, PEPPER-Margin-DeepVariant, that produces state-of-the-art variant calling results with nanopore data. We show that our nanopore-based method outperforms the short-read-based single-nucleotide-variant identification method at the whole-...
HapKled: a haplotype-aware structural variant calling approach for Oxford Nanopore sequencing data Usage Before running HapKled you should first compile (see compiling the haplotype-aware kled) the haplotype-aware kled and put the path of it to the environment variable HapAwareKled. export HapAwar...