tjiangHIT/cuteSV

Structural variation caller using third generation sequencing

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

A genome browser designed for complex structural variants and long reads.

GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.

Copy number variant detection from targeted DNA sequencing

Structural variant toolkit for VCFs

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.