This page is a list of open-source tools developed by the DNAnexus science team.
GLnexus: Scalable gVCF merging and joint variant calling for population sequencing projects. Also on BioRxiv.
IndexTools: A toolkit for extremely fast NGS analysis based on index files.
Parliament2: Runs a combination of tools to generate structural variant calls on whole-genome sequencing data. Available as an app on DNAnexus and as a Docker image. Also on BioRxiv.