BreakDancer

SV caller using paired-end sequence data

BreakDancer, released under GPLv3, is a Perl/C++ package that provides genome-wide detection of structural variants from next generation paired-end sequencing reads.

BreakDancerMax predicts five types of structural variants: insertions, deletions, inversions, inter- and intra-chromosomal translocations from next-generation short paired-end sequencing reads using read pairs that are mapped with unexpected separation distances or orientation.

Screencasts

A Workflow Solution for Structural Variant Prediction

This video describes the structural variant workflow solution offered by the tools BreakDancer, SquareDancer and TIGRA-SV (also available on Screenr).