I am currently working on human whole genomes and I am curious to know the tools the bioinformatics community uses for identifying structural variants. I know about couple of them, like breakdancer and GASV, but would like to get some consensus on good tools to begin with. I understand detecting SVs are the most painful things with lots of false positives throwing up and hence this question. Also, any help on the parameters used with the tools will be greatly appreciated. By the way, we do indel realignment and base quality recalibration as a default process hoping it might help with the process.