I have WGS paired-end data and I want to use BreakDancer to call structural variants.
Both my case and controls bam files do not have, in their header, the LB field in @RG tag and BreakDancer reports this lack. I can re-header bam files and add the missing LB easily, however I cannot understand how this information is important for BreakDancer and which are the recommended criteria to add them, i.e. a unique LB for all samples or specific for each of them? Is it referred to the Library Preparation Kit?
Could you provide me some hints to solve the problem? Thank you.