Genotyping unresolved insertions using reads around the breakpoint about paragraph

[traxexx]

Thanks for asking that.

We had that before in the internal version but in the public release, we decided to disable this feature. It can be re-enabled, but in general it is not recommended to do so. Many of these partially assembled insertions are either complex SVs or insertions with inaccurate breakpoints/sequences. For complex SVs a better model is recommended. For inaccurate insertions, Paragraph doesn't work very well (we have a figure in our paper quantifying this effect).

We'll have an option for this. Hopefully before Christmas.