Some questions about the generated plots

[amnghn]

Hi,
I have used your tool to generate some plots for three single-sample SV VCFs and one combined VCF file. All the VCF files were created by sniffles2. It's not entirely clear to me what some plots show, and I would be grateful if you could explain it here, or it might be a good idea to write a few words about each plot in the README file.

Variant Frequency Spectrum
If this plot is generated from one single-sample VCF file, where does the "frequency" come from? If we are looking at one sample, then the frequency of each event is either 0 or 1. Why do we see a range on the x-axis? Also, if this plot is generated from a three-sample VCF, the frequency of each event can be 1/3, 2/3, or 1, right? Again, I don't understand why we have a full range between 0 and 1!

SV sites per genome
This violin plot is puzzling to me! I have only three samples, so the max or min should be the highest or lowest number of DEL/INS in one of the three genomes. But violin ranges go higher and lower than the boxplot rage. Is it just a plotting issue? Or am I misunderstanding the plot?

Heat map for deletion and insertion intersections
What do you mean by "right insertion & left deletion" in the title? Do the right and left refer to the right and left sides of the diagonal line? In the sample you have on GitHub page, the title is the other way around, "right DELETION and left INSERTION". I think you have changed it in the new version of the tool.

Thank you so much in advance for your help.