Hi everyone,

I am new to bioinformatics field. So please apologize for my questions that I am not unaware of. I wanted to use a tool called Clove https://github.com/PapenfussLab/clove to classify the breakpoint calls from the gridss software (https://github.com/PapenfussLab/gridss) as Structural variants.

But for using Clove I need to specify two values

1. Mean coverage value.
2. Variance of coverage value.

So is there a method or tool where I can calculate these values from my bam File. It would be really helpful if you can answer.