Write CNV analysis script

[berntpopp]

The pipeline still needs CNV calling.
The script should perform CNV calling an all input BAM files.

It should allow:

• Exom and Genome mode
• multiple tools which can be selected as arguments
• setting of controlls and/ or normal samples
• target file input

Possible tools to integrate:

• CNVkit
• GATK (https://gatk.broadinstitute.org/hc/en-us/articles/360035535892-Somatic-copy-number-variant-discovery-CNVs-)