Copy Number Variants with CNVKit

Question

[AIMAR]

Hi everyone, hope yall doing well.

I'm actually on a project working with CNVKit to analyze copy number variant from somatic NGS data of heterogen tumor (cfDNA = Circulant Free DNA). In my analysis I've specified the option :

cnvkit.py call "$SAMPLE_DIR/${SAMPLE}.cns" --method threshold \
-t=-0.20,0.20  -o "$SAMPLE_DIR/${SAMPLE}.called.cns"

I would like to know if there's any document or idea that could help to adjust the thresholds with the -t option for the Log2_Ratio. Instead of using the default one :
-t= -1.1,-0.25,0.2,0.7 .

Thank you in advance.

[GenoMax]

Please follow up on your past threads and the answers/comments they have received. Upvotes are a good way to appreciate the help you receive and accepting answers that solved your question (green check mark) are the proper way to provide closure to threads.