Annotation tool for cnvKit

Question

[carolina.naomi]

I would like to annotate any variants found after running cnvkit.py with my samples. At first, I used cnvScan (https://github.com/PubuduSaneth/cnvScan) but the output is a little odd and I thought that it might not be suitable for cnvkit.

Does anyone know if I can use cnvScan with cnvkit? And if not, which tool is recommended?

Answer 1

[geocarvalho]

Hello Naomi, other options that I know:

• StructuralVariantAnnotation
• AnnotSV - website

And if you want to take data from different sources, I recommend this article from Golden helix.

Best regards.