CNV calling

Question

[adarsh_pp]

Hello all,

Can anyone please suggest the best open source CNV calling tool that is available, having a decent specificty and sensitivity.

I am using cn.MOPS and ExomeDepth, currently.

But I want to improve the pipeline to get more accurate results.

Please suggest.

Thanks

[barslmn]

You can search for "NGS CNV calling benchmarking" and check out the papers.

[Zhenyu Zhang]

you need to specify somatic or germline

Answer 1

[Sleepy]

Please look at fig2 in this https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8699073/pdf/cancers-13-06283.pdf