Question: Are SV tools as thorough in CNV detection as CNVkit?
gravatar for syntax
12 months ago by
syntax60 wrote:

In reading through the documentation of tools like Illumina Manta, DNAnexus Parliament, Delly, Mobster - they make reference to CNV as one of the types of structural variation that can be detected.

However, when I read through CNVkit's documentation it is extremely thorough and specific to amplifications and deletions.

How do these more general SV tools compare to CNVkit? Our use case is "moving beyond SNP/LD-based GWAS" into CNV.

cnv manta parliament cnvkit sv • 355 views
ADD COMMENTlink modified 12 months ago • written 12 months ago by syntax60

Oh, GATK4 is introducing germline and somatic CNV detection that outputs to vcf.

ADD REPLYlink written 12 months ago by syntax60
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1675 users visited in the last hour