Question: Detect CNVs from SNP data
1
gravatar for misbahabas
2.3 years ago by
misbahabas60
misbahabas60 wrote:

hello

Please tell me, is it possible to detect CNVs from SNP data?

thanks to all

cnv tool genome • 686 views
ADD COMMENTlink modified 2.3 years ago • written 2.3 years ago by misbahabas60
1
gravatar for guillaume.rbt
2.3 years ago by
guillaume.rbt620
France
guillaume.rbt620 wrote:

Hi,

By SNP data do you mean that you have a vcf file? From this kind of data it's difficult to call CNVs.

However, if you have the alignments from which the SNPs have been called (bam files) you can run CNV detection tools as pindel, CNVnator or breakdancer ( https://omictools.com/cnv-detection3-category ).

ADD COMMENTlink modified 2.3 years ago • written 2.3 years ago by guillaume.rbt620
0
gravatar for misbahabas
2.3 years ago by
misbahabas60
misbahabas60 wrote:

thanks for reply

yes,

I have VCF files contains only SNP data of non human genome , Now I want to detect CNVs from that data

ADD COMMENTlink written 2.3 years ago by misbahabas60
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