Detect CNVs from SNP data
2
1
Entering edit mode
7.0 years ago
misbahabas ▴ 70

Hello

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

Thanks to all

genome cnv • 1.5k views
ADD COMMENT
1
Entering edit mode
7.0 years ago
guillaume.rbt ★ 1.0k

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 COMMENT
0
Entering edit mode
7.0 years ago
misbahabas ▴ 70

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 COMMENT

Login before adding your answer.

Traffic: 2206 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6