Help with de novo CNV analysis from GWAS data.

pathaka001

Junior Member

Join Date: Feb 2013

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#1

Help with de novo CNV analysis from GWAS data.

02-13-2013, 11:35 AM

Hi,

I’m looking for de novo CNV changes a child (with cancer) of two normal adults. I've tried PennCNV for this with some success and am wondering if anyone out there has experience with other software like minimum distance (R bioconductor). Any suggestions are appreciated.

Thanks,
Anand
Tags: cnv
severin

Genome Informatics Facility

Join Date: Sep 2009

Posts: 105
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02-13-2013, 04:47 PM

Are you starting with Illumina reads? Have you thought about GATK haplotype caller? How big do you expect the CNV to be?
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Help with de novo CNV analysis from GWAS data.

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