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WGLab / PennCNV

Copy number vaiation detection from SNP arrays
http://penncnv.openbioinformatics.org
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How to obtain hmm file for pig 50k in Neogen platform ? #60

Open Feng-Zhang opened 3 years ago

Feng-Zhang commented 3 years ago

Hi Dr. Wang,

I'm using your PennCNV software to call CNV for pigs sequenced by Neogen 50k array (GeneSeek Genomic Profiler Porcine 50K/HD SNP Array XT). The problem is that how I can generate the hmm file ? If is it ok using the hhall.hmm file?

Thanks.

kaichop commented 3 years ago

You can try the axiom.hmm or hhall.hmm. You just need to build your own PFB file on the array.

On Sat, Oct 31, 2020 at 4:06 AM fengzhang notifications@github.com wrote:

Hi Dr. Wang,

I'm using your PennCNV software to call CNV for pigs sequenced by Neogen 50k array (GeneSeek Genomic Profiler Porcine 50K/HD SNP Array XT). The problem is that how I can generate the hmm file ?

Thanks.

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Feng-Zhang commented 3 years ago

Thanks.