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WGLab / PennCNV

Copy number vaiation detection from SNP arrays
http://penncnv.openbioinformatics.org
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How can i get Hmm file for affy array #58

Open innerpyg-bi opened 4 years ago

innerpyg-bi commented 4 years ago

I'm progressing the CNV analysis through PennCNV-Affy, but there is one problem. I generated the PFB file but can't make hmm file. When i downloaded PennCNV package, can only find out hmm file for 500k, GW6, GW5, GW_Human. how can i get the hmm file for affy array such as APMRA, etc

kaichop commented 4 years ago

you can use the gw6.hmm file for a typical Affy array. Some users provided hmm files for Atom array which you may want to try as well as it may give improved performance on Axiom. See link at http://penncnv.openbioinformatics.org/en/latest/

On Wed, Jul 8, 2020 at 10:16 PM innerpyg-bi notifications@github.com wrote:

I'm progressing the CNV analysis through PennCNV-Affy, but there is one problem. I generated the PFB file but can't make hmm file. When i downloaded PennCNV package, can only find out hmm file for 500k, GW6, GW5, GW_Human. how can i get the hmm file for affy array such as APMRA, etc

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