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WGLab / doc-ANNOVAR

Documentation for the ANNOVAR software
http://annovar.openbioinformatics.org
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Custom filtering #126

Open xiw588 opened 3 years ago

xiw588 commented 3 years ago

Hi, Dr. Wang, I am new to ANNOVAR and want to know if we can customize the filtering process by specifying coverage depth and VAF both using wANNOVAR or ANNOVAR. I didn't find the specific area to specify on wANNOVAR, maybe you can show me how to do it using ANNOVAR.

Thank you.

kaichop commented 3 years ago

Hi, there is no easy way to do this within ANNOVAR (because there is no standard way to specify such information in a VCF format), but if you know what fields are used to specify coverage and VAF, you can post-process the annotations to filter out variants.

On Sat, Feb 27, 2021 at 9:54 PM xiw588 notifications@github.com wrote:

Hi, Dr. Wang, I am new to ANNOVAR and want to know if we can customize the filtering process by specifying coverage depth and VAF both using wANNOVAR or ANNOVAR. I didn't find the specific area to specify on wANNOVAR, maybe you can show me how to do it using ANNOVAR.

Thank you.

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