somatic CNV PoN recommendation?
Answeredis there a recommended source of somatic CNV PoN that works with the latest GATK?
(I know I can build my own, but just wonder if one from a larger cohort already exists)
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Hi Qing Zhang,
There are public PoN resources available in the Resource Bundle also referenced in this article about the Panel of Normals. Does this help answer your question?
Kind regards,
Pamela
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Hi,
I want hg38 CNV PoN, not SNV. Is there a public CNV PoN for somatic analysis?
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Hi Qing Zhang,
All of the available public resources offered by GATK are located in the Resource Bundle. If what you are looking for is not present there, then it is not offered directly from GATK, but you may be able to find resources by searching old forum posts or from input by other users.
Kind regards,
Pamela
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Hi, I found this file in the resource bundle https://storage.googleapis.com/gatk-test-data/cnv/somatic/wes-do-gc.pon.hdf5
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Thank you for posting this resource Ibel Carri!
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