I got the reference genome GCA_000001405.15 for this cram file by comparing it to the 2013 version, but this GRCh38.p13 is from later 2019, I see that snpEff's help file states that the default is GRCh38.p13, I doubt it's a match.
Hi @Li Ping?, Thanks for sharing. Please report it to ukbiobank-support@dnanexus.com, the technical team will be able to take a look at this and they can report it to DNAnexus Product team for considering.
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Hi @Li Ping?, Thanks for sharing. Please report it to ukbiobank-support@dnanexus.com, the technical team will be able to take a look at this and they can report it to DNAnexus Product team for considering.
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