I am wondering where I can find joint calling for whole genome data. For whole exome data there are 3 folders (population level exome OQFE variants) with joint calls in plink, bgen and pvcf format, but I don't see similar folder under whole genome data?
Hello, UK Biobank is currently working on that. We are expecting these files to be available in Q2.
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Hi, are the files in /Bulk/Whole genome sequences/Whole genome GraphTyper joint call pVCF/ not appropriate to use as joint calling data for further analysis? Thanks.
The /Bulk/Whole genome sequences/Whole genome GraphTyper joint call pVCF/ is appropriate. It's just that it came from 150k rather than all current 200k WGS.
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Hello, UK Biobank is currently working on that. We are expecting these files to be available in Q2.
Hi, are the files in /Bulk/Whole genome sequences/Whole genome GraphTyper joint call pVCF/ not appropriate to use as joint calling data for further analysis? Thanks.
The /Bulk/Whole genome sequences/Whole genome GraphTyper joint call pVCF/ is appropriate. It's just that it came from 150k rather than all current 200k WGS.
See all future release dates here.
https://www.ukbiobank.ac.uk/enable-your-research/about-our-data/future-data-release-timelines
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