I want to filter coding variants in a gene located on chromosome 19 using the Hail tools. WES data for chromosome 19 is distributed in 24 pVCF.gz files. I am wondering which of the pVCF files contain the genomic region I am interested in. It would be great if anyone could enlighten me on how to figure it out.
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This questions has been answered before. See the best answer for this post here.
https://community.dnanexus.com/s/question/0D5t000003u54wfCAA/for-the-chunked-population-wide-450k-wes-vcfs-where-can-one-find-a-position-file-delimiting-the-start-and-end-positions-of-each-chunk
Thank you!
However, I am wondering whether the exome region covered by each pVCF block is same for both 450K release and final release
Data provider told us it's the same. If you notice that something isn't right, feel free to share the evidence of discrepancy with us.
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