Add experimental vcf_to_parquet function
#1083
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Closing. In https://github.com/pystatgen/sgkit/discussions/1091 we decided that for VEP use case it would be best to recommend users export to JSON and use that to construct filters on the Zarr data. |
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changelog.rstapi.rstInspired by the discussion in #1059, I've written some code to export the fixed fields of a VCF file (including INFO fields) to a collection of Parquet files. The idea is that you can run filtering-style queries on this variant metadata, and use that to subset/mask the variants in a Zarr dataset. I explored this a bit in https://github.com/pystatgen/sgkit/issues/634#issuecomment-1523285115.
This is not to be merged, just posting for interest.