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Add getting REF to how_do_i #1175

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9 changes: 9 additions & 0 deletions docs/how_do_i.rst
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Expand Up @@ -62,6 +62,15 @@ Call :py:func:`display_genotypes`:

sg.display_genotypes(ds, max_variants=10)

Get the reference allele?
----------------------

The specification for [VCFs stored in Zarr](https://github.com/pystatgen/vcf-zarr-spec/blob/main/vcf_zarr_spec.md)
places the REF allele as the first allele in the ``variant_allele`` array. For example, the following will print out all the REF alleles

.. ipython:: python

ds.variant_allele[:,0].values

Subset the variables?
---------------------
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