Create a Dataset
The first step before ingesting any VCF samples is to create a dataset. This effectively creates a TileDB group and the appropriate empty arrays in it.
Python
CLI
import tiledbvcf
uri = "my_vcf_dataset"
ds = tiledbvcf.Dataset(uri, mode = "w") # sets dataset to "Write" mode
ds.create_dataset() # creates the dataset and
# keeps it in "Write" mode
tiledbvcf create --uri my_vcf_dataset
If you wish to turn some of the
INFO and FMT fields into separate materialized attributes, you can do so as follows (names should be fmt_X or info_X for a field name X - case sensitive).Python
CLI
import tiledbvcf
uri = "my_vcf_dataset"
ds = tiledbvcf.Dataset(uri, mode = "w")
ds.create_dataset(extra_attrs=["info_AA"])
tiledbvcf create --uri my_vcf_dataset --attributes info_AA
Last modified 1yr ago