Aggregates together a sequence dictionary from the different individual reference sequences used in this dataset.
Aggregates together a sequence dictionary from the different individual reference sequences used in this dataset.
A sequence dictionary describing the reference contigs in this dataset.
For a single variant context, returns sequence record elements.
For a single variant context, returns sequence record elements.
Element from which to extract sequence records.
A seq of sequence records.
Left outer join database variant annotations
Converts an RDD of ADAM VariantContexts to HTSJDK VariantContexts and saves to disk as VCF.
Converts an RDD of ADAM VariantContexts to HTSJDK VariantContexts and saves to disk as VCF.
The filepath to save to.
An optional sequence dictionary. Default is none.
Whether to sort before saving. Sort is run after coalescing. Default is false (no sort).
Optionally coalesces the RDD down to _n_ partitions. Default is none.