[FEATURE] Create consistency between clinical and wwt mutation tracking

[molly-hetheringtonrauth]

Feature Request

Based on issue #23 (deprecate "nextclade_json_parser.py and use VCF file for mutations tracking), we should be able to more easily create consistency between how we track mutations found in clinical and wwt sample types.

Solution

• ivar does not handle MVNs, so we may want to explore using BCF tools.
  TBD

Upstream effects

TBD

Downstream effects

TBD

[danpolanco]

We don't think we are going to need this as per discussion during data organization meeting.