implement adding new derived fields

UW-GAC / wgsaparsr

Code for parsing TOPMED variant annotation files produced by the WGSA annotation tool.

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implement adding new derived fields #74

Open bheavner opened 6 years ago

bheavner commented 6 years ago

dbnsfp needs aaref/aaalt for merging with snv table. Easiest to add when parsing. Perhaps add a "new" transformation, and logic to check that transformation isn't new when getting lists for other parsing operations...

bheavner commented 6 years ago

also, there's some codon distance field...

jaind commented 6 years ago

"VEP_ensembl_Codon_Change_or_Distance" is the other field that i was referring to that you had transformed in earlier versions

bheavner commented 6 years ago

Thanks! That's currently a text field in the database, with some values like "1687", and some values like "Gga/Cga"

bheavner commented 6 years ago

brainstorming, perhaps a new transformation option, such as split_chars_to="NEW COLUMN NAME"?(which makes me think, perhaps also a rename="NEW COLUMN NAME") option?... merits more thinking.