The MIPs aliquot importer should handle some values as special cases
|Reported by:||Nicklas Nordborg||Owned by:||Nicklas Nordborg|
Some of the columns in the file used for importing MIPs aliquots sometimes have special values that should be treated differently. This used to be a manual curation process before importing the file to BASE. Manually changing values is error prone so it would be a lot better to do this in the importer instead.
All full list cases is not yet available. Here is what we know so far:
NormalTumorcolumns can have values that should be translated: NA --> null; TUMOR --> T. Other values are kept as is.
Variant: 0 --> null. Other values are kept as is.