Remove extra columns from pvar when extracting variants from target.

opain / GenoPred

Genotype-based Prediction (GenoPred)

https://opain.github.io/GenoPred/

GNU General Public License v3.0

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Remove extra columns from pvar when extracting variants from target. #88

Closed mja closed 2 months ago

mja commented 3 months ago

Script assumes only CHR, BP, SNP, A2, A1 columns are present in pvar. Adding empty 'pvar-cols=' to --make-pgen command removes extra columns like INFO and FORMAT

opain commented 2 months ago

Brilliant. Thanks @mja!