HALFpipe / ImputationProtocol

The ENIGMA Imputation Protocol as a container for your local workstation or high-performance compute cluster
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Option to specify rsq filter #2

Closed maggie-fu closed 1 year ago

maggie-fu commented 1 year ago

Hi, We have been running this imputation protocol on the singularity, and it has been very helpful. Thank you! I am wondering if there is a way to specify the desired r2 filter threshold like on the Michigan Imputation Server. When running the imputationserver, I tried specifying options --r2Filter or --rsq but they are not recognized. I quickly look into the code and it doesn't seem like an option. Would it be possible to add that?