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hakyimlab / summary-gwas-imputation

harmonization, liftover, and imputation of summary statistics from GWAS
MIT License
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Script output: gwas_summary_imputation.py #17

Open VasoLG opened 3 years ago

VasoLG commented 3 years ago

Hello, Not really an issue, but a specific question regarding the output of gwas_summary_imputation.py script (https://github.com/hakyimlab/summary-gwas-imputation/blob/master/src/gwas_summary_imputation.py). Does this script give Zscores or additionally betas and SEs? Thank you.

katyaorlova commented 3 years ago

My GWAS had Zscores as input, and gwas_summary_imputation.py output Zscores (no betas and SEs). Not sure if this is different if you're starting with other stats.

By the way, there's a Google group for these programs - there are a lot of Q&A and program authors respond pretty regularly. You might be better off asking there. https://groups.google.com/g/predixcanmetaxcan