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Choose subset of samples from reference files for --run_ancestry #439

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enhancementNew feature or requestuser-queryUser queries & requests
@zx8754

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@zx8754

Description of feature

We only work with male samples, so we would like to only use males from the reference. Is there already built in flag we can use?

Something like:

nextflow run pgscatalog/pgsc_calc \    -profile singularity -resume \    --input samplesheet.csv --target_build GRCh37 \    --scorefile $fileScore \    --run_ancestry reference/pgsc_HGDP+1kGP_v1.tar.zst \    --ref_sex male

Or do we have to create our own custom reference files by subsetting males from the plink pgen filespgsc_HGDP+1kGP_v1? Any advices appreciated, thank you.

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