Add function get_chr_x_hom_alt_cutoffs, add arguments to infer_sex_karyotype and get_sex_expr to use the new function and it's output.
#492
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klaricch
requested changes
Oct 11, 2022
Co-authored-by: klaricch <kristen@broadinstitute.org>
… into jg/sex_imputation_runtime_changes
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Function
get_chr_x_hom_alt_cutoffsgets cutoffs for the fraction homozygous alternate genotypes on chromosome X in 'XY' and 'XX' samples.Changes to
infer_sex_karyotypeandget_sex_exprare to use this new function to determine cutoffs for the fraction of homozygous alternate genotypes (hom-alt/(hom-alt + het)) on chromosome X for for 'XX' and 'XY' karyotypes and then use them to determine final sex karyotypes.