Source code for hail.experimental.vcf_combiner.sparse_mt_utils

import hail as hl
from hail.expr.expressions import expr_array, expr_call, expr_int32
from hail.typecheck import typecheck


[docs]@typecheck(lgt=expr_call, la=expr_array(expr_int32)) def lgt_to_gt(lgt, la): """Transform LGT into GT using local alleles array. Parameters ---------- lgt : :class:`.CallExpression` LGT value. la : :class:`.ArrayExpression` Local alleles array. Returns ------- :class:`.CallExpression` Notes ----- This function assumes diploid genotypes. """ return hl.call(la[lgt[0]], la[lgt[1]])