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OptiType

Precision HLA typing from next-generation sequencing data

https://github.com/FRED-2/OptiType

Novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate 4-digit HLA genotyping predictions from NGS data by simultaneously selecting all major and minor HLA Class I alleles.

File search patterns​

optitype:
  contents: "\tA1\tA2\tB1\tB2\tC1\tC2\tReads\tObjective"
  num_lines: 1