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Table 1 Comparison of the performance of three methods using 1000 Genomes Project data

From: HLAscan: genotyping of the HLA region using next-generation sequencing data

Methods No. of examined alleles Phase* Wrong
(2-digit)
Wrong
(4-digit)
Accuracy
(2-digit)
Accuracy
(4-digit)
HLAreporter1 110 13 2 2 98% 98%
PHLAT2 100 - 3 5 97% 95%
HLAscan3 110 - 0 0 100% 100%
  1. (1 Published [17]; 2 Published [15]; 3 In this study). * Multiple alleles were predicted due to ambiguous localization of sequence variants or unsolved phasing issues of various sequences