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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