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Table 2 SNV results for HG003 WGS, Illumina

From: HELLO: improved neural network architectures and methodologies for small variant calling

 

GATK

DeepVariant

HELLO

Precision

Recall

Errors

Precision

Recall

Errors

Precision

Recall

Errors

20x

0.993089

0.987367

64,904

0.994664

0.990906

47,956

0.996837

0.990922

40,679

30x

0.992641

0.992285

50,157

0.996820

0.993576

31,928

0.998147

0.993197

28,776

40x

0.992119

0.993382

48,286

0.997644

0.994059

27,584

0.998533

0.993424

26,742

50x

0.991823

0.993881

47,633

0.998125

0.994017

26,125

0.998761

0.993395

26,082

  1. Values in bold indicate the best operating point for each tool for the corresponding metric
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BMC Bioinformatics

ISSN: 1471-2105

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