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Table 4 SNV results for HG003 WGS, PacBio

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

  GATK DeepVariant HELLO
Precision Recall Errors Precision Recall Errors Precision Recall Errors
15x 0.996702 0.990138 43,719 0.998137 0.994880 23,218 0.998536 0.995063 21,286
30x 0.997521 0.995412 23,501 0.999092 0.998774 7101 0.999470 0.998794 5776
60x 0.997561 0.995716 22,357 0.999405 0.998650 6471 0.999636 0.998794 5223
  1. Values in bold indicate the best operating point for each tool for the corresponding metric