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Table 14 SNV results for HG001 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 0.996457 0.994914 26,242 0.997263 0.996855 17,898 0.998376 0.997280 13,217
30x 0.997000 0.999002 12,188 0.998809 0.999297 5767 0.999292 0.999378 4048
  1. Values in bold indicate the best operating point for each tool for the corresponding metric