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Table 8 SNV results for HG003 chr21-22, 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 0.991290 0.985697 1975 0.991890 0.989302 1616 0.995664 0.989523 1272
30x 0.990683 0.991279 1552 0.994724 0.992616 1088 0.997117 0.992349 905
40x 0.989799 0.992535 1522 0.996386 0.993291 887 0.997759 0.992721 818
50x 0.989585 0.992988 1502 0.996747 0.993453 842 0.998167 0.993058 754
  1. Values in bold indicate the best operating point for each tool for the corresponding metric