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Table 7 Indel 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 0.974686 0.953333 993 0.978402 0.966126 769 0.985003 0.968089 648
30x 0.987363 0.977466 488 0.990523 0.983499 361 0.993741 0.983717 312
40x 0.989344 0.983863 373 0.994353 0.988878 233 0.995318 0.987425 239
50x 0.991753 0.986843 298 0.995205 0.990332 201 0.996740 0.989460 191
  1. Values in bold indicate the best operating point for each tool for the corresponding metric