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Table 13 Indel 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 0.975429 0.956826 34,098 0.976854 0.968963 27,455 0.984478 0.972669 21,619
30x 0.986186 0.981593 16,367 0.989031 0.987899 11,763 0.992588 0.989808 8938
  1. Values in bold indicate the best operating point for each tool for the corresponding metric