Skip to main content

Table 3 Indel 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 0.860057 0.858831 144,331 0.949591 0.947211 52,916 0.969548 0.962226 34,847
30x 0.891429 0.889284 112,742 0.980414 0.982694 19,026 0.990916 0.990159 9720
60x 0.897505 0.899685 104,621 0.991986 0.992145 8172 0.996676 0.996115 3702
  1. Values in bold indicate the best operating point for each tool for the corresponding metric