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Table 1 Comparison of the present method with other methods

From: A new approach for detecting low-level mutations in next-generation sequence data

Method Parts of the read used Thresholds Expected haplotype number False positives False negatives Reference
CRISP All -4; -1,000; -1,000 20 5 0 [15]
  All -4; -1,000; -1,000 50 4 0  
SPLINTER First 12 bp -1.301 20 2 12 [17]
  First 70 bp -6.6 20 123 0  
  First 12 bp -1.301 50 2 12  
  First 70 bp -6.6 50 634 0  
MAQ All 60 20 848 3 [31]
  All 60 50 1,130 3  
  All 200 20 0 6  
  All 200 50 1 8  
VarScan All 1e-10 NA 190 0 [30]
Poisson All 10 NA 0 0 Our method
Fisher exact All 10 NA 0 0 Our method
Empirical All 10 NA 0 0 Our method
  1. NA, not applicable.