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Table 3 Performance and runtimes on GCAT Illumina 150× exome sequencing data

From: SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations

Caller SNP calling (%) Indel calling (%) Time(s)
  Sensitivity Specificity T i /T v Sensitivity Specificity  
SNVSniffer(M1) 94.86 99.9982 2.223 50.48 99.9981 766
SNVSniffer(M2) 94.86 99.9983 2.235 50.94 99.9981 931
SNVSniffer(M3) 94.69 99.9982 2.251 50.94 99.9981 7597
SAMtools 97.57 99.9989 1.450 43.08 99.9987 12825
GATK 97.31 99.9982 1.920 95.28 99.9997 16568
FaSD 79.83 99.9922 1.123 17986
  1. Best results are highlighted in boldface