Table 4

SNP calling results
Tools Log-odds ratio
5 100 200 300 400 500 600 700 800 900 1000 1000000
Bowtie 89479 24337 5082 2231 1076 648 426 281 0 0 0 1171
Bowtie2 200914 62178 10018 4200 2052 1156 767 537 0 0 0 2035
BWA 192050 52115 9028 4049 1894 1087 737 525 0 0 0 2067
SOAP2 174475 49302 8552 3824 1837 1030 704 508 0 0 0 1941
Novoalign 69798 17586 4061 1875 936 519 363 252 0 0 0 941
GSNAP 207920 69015 11416 4928 2482 1325 971 617 0 0 0 2602

SNP calling results when using the different tools. Each row represents a different tool while each column shows the number of SNPs detected with a log-odds ratio, which is a measure of the accuracy of the detected SNP, centered around the given values. The larger the log-odds ratio is, the more accurate the detected SNP becomes.

Hatem et al.

Hatem et al. BMC Bioinformatics 2013 14:184   doi:10.1186/1471-2105-14-184

Open Data