Table 2

Sensitivity evaluation of the different tools
Bowtie Bowtie2 BWA SOAP2 MAQ RMAP GSNAP Novoalign mrsFAST
Mapped Expected 93.57 93.25 91.29 91.29 93.57 90.12 93.25 96.18 93.25
Actual 93.43 85.54 91.29 91.29 92.92 82.53 93.25 96.02 93.25
Error 0.73 0.03
Unmapped Expected 6.43 6.75 8.71 8.71 6.43 9.88 6.75 3.82 6.75
Actual 6.25 6.68 8.32 6.83 5.08 8.29 3.66 3.81 6.62
Error 1.73 1.25 1.5 2.97
Reported mapped 93.61 85.61 91.68 93.17 94.27 84.11 96.34 96.03 93.38
Reported correct 93.61 85.61 91.68 90.71 93.02 82.61 93.37 96.03 93.38

Evaluating the sensitivity of the tools on a data set of 1 million reads of length 70 generated by ART. The numbers are in percentage. The Reported mapped percentage is the total percentage of reads mapped by each tool. It is equal to Actual Mapped + (Expected Unmapped- Actual Unmapped) while Reported correct is the total number of correctly mapped reads.

Hatem et al.

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

Open Data