Oculus provides a speedup that correlates linearly with % unique reads. % Runtime represents the ratio of the runtime of Oculus, wrapping each aligner, to the runtime of the aligner by itself (in CPU time). To best demonstrate fractional benefit, Bowtie and BWA results are combined in this graph – individual run data is available in Additional file 1: Table S1. Oculus provided a speed benefit for points below the dashed line. These datasets span a variety of sequencing types, read number, and read length, which we hypothesized all contribute to the % unique reads for a sequencing run. See Additional file 1: Table S1 for individual sequencing run characteristics such as read number and read length.
Veeneman et al. BMC Bioinformatics 2012 13:297 doi:10.1186/1471-2105-13-297