Impact of base-calling calibration method on read-mapping. Barplots of average read counts per lane with and without phi X calibration, for each of the four biological sample (Brain, UHR) and flow-cell (F2, F3) combinations. Reads are classified into three nested categories: purity-filtered perfectly matching reads (FPM); purity-filtered reads with either 0, 1, or 2 mismatches (FMM); unfiltered reads with either 0, 1, or 2 mismatches (MM).
Bullard et al. BMC Bioinformatics 2010 11:94 doi:10.1186/1471-2105-11-94