Fig. 1
From: A tandem simulation framework for predicting mapping quality
CSED for various lengths. Cumulative squared-error difference plot from running Qtip and Bowtie 2 on Mason-simulated Illumina-like samples of various lengths. Each sample consists of 4 million reads or pairs. The horizontal axis indicates the cumulative number of reads/ends passing the threshold, with the left-hand extreme corresponding to a high mapping-quality threshold and the right-hand extreme corresponding to a low threshold. Results for unpaired samples are on top, paired on bottom. Bowtie 2 is run in its (default) end-to-end alignment mode for the left-hand plots, and in local alignment mode for the right-hand plots. CSED cumulative squared-error difference