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Much improved chromatographic alignment and more comprehensive/reproducible feature generation by IonStar. (A) Performance of alignment algorithms used in IonStar (ChromAlign) and MaxQuant. SDs of peptide RT in 20 benchmark LC-MS runs were plotted as a function of RT before and after alignment. IonStar decreased RT variations >97% compared with <50% by MaxQuant. (B) Comparison of valid quantitative feature numbers generated by IonStar vs. a representative PPB method.
