Chromatographic Retention Time Alignment and Warping for Differential Analysis of LC-MS Data
We have recently developed CRAWDAD1, a software suite for label-free quantitation of LC-MS datasets. High- or Low- resolution (i.e. hybrid FTMS, or ITMS instruments) LC-MS scans are aligned in the retention time dimensions using dynamic time warping to create signals that are aligned in register. This allows the use of statistical tests to discover regions of differential abundance, which can be annotated using MS/MS peptide identifications.