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EigenMS utilizes SVD to detect bias trends in the data and eliminates them. EigenMS eliminates effects from known and unknown factors and can be utilized for any -omic platform.
We have shown its utility in LC-MS/MS and metabolomics in the following two papers:
1) PMID: 19602524. "Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition".