Motivation: We present the first tool for unbiased quality control of top-down proteomics datasets. Our tool can select high-quality top-down proteomics spectra, serve as a gateway for building top-down spectral libraries and, ultimately, improve identification rates.
Results: We demonstrate that a twofold rate increase for two E. coli top-down proteomics datasets may be achievable.
Availability And Implementation: http://patternlabforproteomics.org/tdgc, freely available for academic use.
Supplementary Information: Supplementary data are available at Bioinformatics online.
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