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EXIMS / EXploring Imaging Mass Spectrometry data

Presents an improved data analysis pipeline based on a new peak picking method for exploring imaging mass spectrometry data. EXIMS consists of five consecutive main steps: where the first step involves spectra preprocessing. Then, Sliding Window Normalization (SWN) is used to normalize the spectra and limit the influence of high intensity peaks. Third, image de-noising and contrast enhancement are used to improve the visualization of intensity images. Fourth, peak picking is performed by processing the individual intensity images. Finally, intensity images are clustered using the fuzzy cmeans clustering algorithm.


An open source web- and MATLAB-based software tool for both DESI and MALDI mass spectrometry imaging (MSI) that performs computationally intensive functions on a remote server. These functions include converting data from a variety of file formats into a common format easily manipulated in MATLAB, transforming time-series mass spectra into mass spectrometry images based on a probe spatial raster path, and multivariate analysis. OmniSpect provides an extensible suite of tools to meet the computational requirements needed for visualizing open and proprietary format MSI data.