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. 2013 Apr;24(4):646-9.
doi: 10.1007/s13361-012-0572-y. Epub 2013 Feb 26.

omniSpect: an open MATLAB-based tool for visualization and analysis of matrix-assisted laser desorption/ionization and desorption electrospray ionization mass spectrometry images

R Mitchell Parry  1 , Asiri S Galhena, Chaminda M Gamage, Rachel V Bennett, May D Wang, Facundo M Fernández
Affiliations

omniSpect: an open MATLAB-based tool for visualization and analysis of matrix-assisted laser desorption/ionization and desorption electrospray ionization mass spectrometry images

R Mitchell Parry et al. J Am Soc Mass Spectrom. 2013 Apr.

Abstract

We present omniSpect, an open source web- and MATLAB-based software tool for both desorption electrospray ionization (DESI) and matrix-assisted laser desorption ionization (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.

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Figures

Figure 1
Figure 1
Data conversion and analysis workflow. Rectangles, rounded rectangles, and ellipses, represent open source Matlab functions, data files, and user input, respectively. The objects at the bottom represent the output documents.
Figure 2
Figure 2
OmniSpect output for a rat brain tissue sample imaged by DESI. Selected ions (m/z 798 (top left), 772 (top right), and 826 (medium left)) are plotted individually (output type "A"), a composite (medium right) and selected ion sum (bottom left) images are also generated (output type "B").
Figure 3
Figure 3
NMF omniSpect output for a rat brain imaged by DESI. Component images (left) are generated based on the number of components selected in the lower left input box. The corresponding spectrum for each component is shown on the right.
See this image and copyright information in PMC

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