Still Processing Tons of Data with QuickView
This slide show is about data analysis for photonic Doppler velocimetry.
46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
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Mass Spectrometry Imaging Quick View
MSI QuickView is a software designed to provide a graphical user interface (GUI) for greatly speeding up experimental feedback (visualization and analysis) of mass spectrometry imaging (MSI or IMS) data during data acquisition. Often different software loads the entire data set, i.e., all lines of data into computer memory (RAM). This causes out of memory errors for larger datasets. We solved this in MSI QuickView by reading in the data one line at a time. Only the required information (e.g. the final pixel values for that line of heat map) is maintained in RAM. Interim analysis options include the mean intensity vs. m/z spectrum, intensity vs. time spectrums for up to 6 different m/z values or ranges chosen by the user and heat maps for each line. This assists in validating the usefulness of the particular experiment after scanning the first few lines. In addition, the tool facilitates further processing and analysis of the massive datasets. The user can manually pick different m/z values, time ranges, scroll through the spectra for any line in the data without having to load it in manually, save multiple images, change aspect ratios for the heat maps, and process the heat maps in multiple ways including overlaying images at different m/z values, displaying up to 9 different heat maps, alignment of scans along each line etc. There is no manipulation of the data required by the user to visualize the data.
Carson, JamesP.↗
Enabling Re-executable Workflows with Near-realtime Visualization, Provenance Capture and Advanced Querying for Mass Spectrometry Data
Mass spectrometry imaging (MSI) enables simultaneous spatially-resolved analysis of numerous ionizable molecules on a sample surface. The current analysis pipeline involves analyzing the data coming off the instrument using a tool called MSI Quickview and saving the results onto a storage drive before moving on to the next experiment. While this works well for single datasets, there is a demand for more scalable, flexible workflows that are re-executable across datasets, support extensive querying and ease collaboration. Here, we present a workflow that moves data analysis from a mere desktop application for single experiments to a more general capability
Re-executable workflow↗
MPDV QUICKVIEW
QuickView is written in MATLAB® and runs as a stand-alone widget application. The application is typically deployed as a MATLAB executable or an application (for Mac OS X). The source code for stand-alone applications consists either entirely of MATLAB files or some combination of MATLAB files and MEX-files; as such, the end user must use the MATLAB Compiler Runtime (MCR) or have a full version of MATLAB with associated toolboxes. This program has been tested on both Microsoft Windows and MAC OS X. QuickView provides a unique capability for viewing multiple PDV data records. The user can select up to 40 .dig files and view them as spectrograms, eight per page. In addition to basic image exploration, i.e., zooming, panning, and pixel information, the user can change contrast, spectrogram parameters, save figures, and extract velocity profiles from the spectrograms.
Diaz, Abel↗
QuickView PRO, QVPRO
QuickView PRO (QVPRO) is similar to QuickView but designed to focus on analysis. QuickView was designed for visualization only, adding analysis capabilities later. This made QuickView complicated when using it as an analysis tool. QVPRO uses the same analysis algorithms in a more streamlined workflow and has a user friendly GUI. QVPRO provides the unique capability of analyzing Photonic Doppler Velocimetry (PDV) data records from different PDV systems and still allows for processing hundreds of PDV data records in a practical manner.
Diaz, AbelB↗
Release Notes, QuickView Software
These software release notes for QuickView Software will be used as an appendix in a user manual (which will also be STIPped when completed).
97 MATHEMATICS AND COMPUTING↗