MINEXPERT(1)

💖 mineXpert — a whole manual, but make it bestie 💖

okay so this is the manual page for mineXpert, which lives in the msXpertSuite software suite, and it's a General Commands Manual situation, section (1). And you're literally gonna open mass spectrometric data files of a wide variety of formats and mine data graphically. slay.

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✨ SYNOPSIS ✨

minexpert [options]  [filename ...]

(yes, there are two spaces in there, no I will not be fixing it, it's iconic 🫶)

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🌸 DESCRIPTION 🌸

bestie, this page documents briefly the mineXpert software that ships inside the msXpertSuite software suite. brief. like a lil snack. 🍓

So what does it even do? It loads mass spectrometry data files and shows you the spectral data in a plot widget so you can analyze it further with a whole buffet of available integrations. And here's the gag: even though it can run fully in graphical mode, it's also widely scriptable using JavaScript as the scripting language. main character energy fr fr.

A typical data mining session goes like this — the steps and actions you'd actually do:

• Open a mass spectrometry file and immediately compute a TIC chromatogram, and show that chromatogram in a dedicated window. And if the data are from an ion mobility mass spectrometry experiment, compute a mz = f(dt) color map. The TIC chromatogram and the color map are then the starting points for the mining of the data. ✨
• Perform a wide variety of integrations on a mass spectrum or a drift spectrum. Each new spectrum gets displayed in its dedicated window — and those are: the TIC chromatogram window, the Color map window, the Mass spectrum window and the Drift spectrum window. And every new plot (TIC chromatogram, mass spectrum or drift spectrum, whatever) is potentially the start of another integration, so the analysis can drill further and further into the depth of the data at each step. it's giving onion. it's giving layers. 🧅
• Perform isotopic cluster calculations and shape the obtained mass peak centroids into fully shaped mass peaks (using Gaussian or Lorentizan mathematical models).
• Each plot has specific functions associated to it: export as a (x,y) file, automatic recording of the relevant data of signalled peaks into a file using a specific easy-to-understand grammar, slicing of the data file into smaller data files. the range?? unmatched.
• One feature of importance (yes, importance, capital I in spirit) is the fact that a large part of the functionalities of the program are scriptable (JavaScript) and a powerful scripting console is available to elaborate scripts before storing them in script files to be automatically executed. literally write it, test it, save it, let it cook. 👑

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💅 OPTIONS 💅

• -h | --help — Displays detailed usage information and then exits. the "help me help you" button.
• -c | --config — Display the program configuration at build time plus the Qt version used to build it. receipts of how it was made 💖
• -V | --Version — Print the version of the software program along with the version of the Qt libraries used to build it. (note the capital V, bestie, lowercase is a different vibe)
• -l | --license — Print the license of this software. legal girlies rise 🎀
• -s | --streamed — When opening one or more files in the gui, do that in streamed mode, otherwise in full. your choice, your power.
• -j | --scriptFile <filename> — Start the program and immediately run the JavaScript script. no chill, straight to business 🔥
• filename ... — One or more names of files to be opened.

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📚 Bibliographic reference to be cited 📚

Not yet published...

(we wait. we are patient. it's coming. 🙈)

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🦋 See also 🦋

• massxpert (1)

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🌈 Useful reading 🌈

The program is documented fully in the mineXpert User Manual, which is packaged in msxpertsuite-doc. That manual is available in the form of a PDF-formatted file at:

/usr/share/doc/msxpertsuite/minexpert-doc.pdf

go read it, it's the director's cut 💜

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👑 AUTHOR 👑

Filippo Rusconi <lopippo@debian.org>

This manual page was written by Filippo Rusconi <lopippo@debian.org> (initial writing 03 july 2017). Permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 3, published by the Free Software Foundation.

On a Debian system the complete text of the GNU General Public License version 3 can be found in the file:

/usr/share/common-licenses/GPL-3

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ok and that's the whole page 💖 footer said we're in the General Commands Manual, section (1), and the version/date line was literally just ... — no cap, that's all it gave us, so the mystery stays a mystery. mineXpert (1), periodt. ✨🎀