How To Install msxpertsuite on Ubuntu 18.04
Introduction
In this tutorial we learn how to install msxpertsuite on Ubuntu 18.04.
What is msxpertsuite
msxpertsuite is:
msXpertSuite is a collection of programs to simulate and analyse mass spectrometric data obtained on linear (bio-)polymers. It is the successor of GNU polyXmass, first, and of massXpert, second.
Three programs, massXpert, mineXpert and convXpert allow the following:
massXpert:
- making brand new polymer chemistry definitions;
- using the definitions to perform easy calculations in a desktop calculator-like manner;
- performing sophisticated polymer sequence editing and simulations;
- perform m/z list comparisons;
Chemical simulations encompass cleavage (either chemical or enzymatic), gas-phase fragmentations, chemical modification of any monomer in the polymer sequence, cross-linking of monomers in the sequence, arbitrary mass searches, calculation of the isotopic pattern…
mineXpert:
- Open mass spectrometry data files (mzML, mzXML, asc, xy, …);
- Calculate and display the TIC chromatogram;
- For mobility data, calculate and display a mz=f(dt) color map;
- Integrate the data from the TIC chromatogram or color map
- to mass spectrum;
- to drift spectrum;
- back to TIC chromatogram (XIC chromatogram);
- reverse operations;
- Export the data to text files;
- Slice a big initial file into smaller chunks for easier mining;
- Define how mining activity is recorded on disk for later use;
- Convert mzML files into a private (albeit open) mass spectrometry format that allows better performance (based on SQLite3).
This package contains the binary programs.
There are three methods to install msxpertsuite on Ubuntu 18.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install msxpertsuite Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install msxpertsuite using apt-get by running the following command:
sudo apt-get -y install msxpertsuite
Install msxpertsuite Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install msxpertsuite using apt by running the following command:
sudo apt -y install msxpertsuite
Install msxpertsuite Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install msxpertsuite using aptitude by running the following command:
sudo aptitude -y install msxpertsuite
How To Uninstall msxpertsuite on Ubuntu 18.04
To uninstall only the msxpertsuite package we can use the following command:
sudo apt-get remove msxpertsuite
Uninstall msxpertsuite And Its Dependencies
To uninstall msxpertsuite and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove msxpertsuite
Remove msxpertsuite Configurations and Data
To remove msxpertsuite configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge msxpertsuite
Remove msxpertsuite configuration, data, and all of its dependencies
We can use the following command to remove msxpertsuite configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge msxpertsuite
References
Summary
In this tutorial we learn how to install msxpertsuite package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
