How To Install progressivemauve on Debian 12
Introduction
In this tutorial we learn how to install progressivemauve on Debian 12.
What is progressivemauve
progressivemauve is:
The mauveAligner and progressiveMauve alignment algorithms have been implemented as command-line programs included with the downloadable Mauve software. When run from the command-line, these programs provide options not yet available in the graphical interface.
Mauve is a system for efficiently constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion. Multiple genome alignment provides a basis for research into comparative genomics and the study of evolutionary dynamics. Aligning whole genomes is a fundamentally different problem than aligning short sequences.
Mauve has been developed with the idea that a multiple genome aligner should require only modest computational resources. It employs algorithmic techniques that scale well in the amount of sequence being aligned. For example, a pair of Y. pestis genomes can be aligned in under a minute, while a group of 9 divergent Enterobacterial genomes can be aligned in a few hours.
Mauve computes and interactively visualizes genome sequence comparisons. Using FastA or GenBank sequence data, Mauve constructs multiple genome alignments that identify large-scale rearrangement, gene gain, gene loss, indels, and nucleotide substutition.
Mauve is developed at the University of Wisconsin.
There are three methods to install progressivemauve on Debian 12. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install progressivemauve Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install progressivemauve using apt-get by running the following command:
sudo apt-get -y install progressivemauve
Install progressivemauve Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install progressivemauve using apt by running the following command:
sudo apt -y install progressivemauve
Install progressivemauve 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 Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install progressivemauve using aptitude by running the following command:
sudo aptitude -y install progressivemauve
How To Uninstall progressivemauve on Debian 12
To uninstall only the progressivemauve package we can use the following command:
sudo apt-get remove progressivemauve
Uninstall progressivemauve And Its Dependencies
To uninstall progressivemauve and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove progressivemauve
Remove progressivemauve Configurations and Data
To remove progressivemauve configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge progressivemauve
Remove progressivemauve configuration, data, and all of its dependencies
We can use the following command to remove progressivemauve configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge progressivemauve
Dependencies
progressivemauve have the following dependencies:
- libboost-filesystem1.74.0
- libboost-iostreams1.74.0
- libboost-program-options1.74.0
- libc6
- libgcc-s1
- libgenome0
- libmems1
- libstdc++6
References
Summary
In this tutorial we learn how to install progressivemauve package on Debian 12 using different package management tools: apt, apt-get and aptitude.
