How To Install mauve-aligner on Ubuntu 18.04
Introduction
In this tutorial we learn how to install mauve-aligner on Ubuntu 18.04.
What is mauve-aligner
mauve-aligner is:
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 mauve-aligner 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 mauve-aligner Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install mauve-aligner using apt-get by running the following command:
sudo apt-get -y install mauve-aligner
Install mauve-aligner Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install mauve-aligner using apt by running the following command:
sudo apt -y install mauve-aligner
Install mauve-aligner 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 mauve-aligner using aptitude by running the following command:
sudo aptitude -y install mauve-aligner
How To Uninstall mauve-aligner on Ubuntu 18.04
To uninstall only the mauve-aligner package we can use the following command:
sudo apt-get remove mauve-aligner
Uninstall mauve-aligner And Its Dependencies
To uninstall mauve-aligner and its dependencies that are no longer needed by Ubuntu 18.04, we can use the command below:
sudo apt-get -y autoremove mauve-aligner
Remove mauve-aligner Configurations and Data
To remove mauve-aligner configuration and data from Ubuntu 18.04 we can use the following command:
sudo apt-get -y purge mauve-aligner
Remove mauve-aligner configuration, data, and all of its dependencies
We can use the following command to remove mauve-aligner configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge mauve-aligner
References
Summary
In this tutorial we learn how to install mauve-aligner package on Ubuntu 18.04 using different package management tools: apt, apt-get and aptitude.
