How To Install khmer on Ubuntu 22.04
Introduction
In this tutorial we learn how to install khmer on Ubuntu 22.04.
What is khmer
khmer is:
khmer is a library and suite of command line tools for working with DNA sequence. It is primarily aimed at short-read sequencing data such as that produced by the Illumina platform. khmer takes a k-mer-centric approach to sequence analysis, hence the name.
There are three methods to install khmer on Ubuntu 22.04. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install khmer Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install khmer using apt-get by running the following command:
sudo apt-get -y install khmer
Install khmer Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install khmer using apt by running the following command:
sudo apt -y install khmer
Install khmer 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 khmer using aptitude by running the following command:
sudo aptitude -y install khmer
How To Uninstall khmer on Ubuntu 22.04
To uninstall only the khmer package we can use the following command:
sudo apt-get remove khmer
Uninstall khmer And Its Dependencies
To uninstall khmer and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:
sudo apt-get -y autoremove khmer
Remove khmer Configurations and Data
To remove khmer configuration and data from Ubuntu 22.04 we can use the following command:
sudo apt-get -y purge khmer
Remove khmer configuration, data, and all of its dependencies
We can use the following command to remove khmer configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge khmer
References
Summary
In this tutorial we learn how to install khmer package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.
