How To Install centrifuge on Ubuntu 22.04

In this tutorial we learn how to install centrifuge on Ubuntu 22.04. centrifuge is rapid and memory-efficient system for classification of DNA sequences

Introduction

In this tutorial we learn how to install centrifuge on Ubuntu 22.04.

What is centrifuge

centrifuge is:

Centrifuge is a very rapid and memory-efficient system for the classification of DNA sequences from microbial samples, with better sensitivity than and comparable accuracy to other leading systems. The system uses a novel indexing scheme based on the Burrows-Wheeler transform (BWT) and the Ferragina-Manzini (FM) index, optimized specifically for the metagenomic classification problem. Centrifuge requires a relatively small index (e.g., 4.3 GB for ~4,100 bacterial genomes) yet provides very fast classification speed, allowing it to process a typical DNA sequencing run within an hour. Together these advances enable timely and accurate analysis of large metagenomics data sets on conventional desktop computers.

There are three methods to install centrifuge 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 centrifuge Using apt-get

Update apt database with apt-get using the following command.

sudo apt-get update

After updating apt database, We can install centrifuge using apt-get by running the following command:

sudo apt-get -y install centrifuge

Install centrifuge Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install centrifuge using apt by running the following command:

sudo apt -y install centrifuge

Install centrifuge 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 centrifuge using aptitude by running the following command:

sudo aptitude -y install centrifuge

How To Uninstall centrifuge on Ubuntu 22.04

To uninstall only the centrifuge package we can use the following command:

sudo apt-get remove centrifuge

Uninstall centrifuge And Its Dependencies

To uninstall centrifuge and its dependencies that are no longer needed by Ubuntu 22.04, we can use the command below:

sudo apt-get -y autoremove centrifuge

Remove centrifuge Configurations and Data

To remove centrifuge configuration and data from Ubuntu 22.04 we can use the following command:

sudo apt-get -y purge centrifuge

Remove centrifuge configuration, data, and all of its dependencies

We can use the following command to remove centrifuge configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge centrifuge

References

Summary

In this tutorial we learn how to install centrifuge package on Ubuntu 22.04 using different package management tools: apt, apt-get and aptitude.