How To Install kraken on Kali Linux

Introduction

In this tutorial we learn how to install kraken on Kali Linux.

What is kraken

kraken is:

Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. Previous attempts by other bioinformatics software to accomplish this task have often used sequence alignment or machine learning techniques that were quite slow, leading to the development of less sensitive but much faster abundance estimation programs. Kraken aims to achieve high sensitivity and high speed by utilizing exact alignments of k-mers and a novel classification algorithm.

In its fastest mode of operation, for a simulated metagenome of 100 bp reads, Kraken processed over 4 million reads per minute on a single core, over 900 times faster than Megablast and over 11 times faster than the abundance estimation program MetaPhlAn. Kraken’s accuracy is comparable with Megablast, with slightly lower sensitivity and very high precision.

There are three methods to install kraken on Kali Linux. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install kraken Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install kraken

Install kraken Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install kraken

Install kraken Using aptitude

If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install kraken

How To Uninstall kraken on Kali Linux

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

sudo apt-get remove kraken

Uninstall kraken And Its Dependencies

To uninstall kraken and its dependencies that are no longer needed by Kali Linux, we can use the command below:

sudo apt-get -y autoremove kraken

Remove kraken Configurations and Data

To remove kraken configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge kraken

Remove kraken configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge kraken

Dependencies

kraken have the following dependencies:

• libc6
• libgcc-s1
• libgomp1
• libstdc++6
• jellyfish1

References

• kraken website

Summary

In this tutorial we learn how to install kraken package on Kali Linux using different package management tools: apt, apt-get and aptitude.