How To Install ragout on Kali Linux

Introduction

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

What is ragout

ragout is:

Ragout (Reference-Assisted Genome Ordering UTility) is a tool for chromosome-level scaffolding using multiple references. Given initial assembly fragments (contigs/scaffolds) and one or multiple related references (complete or draft), it produces a chromosome-scale assembly (as a set of scaffolds).

The approach is based on the analysis of genome rearrangements (like inversions or chromosomal translocations) between the input genomes and reconstructing the most parsimonious structure of the target genome.

Ragout now supports both small and large genomes (of mammalian scale and complexity). The assembly of highly polymorphic genomes is currently limited.

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

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

sudo apt-get update

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

sudo apt-get -y install ragout

Install ragout Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install ragout

Install ragout 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 ragout using aptitude by running the following command:

sudo aptitude -y install ragout

How To Uninstall ragout on Kali Linux

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

sudo apt-get remove ragout

Uninstall ragout And Its Dependencies

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

sudo apt-get -y autoremove ragout

Remove ragout Configurations and Data

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

sudo apt-get -y purge ragout

Remove ragout configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge ragout

Dependencies

ragout have the following dependencies:

• libc6
• libgcc-s1
• libstdc++6
• python3

References

• ragout website

Summary

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