How To Install bandage on Debian 11

In this tutorial we learn how to install bandage on Debian 11. bandage is Bioinformatics Application for Navigating De novo Assembly Graphs Easily

Introduction

In this tutorial we learn how to install bandage on Debian 11.

What is bandage

bandage is:

Bandage is a GUI program that allows users to interact with the assembly graphs made by de novo assemblers such as Velvet, SPAdes, MEGAHIT and others.

De novo assembly graphs contain not only assembled contigs but also the connections between those contigs, which were previously not easily accessible. Bandage visualises assembly graphs, with connections, using graph layout algorithms. Nodes in the drawn graph, which represent contigs, can be automatically labelled with their ID, length or depth. Users can interact with the graph by moving, labelling and colouring nodes. Sequence information can also be extracted directly from the graph viewer. By displaying connections between contigs, Bandage opens up new possibilities for analysing and improving de novo assemblies that are not possible by looking at contigs alone.

More information and download links are on the Bandage website: rrwick.github.io/Bandage

The package is relevant to the field of genome assembly.

There are three methods to install bandage on Debian 11. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install bandage Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install bandage

Install bandage Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install bandage

Install bandage 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 Debian. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install bandage

How To Uninstall bandage on Debian 11

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

sudo apt-get remove bandage

Uninstall bandage And Its Dependencies

To uninstall bandage and its dependencies that are no longer needed by Debian 11, we can use the command below:

sudo apt-get -y autoremove bandage

Remove bandage Configurations and Data

To remove bandage configuration and data from Debian 11 we can use the following command:

sudo apt-get -y purge bandage

Remove bandage configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge bandage

Dependencies

bandage have the following dependencies:

References

Summary

In this tutorial we learn how to install bandage package on Debian 11 using different package management tools: apt, apt-get and aptitude.