How To Install changeo on Ubuntu 22.04

In this tutorial we learn how to install changeo on Ubuntu 22.04. changeo is Repertoire clonal assignment toolkit (Python 3)

Introduction

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

What is changeo

changeo is:

Change-O is a collection of tools for processing the output of V(D)J alignment tools, assigning clonal clusters to immunoglobulin (Ig) sequences, and reconstructing germline sequences.

Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of Ig repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. Change-O is a suite of utilities to facilitate advanced analysis of Ig and TCR sequences following germline segment assignment. Change-O handles output from IMGT/HighV-QUEST and IgBLAST, and provides a wide variety of clustering methods for assigning clonal groups to Ig sequences. Record sorting, grouping, and various database manipulation operations are also included.

This package installs the library for Python 3.

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

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

sudo apt-get update

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

sudo apt-get -y install changeo

Install changeo Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install changeo

Install changeo 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 changeo using aptitude by running the following command:

sudo aptitude -y install changeo

How To Uninstall changeo on Ubuntu 22.04

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

sudo apt-get remove changeo

Uninstall changeo And Its Dependencies

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

sudo apt-get -y autoremove changeo

Remove changeo Configurations and Data

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

sudo apt-get -y purge changeo

Remove changeo configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge changeo

References

Summary

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